NAU publications by SHERC
Faculty & staff publications
NAU faculty and staff have the opportunity to publish their findings and knowledge as authors. SHERC has many researchers that have been cited multiple times in major publications for their great work. The Southwest Health Equity Research Collaborative has accumulated all faculty publications into one, easy to navigate database.
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Lane, Taylor S; Sonderegger, Derek L; Holeva-Eklund, Whitney M; Brazendale, Keith; K.Behrens, Timothy; Howdeshell, Hiliary; Walka, Sherry; R.Cook, Jon; Heer, Hendrik D.de Seasonal Variability in Weight Gain Among American Indian, Black, White, and Hispanic Children: A 3.5-Year Study Journal Article American Journal of Preventive Medicine, 60 (5), pp. 658-665, 2021. @article{Lane2021, title = {Seasonal Variability in Weight Gain Among American Indian, Black, White, and Hispanic Children: A 3.5-Year Study}, author = {Taylor S. Lane and Derek L. Sonderegger and Whitney M. Holeva-Eklund and Keith Brazendale and Timothy K.Behrens and Hiliary Howdeshell and Sherry Walka and Jon R.Cook and Hendrik D.de Heer}, url = {https://doi.org/10.1016/j.amepre.2020.12.010}, doi = {10.1016/j.amepre.2020.12.010}, year = {2021}, date = {2021-05-01}, journal = {American Journal of Preventive Medicine}, volume = {60}, number = {5}, pages = {658-665}, abstract = {Several studies have reported that children gain more weight during the summer season. Despite high obesity rates, little research has included American Indian/Alaskan Native children, and few studies have been longitudinal. This observational study examines seasonal weight variability over 3.5 years among ethnically diverse children, including 2,184 American Indian/Alaskan Native children. Children gained significantly more weight during the summer season, with the strongest effects for children who were obese. American Indian/Alaskan Native children had less seasonal variability than White children, but higher overall obesity rates. These data underscore summer as a critical time for obesity prevention among children who are overweight/obese but suggest that seasonal patterns may vary for American Indian/Alaskan Native children.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Several studies have reported that children gain more weight during the summer season. Despite high obesity rates, little research has included American Indian/Alaskan Native children, and few studies have been longitudinal. This observational study examines seasonal weight variability over 3.5 years among ethnically diverse children, including 2,184 American Indian/Alaskan Native children. Children gained significantly more weight during the summer season, with the strongest effects for children who were obese. American Indian/Alaskan Native children had less seasonal variability than White children, but higher overall obesity rates. These data underscore summer as a critical time for obesity prevention among children who are overweight/obese but suggest that seasonal patterns may vary for American Indian/Alaskan Native children. |
Park, Daesik; Propper, Catherine R; Wang, Guangning; Salanga, Matthew C Ecotoxicology, 30 , pp. 711–718, 2021. @article{Park2021, title = {Synonymous single nucleotide polymorphism in arsenic (+3) methyltransferase of the Western mosquitofish (Gambusia affinis) and its gene expression among field populations}, author = {Daesik Park and Catherine R Propper and Guangning Wang and Matthew C Salanga }, url = {https://doi.org/10.1007/s10646-021-02376-8}, doi = {10.1007/s10646-021-02376-8}, year = {2021}, date = {2021-04-03}, journal = {Ecotoxicology}, volume = {30}, pages = {711–718}, abstract = {Naturally occurring arsenic is toxic at extremely low concentrations, yet some species persist even in high arsenic environments. We wanted to test if these species show evidence of evolution associated with arsenic exposure. To do this, we compared allelic variation across 872 coding nucleotides of arsenic (+3) methyltransferase (as3mt) and whole fish as3mt gene expression from three field populations of Gambusia affinis, from water sources containing low (1.9 ppb), medium-low (3.3 ppb), and high (15.7 ppb) levels of arsenic. The high arsenic site exceeds the US EPA's Maximum Contamination Level for drinking water. Medium-low and high populations exhibited homozygosity, and no sequence variation across all animals sampled. Eleven of 24 fish examined (45.8%) in the low arsenic population harbored synonymous single nucleotide polymorphisms (SNPs) in exons 4 and/or 10. SNP presence in the low arsenic population was not associated with differences in as3mt transcript levels compared to fish from the medium-low site, where SNPs were noted; however, as3mt expression in fish from the high arsenic concentration site was significantly lower than the other two sites. Low sequence variation in fish populations from sites with medium-low and high arsenic concentrations suggests greater selective pressure on this allele, while higher variation in the low population suggests a relaxed selection. Our results suggest gene regulation associated with arsenic detoxification may play a more crucial role in influencing responses to arsenic than polymorphic gene sequence. Understanding microevolutionary processes to various contaminants require the evaluation of multiple populations across a wide range of pollution exposures.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Naturally occurring arsenic is toxic at extremely low concentrations, yet some species persist even in high arsenic environments. We wanted to test if these species show evidence of evolution associated with arsenic exposure. To do this, we compared allelic variation across 872 coding nucleotides of arsenic (+3) methyltransferase (as3mt) and whole fish as3mt gene expression from three field populations of Gambusia affinis, from water sources containing low (1.9 ppb), medium-low (3.3 ppb), and high (15.7 ppb) levels of arsenic. The high arsenic site exceeds the US EPA's Maximum Contamination Level for drinking water. Medium-low and high populations exhibited homozygosity, and no sequence variation across all animals sampled. Eleven of 24 fish examined (45.8%) in the low arsenic population harbored synonymous single nucleotide polymorphisms (SNPs) in exons 4 and/or 10. SNP presence in the low arsenic population was not associated with differences in as3mt transcript levels compared to fish from the medium-low site, where SNPs were noted; however, as3mt expression in fish from the high arsenic concentration site was significantly lower than the other two sites. Low sequence variation in fish populations from sites with medium-low and high arsenic concentrations suggests greater selective pressure on this allele, while higher variation in the low population suggests a relaxed selection. Our results suggest gene regulation associated with arsenic detoxification may play a more crucial role in influencing responses to arsenic than polymorphic gene sequence. Understanding microevolutionary processes to various contaminants require the evaluation of multiple populations across a wide range of pollution exposures. |
Mousavi, Sajad; Afghah, Fatemeh; Khadem, Fatemeh; Acharya, Rajendra U ECG Language processing (ELP): A new technique to analyze ECG signals Journal Article Computer Methods and Programs in Biomedicine, 202 , 2021, ISBN: 105959. @article{Mousavi2021, title = {ECG Language processing (ELP): A new technique to analyze ECG signals}, author = {Sajad Mousavi and Fatemeh Afghah and Fatemeh Khadem and U. Rajendra Acharya}, url = {https://doi.org/10.1016/j.cmpb.2021.105959}, doi = {10.1016/j.cmpb.2021.105959}, isbn = {105959}, year = {2021}, date = {2021-04-01}, journal = {Computer Methods and Programs in Biomedicine}, volume = {202}, abstract = {A language is constructed of a finite/infinite set of sentences composing of words. Similar to natural languages, the Electrocardiogram (ECG) signal, the most common noninvasive tool to study the functionality of the heart and diagnose several abnormal arrhythmias, is made up of sequences of three or four distinct waves, including the P-wave, QRS complex, T-wave, and U-wave. An ECG signal may contain several different varieties of each wave (e.g., the QRS complex can have various appearances). For this reason, the ECG signal is a sequence of heartbeats similar to sentences in natural languages) and each heartbeat is composed of a set of waves (similar to words in a sentence) of different morphologies. Experimental results on three databases (i.e., PhysioNet’s MIT-BIH, MIT-BIH AFIB, and PhysioNet Challenge 2017 AFIB Dataset databases) reveal that the proposed approach as a general idea can be applied to a variety of biomedical applications and can achieve remarkable performance.}, keywords = {}, pubstate = {published}, tppubtype = {article} } A language is constructed of a finite/infinite set of sentences composing of words. Similar to natural languages, the Electrocardiogram (ECG) signal, the most common noninvasive tool to study the functionality of the heart and diagnose several abnormal arrhythmias, is made up of sequences of three or four distinct waves, including the P-wave, QRS complex, T-wave, and U-wave. An ECG signal may contain several different varieties of each wave (e.g., the QRS complex can have various appearances). For this reason, the ECG signal is a sequence of heartbeats similar to sentences in natural languages) and each heartbeat is composed of a set of waves (similar to words in a sentence) of different morphologies. Experimental results on three databases (i.e., PhysioNet’s MIT-BIH, MIT-BIH AFIB, and PhysioNet Challenge 2017 AFIB Dataset databases) reveal that the proposed approach as a general idea can be applied to a variety of biomedical applications and can achieve remarkable performance. |
Evans, Linnea; Engelman, Michal; Mikulas, Alex; Malecki, Kristen How are social determinants of health integrated into epigenetic research? A systematic review Journal Article Social Science & Medicine, 273 , 2021, ISBN: 113738. @article{Evans2021, title = {How are social determinants of health integrated into epigenetic research? A systematic review}, author = {Linnea Evans and Michal Engelman and Alex Mikulas and Kristen Malecki}, url = {https://doi.org/10.1016/j.socscimed.2021.113738}, doi = {10.1016/j.socscimed.2021.113738}, isbn = {113738}, year = {2021}, date = {2021-03-01}, journal = {Social Science & Medicine}, volume = {273}, abstract = {Future social epigenetics research should prioritize larger, more diverse and representative population-based samples and employ the SDOH framework to better inform the conceptualization of research questions and interpretation of findings. In particular, the simplified depiction of race/ethnicity, gender, and socioeconomic status as individual-level characteristics should be updated with an explicit acknowledgement that these characteristics are more accurately interpreted as cues used by society to differentiate subpopulations. Social epigenetics research can then more clearly elucidate the biological consequences of these social exposures for patterns of gene expression, subsequent disease etiology, and health inequities.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Future social epigenetics research should prioritize larger, more diverse and representative population-based samples and employ the SDOH framework to better inform the conceptualization of research questions and interpretation of findings. In particular, the simplified depiction of race/ethnicity, gender, and socioeconomic status as individual-level characteristics should be updated with an explicit acknowledgement that these characteristics are more accurately interpreted as cues used by society to differentiate subpopulations. Social epigenetics research can then more clearly elucidate the biological consequences of these social exposures for patterns of gene expression, subsequent disease etiology, and health inequities. |
Fotoohinasab, Atiyeh; Hocking, Toby; Afghah, Fatemeh A greedy graph search algorithm based on changepoint analysis for automatic QRS complex detection Journal Article Computers in Biology and Medicine, 130 , 2021, ISBN: 104208. @article{Fotoohinasab2021, title = {A greedy graph search algorithm based on changepoint analysis for automatic QRS complex detection}, author = {Atiyeh Fotoohinasab and Toby Hocking and Fatemeh Afghah}, url = {https://doi.org/10.1016/j.compbiomed.2021.104208}, doi = {10.1016/j.compbiomed.2021.104208}, isbn = {104208}, year = {2021}, date = {2021-03-01}, journal = {Computers in Biology and Medicine}, volume = {130}, abstract = {The electrocardiogram (ECG) signal is the most widely used non-invasive tool for the investigation of cardiovascular diseases. Automatic delineation of ECG fiducial points, in particular the R-peak, serves as the basis for ECG processing and analysis. This study proposes a new method of ECG signal analysis by introducing a new class of graphical models based on optimal changepoint detection models, named the graph-constrained changepoint detection (GCCD) model. The GCCD model treats fiducial points delineation in the non-stationary ECG signal as a changepoint detection problem. The proposed model exploits the sparsity of changepoints to detect abrupt changes within the ECG signal; thereby, the R-peak detection task can be relaxed from any preprocessing step. In this novel approach, prior biological knowledge about the expected sequence of changes is incorporated into the model using the constraint graph, which can be defined manually or automatically. First, we define the constraint graph manually; then, we present a graph learning algorithm that can search for an optimal graph in a greedy scheme. Finally, we compare the manually defined graphs and learned graphs in terms of graph structure and detection accuracy. We evaluate the performance of the algorithm using the MIT-BIH Arrhythmia Database. The proposed model achieves an overall sensitivity of 99.64%, positive predictivity of 99.71%, and detection error rate of 0.19 for the manually defined constraint graph and overall sensitivity of 99.76%, positive predictivity of 99.68%, and detection error rate of 0.55 for the automatic learning constraint graph.}, keywords = {}, pubstate = {published}, tppubtype = {article} } The electrocardiogram (ECG) signal is the most widely used non-invasive tool for the investigation of cardiovascular diseases. Automatic delineation of ECG fiducial points, in particular the R-peak, serves as the basis for ECG processing and analysis. This study proposes a new method of ECG signal analysis by introducing a new class of graphical models based on optimal changepoint detection models, named the graph-constrained changepoint detection (GCCD) model. The GCCD model treats fiducial points delineation in the non-stationary ECG signal as a changepoint detection problem. The proposed model exploits the sparsity of changepoints to detect abrupt changes within the ECG signal; thereby, the R-peak detection task can be relaxed from any preprocessing step. In this novel approach, prior biological knowledge about the expected sequence of changes is incorporated into the model using the constraint graph, which can be defined manually or automatically. First, we define the constraint graph manually; then, we present a graph learning algorithm that can search for an optimal graph in a greedy scheme. Finally, we compare the manually defined graphs and learned graphs in terms of graph structure and detection accuracy. We evaluate the performance of the algorithm using the MIT-BIH Arrhythmia Database. The proposed model achieves an overall sensitivity of 99.64%, positive predictivity of 99.71%, and detection error rate of 0.19 for the manually defined constraint graph and overall sensitivity of 99.76%, positive predictivity of 99.68%, and detection error rate of 0.55 for the automatic learning constraint graph. |
Kahn, Carmella B; Dreifuss, Heather; Teufel-Shone, Nicolette I; Tutt, Marissa; McCue, Kelly; Wilson, Jamie; Waters, Amber-Rose; Belin, Kalvina L; Bauer, Mark C Adapting Summer Education Programs for Navajo Students: Resilient Teamwork Journal Article Frontiers in Sociology, 2021. @article{Kahn2021, title = {Adapting Summer Education Programs for Navajo Students: Resilient Teamwork}, author = {Carmella B. Kahn and Heather Dreifuss and Nicolette I. Teufel-Shone and Marissa Tutt and Kelly McCue and Jamie Wilson and Amber-Rose Waters and Kalvina L. Belin and Mark C. Bauer}, url = {https://doi.org/10.3389/fsoc.2021.617994}, doi = {10.3389/fsoc.2021.617994}, year = {2021}, date = {2021-02-08}, journal = {Frontiers in Sociology}, abstract = {In May 2020, the Navajo Native American Research Center for Health Partnership (Navajo NARCH) was scheduled to launch two summer programs: a 10 weeks-long Summer Research Enhancement Program (SREP) for undergraduate students to learn and practice health research methods and participate in a practicum experience, and a week-long Indigenous Summer Enhancement Program (ISEP) for high school students that introduces a range of health professions and develops leadership qualities. Students accepted into the programs are predominantly Navajo and live within Navajo Nation (NN) during the summer. Due to NN restrictions and CDC guidelines for physically distancing in response to the coronavirus (COVID-19) pandemic, the Navajo NARCH team organized to offer both programs entirely online via Zoom™. This paper explores the instructional teams’ adaptation process to maintain a commitment to preserve the programs’ supportive environment for exploring and developing strong multicultural approaches in public health and health research. In preparation for online instruction, the team developed and offered workshops for staff and instructors to address anticipated challenges. The team identified the following challenges: technological difficulties, social disconnectedness, consistent student engagement, and facilitation of a practicum research experience. Results showed that program adaptations were successful as the team applied collaborative and holistic approaches, and established social connections remotely with students to offer meaningful research and practicum experiences.}, keywords = {}, pubstate = {published}, tppubtype = {article} } In May 2020, the Navajo Native American Research Center for Health Partnership (Navajo NARCH) was scheduled to launch two summer programs: a 10 weeks-long Summer Research Enhancement Program (SREP) for undergraduate students to learn and practice health research methods and participate in a practicum experience, and a week-long Indigenous Summer Enhancement Program (ISEP) for high school students that introduces a range of health professions and develops leadership qualities. Students accepted into the programs are predominantly Navajo and live within Navajo Nation (NN) during the summer. Due to NN restrictions and CDC guidelines for physically distancing in response to the coronavirus (COVID-19) pandemic, the Navajo NARCH team organized to offer both programs entirely online via Zoom™. This paper explores the instructional teams’ adaptation process to maintain a commitment to preserve the programs’ supportive environment for exploring and developing strong multicultural approaches in public health and health research. In preparation for online instruction, the team developed and offered workshops for staff and instructors to address anticipated challenges. The team identified the following challenges: technological difficulties, social disconnectedness, consistent student engagement, and facilitation of a practicum research experience. Results showed that program adaptations were successful as the team applied collaborative and holistic approaches, and established social connections remotely with students to offer meaningful research and practicum experiences. |
Yagüe, David Panisello; Mihaljevic, Joseph; Mbegbu, M; Wood, C V; Hepp, Crystal; Kyman, S; Hornstra, H; Trotter, Robert; Cope, Emily; Pearson, Talima Survival of Staphylococcus aureus on sampling swabs stored at different temperatures Journal Article Journal of Applied Microbiology, 2021. @article{Yagüe2021, title = {Survival of Staphylococcus aureus on sampling swabs stored at different temperatures}, author = {David Panisello Yagüe and Joseph Mihaljevic and M. Mbegbu and C.V. Wood and Crystal Hepp and S. Kyman and H. Hornstra and Robert Trotter and Emily Cope and Talima Pearson}, url = {https://doi.org/10.1111/jam.15023}, doi = {10.1111/jam.15023}, year = {2021}, date = {2021-02-05}, journal = {Journal of Applied Microbiology}, abstract = {Epidemiological studies of bacterial diseases are typically limited to determination of pathogen presence/absence, yet quantitative assessments of pathogen load and genetic diversity can provide insights into disease progression and severity, likelihood of transmission and adaptive evolutionary potential. For studies of S. aureus where time or access to a microbiology laboratory may delay culturing, deep freezing or timely culturing will maximize the degree to which sampling results reflect source status.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Epidemiological studies of bacterial diseases are typically limited to determination of pathogen presence/absence, yet quantitative assessments of pathogen load and genetic diversity can provide insights into disease progression and severity, likelihood of transmission and adaptive evolutionary potential. For studies of S. aureus where time or access to a microbiology laboratory may delay culturing, deep freezing or timely culturing will maximize the degree to which sampling results reflect source status. |
Schmitz, Kathryn H; Stout, Nicole L; Maitin-Shepard, Melissa; Campbell, Anna; Schwartz, Anna L; Grimmett, Chloe; Meyerhardt, Jeffrey A; Sokolof, Jonas M Moving through cancer: Setting the agenda to make exercise standard in oncology practice Journal Article Cancer, 127 (3), pp. 476-484, 2021, ISBN: 10.1002/cncr.33245. @article{Schmitz2021, title = {Moving through cancer: Setting the agenda to make exercise standard in oncology practice}, author = {Kathryn H Schmitz and Nicole L Stout and Melissa Maitin-Shepard and Anna Campbell and Anna L Schwartz and Chloe Grimmett and Jeffrey A Meyerhardt and Jonas M Sokolof}, url = {https://doi.org/10.1002/cncr.33245}, isbn = {10.1002/cncr.33245}, year = {2021}, date = {2021-02-01}, journal = {Cancer}, volume = {127}, number = {3}, pages = {476-484}, abstract = {International evidence-based guidelines support the prescription of exercise for all individuals living with and beyond cancer. This article describes the agenda of the newly formed Moving Through Cancer initiative, which has a primary objective of making exercise standard practice in oncology by 2029.}, keywords = {}, pubstate = {published}, tppubtype = {article} } International evidence-based guidelines support the prescription of exercise for all individuals living with and beyond cancer. This article describes the agenda of the newly formed Moving Through Cancer initiative, which has a primary objective of making exercise standard practice in oncology by 2029. |
Giano, Zachary; Camplain, Ricky L; Camplain, Carolyn; Pro, George; Haberstroh, Shane; Baldwin, Julie A; Wheeler, Denna L; Hubach, Randolph D Adverse Childhood Events in American Indian/Alaska Native Populations Journal Article American Journal of Preventive Medicine, 60 (2), pp. 213-221, 2021. @article{Giano2021, title = {Adverse Childhood Events in American Indian/Alaska Native Populations}, author = {Zachary Giano and Ricky L Camplain and Carolyn Camplain and George Pro and Shane Haberstroh and Julie A Baldwin and Denna L Wheeler and Randolph D Hubach}, url = {https://doi.org/10.1016/j.amepre.2020.08.020}, doi = {10.1016/j.amepre.2020.08.020}, year = {2021}, date = {2021-02-01}, journal = {American Journal of Preventive Medicine}, volume = {60}, number = {2}, pages = {213-221}, abstract = {Adverse childhood experiences are linked to deleterious outcomes in adulthood. Certain populations have been shown to be more vulnerable to adversity in childhood than others. Despite these findings, research in this area lacks an empirical investigation that examines adverse childhood experiences among American Indian and Alaska Native populations using large, nationally representative data. As such, the authors have compiled what they believe is the largest empirical investigation of adverse childhood experiences among American Indian and Alaska Native individuals to date.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Adverse childhood experiences are linked to deleterious outcomes in adulthood. Certain populations have been shown to be more vulnerable to adversity in childhood than others. Despite these findings, research in this area lacks an empirical investigation that examines adverse childhood experiences among American Indian and Alaska Native populations using large, nationally representative data. As such, the authors have compiled what they believe is the largest empirical investigation of adverse childhood experiences among American Indian and Alaska Native individuals to date. |
Ladner, Jason T; Henson, Sierra N; Boyle, Annalee S; Engelbrektson, Anna L; Fink, Zane W; Rahee, Fatima; D'ambrozio, Jonathan; Schaecher, Kurt E; Stone, Mars; Dong, Wenjuan; Dadwal, Sanjeet; Yu, Jianhua; Caligiuri, Michael A; Cieplak, Piotr; Bjørås, Magnar; Fenstad, Mona H; Nordbø, Svein A; Kainov, Denis E; Muranaka, Norihito; Chee, Mark S; Shiryaev, Sergey A; Altin, John A Epitope-resolved profiling of the SARS-CoV-2 antibody response identifies cross-reactivity with endemic human coronaviruses Journal Article Cell Reports Medicine, 2 ( 1), 2021. @article{Ladner2021, title = {Epitope-resolved profiling of the SARS-CoV-2 antibody response identifies cross-reactivity with endemic human coronaviruses}, author = {Jason T Ladner and Sierra N Henson and Annalee S Boyle and Anna L Engelbrektson and Zane W Fink and Fatima Rahee and Jonathan D'ambrozio and Kurt E Schaecher and Mars Stone and Wenjuan Dong and Sanjeet Dadwal and Jianhua Yu and Michael A Caligiuri and Piotr Cieplak and Magnar Bjørås and Mona H Fenstad and Svein A Nordbø and Denis E Kainov and Norihito Muranaka and Mark S Chee and Sergey A Shiryaev and John A Altin}, url = {https://doi.org/10.1016/j.xcrm.2020.100189}, doi = {10.1016/j.xcrm.2020.100189}, year = {2021}, date = {2021-01-19}, journal = {Cell Reports Medicine}, volume = {2}, number = { 1}, abstract = {The SARS-CoV-2 proteome shares regions of conservation with endemic human coronaviruses (CoVs), but it remains unknown to what extent these may be cross-recognized by the antibody response. Here, we study cross-reactivity using a highly multiplexed peptide assay (PepSeq) to generate an epitope-resolved view of IgG reactivity across all human CoVs in both COVID-19 convalescent and negative donors. PepSeq resolves epitopes across the SARS-CoV-2 Spike and Nucleocapsid proteins that are commonly targeted in convalescent donors, including several sites also recognized in some uninfected controls. By comparing patterns of homologous reactivity between CoVs and using targeted antibody-depletion experiments, we demonstrate that SARS-CoV-2 elicits antibodies that cross-recognize pandemic and endemic CoV antigens at two Spike S2 subunit epitopes. We further show that these cross-reactive antibodies preferentially bind endemic homologs. Our findings highlight sites at which the SARS-CoV-2 response appears to be shaped by previous CoV exposures and which have the potential to raise broadly neutralizing responses.}, keywords = {}, pubstate = {published}, tppubtype = {article} } The SARS-CoV-2 proteome shares regions of conservation with endemic human coronaviruses (CoVs), but it remains unknown to what extent these may be cross-recognized by the antibody response. Here, we study cross-reactivity using a highly multiplexed peptide assay (PepSeq) to generate an epitope-resolved view of IgG reactivity across all human CoVs in both COVID-19 convalescent and negative donors. PepSeq resolves epitopes across the SARS-CoV-2 Spike and Nucleocapsid proteins that are commonly targeted in convalescent donors, including several sites also recognized in some uninfected controls. By comparing patterns of homologous reactivity between CoVs and using targeted antibody-depletion experiments, we demonstrate that SARS-CoV-2 elicits antibodies that cross-recognize pandemic and endemic CoV antigens at two Spike S2 subunit epitopes. We further show that these cross-reactive antibodies preferentially bind endemic homologs. Our findings highlight sites at which the SARS-CoV-2 response appears to be shaped by previous CoV exposures and which have the potential to raise broadly neutralizing responses. |
Magdaleno, Carina; House, Trenton; Pawar, Jogendra S; Carvalho, Sophia; Rajasekaran, Narendiran; Varadaraj, Archana Fibronectin assembly regulates lumen formation in breast acini Journal Article Journal of Cellular Biochemistry, 2021. @article{Magdaleno2021, title = {Fibronectin assembly regulates lumen formation in breast acini}, author = {Carina Magdaleno and Trenton House and Jogendra S. Pawar and Sophia Carvalho and Narendiran Rajasekaran and Archana Varadaraj}, url = {https://doi.org/10.1002/jcb.29885}, doi = {10.1002/jcb.29885}, year = {2021}, date = {2021-01-13}, journal = {Journal of Cellular Biochemistry}, abstract = {Fibronectin (FN) is an extracellular matrix (ECM) glycoprotein that self‐assembles into FN fibrils, forming a FN matrix contributing to the stiffness of the ECM. Stromal FN stiffness in cancer has been shown to impact epithelial functions such as migration, cancer metastasis, and epithelial‐to‐mesenchymal transition. The role of the FN matrix of epithelial cells in driving such processes remains less well understood and is the focus of this study. Hypoxia, defined by low oxygen tension (<5%) is one of the hallmarks of tumor microenvironments impacting fibril reorganization in stromal and epithelial cells. Here, using the MCF10 breast epithelial progression series of cell lines encompassing normal, preinvasive, and invasive states, we show that FN fibril formation decreases during hypoxia, coinciding with a decrease in migratory potential of these cells. Conversely, we find that FN fibril disruption during three‐dimensional acinar growth of normal breast cells resulted in acinar luminal filling. Our data also demonstrates that the luminal filling upon fibril disruption in untransformed MCF10A cells results in a loss of apicobasal polarity, characteristic of pre‐invasive and invasive breast cell lines MCF10AT and MCF10 DCIS.com. Overall this is the first study that relates fibril‐mediated changes in epithelial cells as critical players in lumen clearing of breast acini and maintenance of the untransformed growth characteristic.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Fibronectin (FN) is an extracellular matrix (ECM) glycoprotein that self‐assembles into FN fibrils, forming a FN matrix contributing to the stiffness of the ECM. Stromal FN stiffness in cancer has been shown to impact epithelial functions such as migration, cancer metastasis, and epithelial‐to‐mesenchymal transition. The role of the FN matrix of epithelial cells in driving such processes remains less well understood and is the focus of this study. Hypoxia, defined by low oxygen tension (<5%) is one of the hallmarks of tumor microenvironments impacting fibril reorganization in stromal and epithelial cells. Here, using the MCF10 breast epithelial progression series of cell lines encompassing normal, preinvasive, and invasive states, we show that FN fibril formation decreases during hypoxia, coinciding with a decrease in migratory potential of these cells. Conversely, we find that FN fibril disruption during three‐dimensional acinar growth of normal breast cells resulted in acinar luminal filling. Our data also demonstrates that the luminal filling upon fibril disruption in untransformed MCF10A cells results in a loss of apicobasal polarity, characteristic of pre‐invasive and invasive breast cell lines MCF10AT and MCF10 DCIS.com. Overall this is the first study that relates fibril‐mediated changes in epithelial cells as critical players in lumen clearing of breast acini and maintenance of the untransformed growth characteristic. |
Miller, Erin; Barragan, Veronica; Chiriboga, Jorge; Weddell, Chad; Luna, Ligia; Jiménez, Dulce J; Aleman, John; Mihaljevic, Joseph R; Olivas, Sonora; Marks, Jane; Izurieta, Ricardo; Nieto, Nathan; Keim, Paul; Trueba, Gabriel; Caporaso, Gregory J; Pearson, Talima Leptospira in river and soil in a highly endemic area of Ecuador Journal Article BMC Microbiology, 21 (1), 2021. @article{Miller2021, title = {Leptospira in river and soil in a highly endemic area of Ecuador}, author = {Erin Miller and Veronica Barragan and Jorge Chiriboga and Chad Weddell and Ligia Luna and Dulce J Jiménez and John Aleman and Joseph R Mihaljevic and Sonora Olivas and Jane Marks and Ricardo Izurieta and Nathan Nieto and Paul Keim and Gabriel Trueba and J Gregory Caporaso and Talima Pearson}, url = {https://doi.org/10.1186/s12866-020-02069-y}, doi = {10.1186/s12866-020-02069-y}, year = {2021}, date = {2021-01-07}, journal = {BMC Microbiology}, volume = {21}, number = {1}, abstract = {Leptospira are shed into the environment via urine of infected animals. Rivers are thought to be an important risk factor for transmission to humans, though much is unknown about the types of environment or characteristics that favor survival. To address this, we screened for Leptospira DNA in two rivers in rural Ecuador where Leptospirosis is endemic.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Leptospira are shed into the environment via urine of infected animals. Rivers are thought to be an important risk factor for transmission to humans, though much is unknown about the types of environment or characteristics that favor survival. To address this, we screened for Leptospira DNA in two rivers in rural Ecuador where Leptospirosis is endemic. |
Ransdell, Lynda B; Lane, Taylor S; Schwartz, Anna L; Wayment, Heidi A; Baldwin, Julie A International Journal of Environmental Research and Public Health, 18 (2), pp. 1-35, 2021. @article{Ransdell2021, title = {Mentoring new and early-stage investigators and underrepresented minority faculty for research success in health-related fields: An integrative literature review (2010-2020)}, author = {Lynda B. Ransdell and Taylor S. Lane and Anna L. Schwartz and Heidi A. Wayment and Julie A. Baldwin}, url = {https://doi.org/10.3390/ijerph18020432}, doi = {10.3390/ijerph18020432}, year = {2021}, date = {2021-01-07}, journal = {International Journal of Environmental Research and Public Health}, volume = {18}, number = {2}, pages = {1-35}, abstract = {Mentoring to develop research skills is an important strategy for facilitating faculty success. The purpose of this study was to conduct an integrative literature review to examine the barriers and facilitators to mentoring in health-related research, particularly for three categories: New investigators (NI), early-stage investigators (ESI) and underrepresented minority faculty (UMF). PsychINFO, CINAHL and PubMed were searched for papers published in English from 2010 to 2020, and 46 papers were reviewed. Most papers recommended having multiple mentors and many recommended assessing baseline research skills. Barriers and facilitators were both individual and institutional. Individual barriers mentioned most frequently were a lack of time and finding work-life balance. UMF mentioned barriers related to bias, discrimination and isolation. Institutional barriers included lack of mentors, lack of access to resources, and heavy teaching and service loads. UMF experienced institutional barriers such as devaluation of experience or expertise. Individual facilitators were subdivided and included writing and synthesis as technical skills, networking and collaborating as interpersonal skills, and accountability, leadership, time management, and resilience/grit as personal skills. Institutional facilitators included access to mentoring, professional development opportunities, and workload assigned to research. Advocacy for diversity and cultural humility were included as unique interpersonal and institutional facilitators for UMF. Several overlapping and unique barriers and facilitators to mentoring for research success for NI, ESI and UMF in the health-related disciplines are presented.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Mentoring to develop research skills is an important strategy for facilitating faculty success. The purpose of this study was to conduct an integrative literature review to examine the barriers and facilitators to mentoring in health-related research, particularly for three categories: New investigators (NI), early-stage investigators (ESI) and underrepresented minority faculty (UMF). PsychINFO, CINAHL and PubMed were searched for papers published in English from 2010 to 2020, and 46 papers were reviewed. Most papers recommended having multiple mentors and many recommended assessing baseline research skills. Barriers and facilitators were both individual and institutional. Individual barriers mentioned most frequently were a lack of time and finding work-life balance. UMF mentioned barriers related to bias, discrimination and isolation. Institutional barriers included lack of mentors, lack of access to resources, and heavy teaching and service loads. UMF experienced institutional barriers such as devaluation of experience or expertise. Individual facilitators were subdivided and included writing and synthesis as technical skills, networking and collaborating as interpersonal skills, and accountability, leadership, time management, and resilience/grit as personal skills. Institutional facilitators included access to mentoring, professional development opportunities, and workload assigned to research. Advocacy for diversity and cultural humility were included as unique interpersonal and institutional facilitators for UMF. Several overlapping and unique barriers and facilitators to mentoring for research success for NI, ESI and UMF in the health-related disciplines are presented. |
Wagner, Eric F; Baldwin, Julie A Recovery in Special Emphasis Populations Journal Article Alcohol Research Current Reviews, 40 (3), 2020. @article{Wagner2020, title = {Recovery in Special Emphasis Populations}, author = {Eric F. Wagner and Julie A. Baldwin}, url = {https://arcr.niaaa.nih.gov/recovery-aud/recovery-special-emphasis-populations}, doi = {10.35946/arcr.v40.3.05}, year = {2020}, date = {2020-12-10}, journal = {Alcohol Research Current Reviews}, volume = {40}, number = {3}, abstract = {Special emphasis populations in the current context can be defined as groups experiencing health disparities resulting in elevated risk to health, safety, and well-being from drinking alcohol. Individuals from marginalized minority populations often encounter barriers to accessing and receiving effective alcohol treatment due to social inequities and disadvantaged life contexts, which also may adversely affect recovery from alcohol use disorder (AUD). Recovery from AUD often involves the adoption of a stable non-drinking lifestyle (sobriety), increased health and well-being, and increased social connection. Although there has been considerable work on AUD epidemiology among special emphasis populations, little research exists directly examining recovery among racial/ethnic minority populations and/or sexual and gender minority populations. The current narrative review hopes to spark scholarly interest in this critically neglected area. This article opens with a review of special emphasis populations and their alcohol-related risks. Next, definitions of recovery, Alcoholics Anonymous, and culturally adapted recovery models for racial/ethnic minority populations are explored. This is followed by a discussion of factors that may particularly influence recovery among marginalized minority populations. This narrative review concludes with a discussion of research priorities for promoting health equity through studies focused on understanding and supporting recovery from AUD among marginalized minority populations}, keywords = {}, pubstate = {published}, tppubtype = {article} } Special emphasis populations in the current context can be defined as groups experiencing health disparities resulting in elevated risk to health, safety, and well-being from drinking alcohol. Individuals from marginalized minority populations often encounter barriers to accessing and receiving effective alcohol treatment due to social inequities and disadvantaged life contexts, which also may adversely affect recovery from alcohol use disorder (AUD). Recovery from AUD often involves the adoption of a stable non-drinking lifestyle (sobriety), increased health and well-being, and increased social connection. Although there has been considerable work on AUD epidemiology among special emphasis populations, little research exists directly examining recovery among racial/ethnic minority populations and/or sexual and gender minority populations. The current narrative review hopes to spark scholarly interest in this critically neglected area. This article opens with a review of special emphasis populations and their alcohol-related risks. Next, definitions of recovery, Alcoholics Anonymous, and culturally adapted recovery models for racial/ethnic minority populations are explored. This is followed by a discussion of factors that may particularly influence recovery among marginalized minority populations. This narrative review concludes with a discussion of research priorities for promoting health equity through studies focused on understanding and supporting recovery from AUD among marginalized minority populations |
Eaves, Emery; II, Robert Trotter T; Baldwin, Julie A Human Organization, 79 (4), pp. 292-303, 2020. @article{Eaves2020b, title = {Another silver lining?: Anthropological perspectives on the promise and practice of relaxed restrictions for telemedicine and medication-assisted treatment in the context of COVID-19}, author = {Emery Eaves and Robert T. Trotter II and Julie A. Baldwin}, url = {https://meridian.allenpress.com/human-organization/article-abstract/79/4/292/449044/Another-Silver-Lining-Anthropological-Perspectives?redirectedFrom=fulltext}, doi = {10.17730/1938-3525-79.4.292}, year = {2020}, date = {2020-12-02}, journal = {Human Organization}, volume = {79}, number = {4}, pages = {292-303}, abstract = {As a response to the COVID-19 pandemic, the United States Drug Enforcement Administration (DEA) has temporarily relaxed restrictions to serve people who are opioid dependent during social distancing mandates. Changes include allowing patients to take home more doses of methadone and buprenorphine rather than coming to the clinic every day (for methadone) or weekly (for buprenorphine) and relaxed restrictions on telehealth delivery. Telemedicine Program representatives have described the relaxing of federal regulations as a "silver lining" to the COVID-19 pandemic. Drawing from medical anthropology approaches to epidemic surveillance and understandings of risk, we critically evaluate media representations of recent changes to telemedicine, prescribing, and opioid treatment delivery. Ethnographic research with providers and stakeholders in Arizona from 2017 to the present add insight to our analysis of media reports on these topics. Our findings demonstrate that media portrayal of access to medication-assisted treatment (MAT) as the key to preventing both COVID-19 and overdose among people who are opioid dependent misses important risks and potential inequities. Applied social science questions raised by the new guidelines include: who receives take-home doses of methadone and buprenorphine and why; and how media representations of risk and benefit rationales shape real-world policy and practice.}, keywords = {}, pubstate = {published}, tppubtype = {article} } As a response to the COVID-19 pandemic, the United States Drug Enforcement Administration (DEA) has temporarily relaxed restrictions to serve people who are opioid dependent during social distancing mandates. Changes include allowing patients to take home more doses of methadone and buprenorphine rather than coming to the clinic every day (for methadone) or weekly (for buprenorphine) and relaxed restrictions on telehealth delivery. Telemedicine Program representatives have described the relaxing of federal regulations as a "silver lining" to the COVID-19 pandemic. Drawing from medical anthropology approaches to epidemic surveillance and understandings of risk, we critically evaluate media representations of recent changes to telemedicine, prescribing, and opioid treatment delivery. Ethnographic research with providers and stakeholders in Arizona from 2017 to the present add insight to our analysis of media reports on these topics. Our findings demonstrate that media portrayal of access to medication-assisted treatment (MAT) as the key to preventing both COVID-19 and overdose among people who are opioid dependent misses important risks and potential inequities. Applied social science questions raised by the new guidelines include: who receives take-home doses of methadone and buprenorphine and why; and how media representations of risk and benefit rationales shape real-world policy and practice. |
Mousavi, Sajad; Afghah, Fatemeh; Acharya, Rajendra U HAN-ECG: An interpretable atrial fibrillation detection model using hierarchical attention networks Journal Article Computers in Biology and Medicine, 127 , 2020. @article{Mousavi2020b, title = {HAN-ECG: An interpretable atrial fibrillation detection model using hierarchical attention networks}, author = {Sajad Mousavi and Fatemeh Afghah and U Rajendra Acharya}, url = {https://www.sciencedirect.com/science/article/pii/S0010482520303887?via%3Dihub}, doi = {10.1016/j.compbiomed.2020.104057}, year = {2020}, date = {2020-12-01}, journal = {Computers in Biology and Medicine}, volume = {127}, abstract = {Atrial fibrillation (AF) is one of the most prevalent cardiac arrhythmias that affects the lives of many people around the world and is associated with a five-fold increased risk of stroke and mortality. Like other problems in the healthcare domain, artificial intelligence (AI)-based models have been used to detect AF from patients' ECG signals. The cardiologist level performance in detecting this arrhythmia is often achieved by deep learning-based methods, however, they suffer from the lack of interpretability. In other words, these approaches are unable to explain the reasons behind their decisions. The lack of interpretability is a common challenge toward a wide application of machine learning (ML)-based approaches in the healthcare which limits the trust of clinicians in such methods. To address this challenge, we propose HAN-ECG, an interpretable bidirectional-recurrent-neural-network-based approach for the AF detection task. The HAN-ECG employs three attention mechanism levels to provide a multi-resolution analysis of the patterns in ECG leading to AF. The detected patterns by this hierarchical attention model facilitate the interpretation of the neural network decision process in identifying the patterns in the signal which contributed the most to the final detection. Experimental results on two AF databases demonstrate that our proposed model performs better than the existing algorithms. Visualization of these attention layers illustrates that our proposed model decides upon the important waves and heartbeats which are clinically meaningful in the detection task (e.g., absence of P-waves, and irregular R-R intervals for the AF detection task).}, keywords = {}, pubstate = {published}, tppubtype = {article} } Atrial fibrillation (AF) is one of the most prevalent cardiac arrhythmias that affects the lives of many people around the world and is associated with a five-fold increased risk of stroke and mortality. Like other problems in the healthcare domain, artificial intelligence (AI)-based models have been used to detect AF from patients' ECG signals. The cardiologist level performance in detecting this arrhythmia is often achieved by deep learning-based methods, however, they suffer from the lack of interpretability. In other words, these approaches are unable to explain the reasons behind their decisions. The lack of interpretability is a common challenge toward a wide application of machine learning (ML)-based approaches in the healthcare which limits the trust of clinicians in such methods. To address this challenge, we propose HAN-ECG, an interpretable bidirectional-recurrent-neural-network-based approach for the AF detection task. The HAN-ECG employs three attention mechanism levels to provide a multi-resolution analysis of the patterns in ECG leading to AF. The detected patterns by this hierarchical attention model facilitate the interpretation of the neural network decision process in identifying the patterns in the signal which contributed the most to the final detection. Experimental results on two AF databases demonstrate that our proposed model performs better than the existing algorithms. Visualization of these attention layers illustrates that our proposed model decides upon the important waves and heartbeats which are clinically meaningful in the detection task (e.g., absence of P-waves, and irregular R-R intervals for the AF detection task). |
Eaves, Emery R; Camplain, Ricky L; Lininger, Monica R; Trotter, Robert T Adverse childhood experiences in relation to drug and alcohol use in 30 days prior to incarceration in a county jail Journal Article International Journal of Prisoner Health, 2020. @article{Eaves2020, title = {Adverse childhood experiences in relation to drug and alcohol use in 30 days prior to incarceration in a county jail}, author = {Emery R. Eaves and Ricky L. Camplain and Monica R. Lininger and Robert T. Trotter}, url = {https://doi.org/10.1108/IJPH-06-2020-0038}, doi = {10.1108/IJPH-06-2020-0038}, year = {2020}, date = {2020-11-16}, journal = {International Journal of Prisoner Health}, abstract = {Purpose: The purpose of this paper is to characterize the relationship between adverse childhood experiences (ACEs) and substance use among people incarcerated in a county jail. Design/methodology/approach: A questionnaire was administered to 199 individuals incarcerated in a Southwest county jail as part of a social-epidemiological exploration of converging comorbidities in incarcerated populations. Among 96 participants with complete ACEs data, the authors determined associations between individual ACEs items and a summative score with methamphetamine (meth), heroin, other opiates and cocaine use and binge drinking in the 30 days prior to incarceration using logistic regression. Findings: People who self-reported use of methamphetamine, heroin, other opiates or cocaine in the 30 days prior to incarceration had higher average ACEs scores. Methamphetamine use was significantly associated with living with anyone who served time in a correctional facility and with someone trying to make them touch sexually. Opiate use was significantly associated with living with anyone who was depressed, mentally ill or suicidal; living with anyone who used illegal street drugs or misused prescription medications; and if an adult touched them sexually. Binge drinking was significantly associated with having lived with someone who was a problem drinker or alcoholic. Social implications: The findings point to a need for research to understand differences between methamphetamine use and opiate use in relation to particular adverse experiences during childhood and a need for tailored intervention for people incarcerated in jail. Originality/value: Significant associations between methamphetamine use and opiate use and specific ACEs suggest important entry points for improving jail and community programming.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Purpose: The purpose of this paper is to characterize the relationship between adverse childhood experiences (ACEs) and substance use among people incarcerated in a county jail. Design/methodology/approach: A questionnaire was administered to 199 individuals incarcerated in a Southwest county jail as part of a social-epidemiological exploration of converging comorbidities in incarcerated populations. Among 96 participants with complete ACEs data, the authors determined associations between individual ACEs items and a summative score with methamphetamine (meth), heroin, other opiates and cocaine use and binge drinking in the 30 days prior to incarceration using logistic regression. Findings: People who self-reported use of methamphetamine, heroin, other opiates or cocaine in the 30 days prior to incarceration had higher average ACEs scores. Methamphetamine use was significantly associated with living with anyone who served time in a correctional facility and with someone trying to make them touch sexually. Opiate use was significantly associated with living with anyone who was depressed, mentally ill or suicidal; living with anyone who used illegal street drugs or misused prescription medications; and if an adult touched them sexually. Binge drinking was significantly associated with having lived with someone who was a problem drinker or alcoholic. Social implications: The findings point to a need for research to understand differences between methamphetamine use and opiate use in relation to particular adverse experiences during childhood and a need for tailored intervention for people incarcerated in jail. Originality/value: Significant associations between methamphetamine use and opiate use and specific ACEs suggest important entry points for improving jail and community programming. |
Sy, Angela; Hayes, Traci; Laurila, Kelly; Noboa, Carlamarie; Langwerden, Robbert J; Hospital, Michelle M; Andújar-Pérez, Doris A; Stevenson, Lakesha; Cunningham, Suzanne Randolph M; Rollins, Latrice; Madanat, Hala; Penn, Tanya; Mehravaran, Shiva Evaluating Research Centers in Minority Institutions: Framework, Metrics, Best Practices, and Challenges Journal Article International Journal of Environmental Research and Public Health, 17 (22), 2020. @article{Sy2020, title = {Evaluating Research Centers in Minority Institutions: Framework, Metrics, Best Practices, and Challenges}, author = {Angela Sy and Traci Hayes and Kelly Laurila and Carlamarie Noboa and Robbert J Langwerden and Michelle M Hospital and Doris A Andújar-Pérez and Lakesha Stevenson and Suzanne M Randolph Cunningham and Latrice Rollins and Hala Madanat and Tanya Penn and Shiva Mehravaran}, url = {https://www.mdpi.com/1660-4601/17/22/8373}, doi = {10.3390/ijerph17228373}, year = {2020}, date = {2020-11-12}, journal = {International Journal of Environmental Research and Public Health}, volume = {17}, number = {22}, abstract = {The NIH-funded Research Centers in Minority Institutions (RCMI) program is currently funding 18 academic institutions to strengthen the research environment and contribution to health disparities research. The purpose of this multiphase mixed-methods study was to establish a uniform evaluation framework for demonstrating the collective success of this research consortium. Methods included discussions of aims and logic models at the RCMI Evaluators' Workshop, a literature review to inform an evaluation conceptual framework, and a case study survey to obtain evaluation-related information and metrics. Ten RCMIs participated in the workshop and 14 submitted responses to the survey. The resultant RCMI Evaluation Conceptual Model presents a practical ongoing approach to document RCMIs' impacts on health disparities. Survey results identified 37 common metrics under four primary categories. Evaluation challenges were issues related to limited human resources, data collection, decision-making, defining metrics, cost-sharing, and revenue-generation. There is a need for further collaborative efforts across RCMI sites to engage program leadership and community stakeholders in addressing the identified evaluation challenges and measurement. Program leadership should be engaged to apply the Evaluation Conceptual Framework and common metrics to allow for valid inter-institutional comparisons and consortium-wide evaluations. Stakeholders could ensure evaluation metrics are used to facilitate community impacts.}, keywords = {}, pubstate = {published}, tppubtype = {article} } The NIH-funded Research Centers in Minority Institutions (RCMI) program is currently funding 18 academic institutions to strengthen the research environment and contribution to health disparities research. The purpose of this multiphase mixed-methods study was to establish a uniform evaluation framework for demonstrating the collective success of this research consortium. Methods included discussions of aims and logic models at the RCMI Evaluators' Workshop, a literature review to inform an evaluation conceptual framework, and a case study survey to obtain evaluation-related information and metrics. Ten RCMIs participated in the workshop and 14 submitted responses to the survey. The resultant RCMI Evaluation Conceptual Model presents a practical ongoing approach to document RCMIs' impacts on health disparities. Survey results identified 37 common metrics under four primary categories. Evaluation challenges were issues related to limited human resources, data collection, decision-making, defining metrics, cost-sharing, and revenue-generation. There is a need for further collaborative efforts across RCMI sites to engage program leadership and community stakeholders in addressing the identified evaluation challenges and measurement. Program leadership should be engaged to apply the Evaluation Conceptual Framework and common metrics to allow for valid inter-institutional comparisons and consortium-wide evaluations. Stakeholders could ensure evaluation metrics are used to facilitate community impacts. |
Canori, Alexandra; Kumar, Amit; Hiremath, Shivayogi V Factors associated with multiple hospital readmissions for individuals with spinal cord injury Journal Article Commonhealth, 1 (2), 2020. @article{Canori2020, title = {Factors associated with multiple hospital readmissions for individuals with spinal cord injury}, author = {Alexandra Canori and Amit Kumar and Shivayogi V Hiremath }, url = {https://onlinelibrary.wiley.com/doi/10.1002/jcb.29885 }, doi = {doi.org/10.15367/ch.v1i2.399}, year = {2020}, date = {2020-10-28}, journal = {Commonhealth}, volume = {1}, number = {2}, abstract = {The study purpose was to identify patient-level and clinical factors associated with multiple hospital readmissions in individuals with spinal cord injury (SCI). Of the 1170 participants included in the study, 228 were readmitted once and 120 were readmitted multiple times. In our study, 34.2% and 10.8% were readmitted more than once due to genitourinary and respiratory conditions, respectively. Lower utilization of rehabilitation services, lower functional status, unemployment, and depression were associated with higher odds of being readmitted multiple times within one year of discharge from inpatient rehabilitation facility. }, keywords = {}, pubstate = {published}, tppubtype = {article} } The study purpose was to identify patient-level and clinical factors associated with multiple hospital readmissions in individuals with spinal cord injury (SCI). Of the 1170 participants included in the study, 228 were readmitted once and 120 were readmitted multiple times. In our study, 34.2% and 10.8% were readmitted more than once due to genitourinary and respiratory conditions, respectively. Lower utilization of rehabilitation services, lower functional status, unemployment, and depression were associated with higher odds of being readmitted multiple times within one year of discharge from inpatient rehabilitation facility. |
Barger, Steven D; Lininger, Monica R; II, Robert Trotter T; Wayment, Heidi A; Mbegbu, Mimi; Kyman, Shari; Pearson, Talima Educational Attainment and Staphylococcus aureus Colonization in a Hispanic Border Community: Testing Fundamental Cause Theory Journal Article mSphere, 5 (5), 2020. @article{Barger2020b, title = {Educational Attainment and Staphylococcus aureus Colonization in a Hispanic Border Community: Testing Fundamental Cause Theory}, author = {Steven D Barger and Monica R Lininger and Robert T Trotter II and Heidi A Wayment and Mimi Mbegbu and Shari Kyman and Talima Pearson}, year = {2020}, date = {2020-09-20}, journal = {mSphere}, volume = {5}, number = {5}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
2021 |
Lane, Taylor S; Sonderegger, Derek L; Holeva-Eklund, Whitney M; Brazendale, Keith; K.Behrens, Timothy; Howdeshell, Hiliary; Walka, Sherry; R.Cook, Jon; Heer, Hendrik D.de Seasonal Variability in Weight Gain Among American Indian, Black, White, and Hispanic Children: A 3.5-Year Study Journal Article American Journal of Preventive Medicine, 60 (5), pp. 658-665, 2021. @article{Lane2021, title = {Seasonal Variability in Weight Gain Among American Indian, Black, White, and Hispanic Children: A 3.5-Year Study}, author = {Taylor S. Lane and Derek L. Sonderegger and Whitney M. Holeva-Eklund and Keith Brazendale and Timothy K.Behrens and Hiliary Howdeshell and Sherry Walka and Jon R.Cook and Hendrik D.de Heer}, url = {https://doi.org/10.1016/j.amepre.2020.12.010}, doi = {10.1016/j.amepre.2020.12.010}, year = {2021}, date = {2021-05-01}, journal = {American Journal of Preventive Medicine}, volume = {60}, number = {5}, pages = {658-665}, abstract = {Several studies have reported that children gain more weight during the summer season. Despite high obesity rates, little research has included American Indian/Alaskan Native children, and few studies have been longitudinal. This observational study examines seasonal weight variability over 3.5 years among ethnically diverse children, including 2,184 American Indian/Alaskan Native children. Children gained significantly more weight during the summer season, with the strongest effects for children who were obese. American Indian/Alaskan Native children had less seasonal variability than White children, but higher overall obesity rates. These data underscore summer as a critical time for obesity prevention among children who are overweight/obese but suggest that seasonal patterns may vary for American Indian/Alaskan Native children.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Several studies have reported that children gain more weight during the summer season. Despite high obesity rates, little research has included American Indian/Alaskan Native children, and few studies have been longitudinal. This observational study examines seasonal weight variability over 3.5 years among ethnically diverse children, including 2,184 American Indian/Alaskan Native children. Children gained significantly more weight during the summer season, with the strongest effects for children who were obese. American Indian/Alaskan Native children had less seasonal variability than White children, but higher overall obesity rates. These data underscore summer as a critical time for obesity prevention among children who are overweight/obese but suggest that seasonal patterns may vary for American Indian/Alaskan Native children. |
Park, Daesik; Propper, Catherine R; Wang, Guangning; Salanga, Matthew C Ecotoxicology, 30 , pp. 711–718, 2021. @article{Park2021, title = {Synonymous single nucleotide polymorphism in arsenic (+3) methyltransferase of the Western mosquitofish (Gambusia affinis) and its gene expression among field populations}, author = {Daesik Park and Catherine R Propper and Guangning Wang and Matthew C Salanga }, url = {https://doi.org/10.1007/s10646-021-02376-8}, doi = {10.1007/s10646-021-02376-8}, year = {2021}, date = {2021-04-03}, journal = {Ecotoxicology}, volume = {30}, pages = {711–718}, abstract = {Naturally occurring arsenic is toxic at extremely low concentrations, yet some species persist even in high arsenic environments. We wanted to test if these species show evidence of evolution associated with arsenic exposure. To do this, we compared allelic variation across 872 coding nucleotides of arsenic (+3) methyltransferase (as3mt) and whole fish as3mt gene expression from three field populations of Gambusia affinis, from water sources containing low (1.9 ppb), medium-low (3.3 ppb), and high (15.7 ppb) levels of arsenic. The high arsenic site exceeds the US EPA's Maximum Contamination Level for drinking water. Medium-low and high populations exhibited homozygosity, and no sequence variation across all animals sampled. Eleven of 24 fish examined (45.8%) in the low arsenic population harbored synonymous single nucleotide polymorphisms (SNPs) in exons 4 and/or 10. SNP presence in the low arsenic population was not associated with differences in as3mt transcript levels compared to fish from the medium-low site, where SNPs were noted; however, as3mt expression in fish from the high arsenic concentration site was significantly lower than the other two sites. Low sequence variation in fish populations from sites with medium-low and high arsenic concentrations suggests greater selective pressure on this allele, while higher variation in the low population suggests a relaxed selection. Our results suggest gene regulation associated with arsenic detoxification may play a more crucial role in influencing responses to arsenic than polymorphic gene sequence. Understanding microevolutionary processes to various contaminants require the evaluation of multiple populations across a wide range of pollution exposures.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Naturally occurring arsenic is toxic at extremely low concentrations, yet some species persist even in high arsenic environments. We wanted to test if these species show evidence of evolution associated with arsenic exposure. To do this, we compared allelic variation across 872 coding nucleotides of arsenic (+3) methyltransferase (as3mt) and whole fish as3mt gene expression from three field populations of Gambusia affinis, from water sources containing low (1.9 ppb), medium-low (3.3 ppb), and high (15.7 ppb) levels of arsenic. The high arsenic site exceeds the US EPA's Maximum Contamination Level for drinking water. Medium-low and high populations exhibited homozygosity, and no sequence variation across all animals sampled. Eleven of 24 fish examined (45.8%) in the low arsenic population harbored synonymous single nucleotide polymorphisms (SNPs) in exons 4 and/or 10. SNP presence in the low arsenic population was not associated with differences in as3mt transcript levels compared to fish from the medium-low site, where SNPs were noted; however, as3mt expression in fish from the high arsenic concentration site was significantly lower than the other two sites. Low sequence variation in fish populations from sites with medium-low and high arsenic concentrations suggests greater selective pressure on this allele, while higher variation in the low population suggests a relaxed selection. Our results suggest gene regulation associated with arsenic detoxification may play a more crucial role in influencing responses to arsenic than polymorphic gene sequence. Understanding microevolutionary processes to various contaminants require the evaluation of multiple populations across a wide range of pollution exposures. |
Mousavi, Sajad; Afghah, Fatemeh; Khadem, Fatemeh; Acharya, Rajendra U ECG Language processing (ELP): A new technique to analyze ECG signals Journal Article Computer Methods and Programs in Biomedicine, 202 , 2021, ISBN: 105959. @article{Mousavi2021, title = {ECG Language processing (ELP): A new technique to analyze ECG signals}, author = {Sajad Mousavi and Fatemeh Afghah and Fatemeh Khadem and U. Rajendra Acharya}, url = {https://doi.org/10.1016/j.cmpb.2021.105959}, doi = {10.1016/j.cmpb.2021.105959}, isbn = {105959}, year = {2021}, date = {2021-04-01}, journal = {Computer Methods and Programs in Biomedicine}, volume = {202}, abstract = {A language is constructed of a finite/infinite set of sentences composing of words. Similar to natural languages, the Electrocardiogram (ECG) signal, the most common noninvasive tool to study the functionality of the heart and diagnose several abnormal arrhythmias, is made up of sequences of three or four distinct waves, including the P-wave, QRS complex, T-wave, and U-wave. An ECG signal may contain several different varieties of each wave (e.g., the QRS complex can have various appearances). For this reason, the ECG signal is a sequence of heartbeats similar to sentences in natural languages) and each heartbeat is composed of a set of waves (similar to words in a sentence) of different morphologies. Experimental results on three databases (i.e., PhysioNet’s MIT-BIH, MIT-BIH AFIB, and PhysioNet Challenge 2017 AFIB Dataset databases) reveal that the proposed approach as a general idea can be applied to a variety of biomedical applications and can achieve remarkable performance.}, keywords = {}, pubstate = {published}, tppubtype = {article} } A language is constructed of a finite/infinite set of sentences composing of words. Similar to natural languages, the Electrocardiogram (ECG) signal, the most common noninvasive tool to study the functionality of the heart and diagnose several abnormal arrhythmias, is made up of sequences of three or four distinct waves, including the P-wave, QRS complex, T-wave, and U-wave. An ECG signal may contain several different varieties of each wave (e.g., the QRS complex can have various appearances). For this reason, the ECG signal is a sequence of heartbeats similar to sentences in natural languages) and each heartbeat is composed of a set of waves (similar to words in a sentence) of different morphologies. Experimental results on three databases (i.e., PhysioNet’s MIT-BIH, MIT-BIH AFIB, and PhysioNet Challenge 2017 AFIB Dataset databases) reveal that the proposed approach as a general idea can be applied to a variety of biomedical applications and can achieve remarkable performance. |
Evans, Linnea; Engelman, Michal; Mikulas, Alex; Malecki, Kristen How are social determinants of health integrated into epigenetic research? A systematic review Journal Article Social Science & Medicine, 273 , 2021, ISBN: 113738. @article{Evans2021, title = {How are social determinants of health integrated into epigenetic research? A systematic review}, author = {Linnea Evans and Michal Engelman and Alex Mikulas and Kristen Malecki}, url = {https://doi.org/10.1016/j.socscimed.2021.113738}, doi = {10.1016/j.socscimed.2021.113738}, isbn = {113738}, year = {2021}, date = {2021-03-01}, journal = {Social Science & Medicine}, volume = {273}, abstract = {Future social epigenetics research should prioritize larger, more diverse and representative population-based samples and employ the SDOH framework to better inform the conceptualization of research questions and interpretation of findings. In particular, the simplified depiction of race/ethnicity, gender, and socioeconomic status as individual-level characteristics should be updated with an explicit acknowledgement that these characteristics are more accurately interpreted as cues used by society to differentiate subpopulations. Social epigenetics research can then more clearly elucidate the biological consequences of these social exposures for patterns of gene expression, subsequent disease etiology, and health inequities.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Future social epigenetics research should prioritize larger, more diverse and representative population-based samples and employ the SDOH framework to better inform the conceptualization of research questions and interpretation of findings. In particular, the simplified depiction of race/ethnicity, gender, and socioeconomic status as individual-level characteristics should be updated with an explicit acknowledgement that these characteristics are more accurately interpreted as cues used by society to differentiate subpopulations. Social epigenetics research can then more clearly elucidate the biological consequences of these social exposures for patterns of gene expression, subsequent disease etiology, and health inequities. |
Fotoohinasab, Atiyeh; Hocking, Toby; Afghah, Fatemeh A greedy graph search algorithm based on changepoint analysis for automatic QRS complex detection Journal Article Computers in Biology and Medicine, 130 , 2021, ISBN: 104208. @article{Fotoohinasab2021, title = {A greedy graph search algorithm based on changepoint analysis for automatic QRS complex detection}, author = {Atiyeh Fotoohinasab and Toby Hocking and Fatemeh Afghah}, url = {https://doi.org/10.1016/j.compbiomed.2021.104208}, doi = {10.1016/j.compbiomed.2021.104208}, isbn = {104208}, year = {2021}, date = {2021-03-01}, journal = {Computers in Biology and Medicine}, volume = {130}, abstract = {The electrocardiogram (ECG) signal is the most widely used non-invasive tool for the investigation of cardiovascular diseases. Automatic delineation of ECG fiducial points, in particular the R-peak, serves as the basis for ECG processing and analysis. This study proposes a new method of ECG signal analysis by introducing a new class of graphical models based on optimal changepoint detection models, named the graph-constrained changepoint detection (GCCD) model. The GCCD model treats fiducial points delineation in the non-stationary ECG signal as a changepoint detection problem. The proposed model exploits the sparsity of changepoints to detect abrupt changes within the ECG signal; thereby, the R-peak detection task can be relaxed from any preprocessing step. In this novel approach, prior biological knowledge about the expected sequence of changes is incorporated into the model using the constraint graph, which can be defined manually or automatically. First, we define the constraint graph manually; then, we present a graph learning algorithm that can search for an optimal graph in a greedy scheme. Finally, we compare the manually defined graphs and learned graphs in terms of graph structure and detection accuracy. We evaluate the performance of the algorithm using the MIT-BIH Arrhythmia Database. The proposed model achieves an overall sensitivity of 99.64%, positive predictivity of 99.71%, and detection error rate of 0.19 for the manually defined constraint graph and overall sensitivity of 99.76%, positive predictivity of 99.68%, and detection error rate of 0.55 for the automatic learning constraint graph.}, keywords = {}, pubstate = {published}, tppubtype = {article} } The electrocardiogram (ECG) signal is the most widely used non-invasive tool for the investigation of cardiovascular diseases. Automatic delineation of ECG fiducial points, in particular the R-peak, serves as the basis for ECG processing and analysis. This study proposes a new method of ECG signal analysis by introducing a new class of graphical models based on optimal changepoint detection models, named the graph-constrained changepoint detection (GCCD) model. The GCCD model treats fiducial points delineation in the non-stationary ECG signal as a changepoint detection problem. The proposed model exploits the sparsity of changepoints to detect abrupt changes within the ECG signal; thereby, the R-peak detection task can be relaxed from any preprocessing step. In this novel approach, prior biological knowledge about the expected sequence of changes is incorporated into the model using the constraint graph, which can be defined manually or automatically. First, we define the constraint graph manually; then, we present a graph learning algorithm that can search for an optimal graph in a greedy scheme. Finally, we compare the manually defined graphs and learned graphs in terms of graph structure and detection accuracy. We evaluate the performance of the algorithm using the MIT-BIH Arrhythmia Database. The proposed model achieves an overall sensitivity of 99.64%, positive predictivity of 99.71%, and detection error rate of 0.19 for the manually defined constraint graph and overall sensitivity of 99.76%, positive predictivity of 99.68%, and detection error rate of 0.55 for the automatic learning constraint graph. |
Kahn, Carmella B; Dreifuss, Heather; Teufel-Shone, Nicolette I; Tutt, Marissa; McCue, Kelly; Wilson, Jamie; Waters, Amber-Rose; Belin, Kalvina L; Bauer, Mark C Adapting Summer Education Programs for Navajo Students: Resilient Teamwork Journal Article Frontiers in Sociology, 2021. @article{Kahn2021, title = {Adapting Summer Education Programs for Navajo Students: Resilient Teamwork}, author = {Carmella B. Kahn and Heather Dreifuss and Nicolette I. Teufel-Shone and Marissa Tutt and Kelly McCue and Jamie Wilson and Amber-Rose Waters and Kalvina L. Belin and Mark C. Bauer}, url = {https://doi.org/10.3389/fsoc.2021.617994}, doi = {10.3389/fsoc.2021.617994}, year = {2021}, date = {2021-02-08}, journal = {Frontiers in Sociology}, abstract = {In May 2020, the Navajo Native American Research Center for Health Partnership (Navajo NARCH) was scheduled to launch two summer programs: a 10 weeks-long Summer Research Enhancement Program (SREP) for undergraduate students to learn and practice health research methods and participate in a practicum experience, and a week-long Indigenous Summer Enhancement Program (ISEP) for high school students that introduces a range of health professions and develops leadership qualities. Students accepted into the programs are predominantly Navajo and live within Navajo Nation (NN) during the summer. Due to NN restrictions and CDC guidelines for physically distancing in response to the coronavirus (COVID-19) pandemic, the Navajo NARCH team organized to offer both programs entirely online via Zoom™. This paper explores the instructional teams’ adaptation process to maintain a commitment to preserve the programs’ supportive environment for exploring and developing strong multicultural approaches in public health and health research. In preparation for online instruction, the team developed and offered workshops for staff and instructors to address anticipated challenges. The team identified the following challenges: technological difficulties, social disconnectedness, consistent student engagement, and facilitation of a practicum research experience. Results showed that program adaptations were successful as the team applied collaborative and holistic approaches, and established social connections remotely with students to offer meaningful research and practicum experiences.}, keywords = {}, pubstate = {published}, tppubtype = {article} } In May 2020, the Navajo Native American Research Center for Health Partnership (Navajo NARCH) was scheduled to launch two summer programs: a 10 weeks-long Summer Research Enhancement Program (SREP) for undergraduate students to learn and practice health research methods and participate in a practicum experience, and a week-long Indigenous Summer Enhancement Program (ISEP) for high school students that introduces a range of health professions and develops leadership qualities. Students accepted into the programs are predominantly Navajo and live within Navajo Nation (NN) during the summer. Due to NN restrictions and CDC guidelines for physically distancing in response to the coronavirus (COVID-19) pandemic, the Navajo NARCH team organized to offer both programs entirely online via Zoom™. This paper explores the instructional teams’ adaptation process to maintain a commitment to preserve the programs’ supportive environment for exploring and developing strong multicultural approaches in public health and health research. In preparation for online instruction, the team developed and offered workshops for staff and instructors to address anticipated challenges. The team identified the following challenges: technological difficulties, social disconnectedness, consistent student engagement, and facilitation of a practicum research experience. Results showed that program adaptations were successful as the team applied collaborative and holistic approaches, and established social connections remotely with students to offer meaningful research and practicum experiences. |
Yagüe, David Panisello; Mihaljevic, Joseph; Mbegbu, M; Wood, C V; Hepp, Crystal; Kyman, S; Hornstra, H; Trotter, Robert; Cope, Emily; Pearson, Talima Survival of Staphylococcus aureus on sampling swabs stored at different temperatures Journal Article Journal of Applied Microbiology, 2021. @article{Yagüe2021, title = {Survival of Staphylococcus aureus on sampling swabs stored at different temperatures}, author = {David Panisello Yagüe and Joseph Mihaljevic and M. Mbegbu and C.V. Wood and Crystal Hepp and S. Kyman and H. Hornstra and Robert Trotter and Emily Cope and Talima Pearson}, url = {https://doi.org/10.1111/jam.15023}, doi = {10.1111/jam.15023}, year = {2021}, date = {2021-02-05}, journal = {Journal of Applied Microbiology}, abstract = {Epidemiological studies of bacterial diseases are typically limited to determination of pathogen presence/absence, yet quantitative assessments of pathogen load and genetic diversity can provide insights into disease progression and severity, likelihood of transmission and adaptive evolutionary potential. For studies of S. aureus where time or access to a microbiology laboratory may delay culturing, deep freezing or timely culturing will maximize the degree to which sampling results reflect source status.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Epidemiological studies of bacterial diseases are typically limited to determination of pathogen presence/absence, yet quantitative assessments of pathogen load and genetic diversity can provide insights into disease progression and severity, likelihood of transmission and adaptive evolutionary potential. For studies of S. aureus where time or access to a microbiology laboratory may delay culturing, deep freezing or timely culturing will maximize the degree to which sampling results reflect source status. |
Schmitz, Kathryn H; Stout, Nicole L; Maitin-Shepard, Melissa; Campbell, Anna; Schwartz, Anna L; Grimmett, Chloe; Meyerhardt, Jeffrey A; Sokolof, Jonas M Moving through cancer: Setting the agenda to make exercise standard in oncology practice Journal Article Cancer, 127 (3), pp. 476-484, 2021, ISBN: 10.1002/cncr.33245. @article{Schmitz2021, title = {Moving through cancer: Setting the agenda to make exercise standard in oncology practice}, author = {Kathryn H Schmitz and Nicole L Stout and Melissa Maitin-Shepard and Anna Campbell and Anna L Schwartz and Chloe Grimmett and Jeffrey A Meyerhardt and Jonas M Sokolof}, url = {https://doi.org/10.1002/cncr.33245}, isbn = {10.1002/cncr.33245}, year = {2021}, date = {2021-02-01}, journal = {Cancer}, volume = {127}, number = {3}, pages = {476-484}, abstract = {International evidence-based guidelines support the prescription of exercise for all individuals living with and beyond cancer. This article describes the agenda of the newly formed Moving Through Cancer initiative, which has a primary objective of making exercise standard practice in oncology by 2029.}, keywords = {}, pubstate = {published}, tppubtype = {article} } International evidence-based guidelines support the prescription of exercise for all individuals living with and beyond cancer. This article describes the agenda of the newly formed Moving Through Cancer initiative, which has a primary objective of making exercise standard practice in oncology by 2029. |
Giano, Zachary; Camplain, Ricky L; Camplain, Carolyn; Pro, George; Haberstroh, Shane; Baldwin, Julie A; Wheeler, Denna L; Hubach, Randolph D Adverse Childhood Events in American Indian/Alaska Native Populations Journal Article American Journal of Preventive Medicine, 60 (2), pp. 213-221, 2021. @article{Giano2021, title = {Adverse Childhood Events in American Indian/Alaska Native Populations}, author = {Zachary Giano and Ricky L Camplain and Carolyn Camplain and George Pro and Shane Haberstroh and Julie A Baldwin and Denna L Wheeler and Randolph D Hubach}, url = {https://doi.org/10.1016/j.amepre.2020.08.020}, doi = {10.1016/j.amepre.2020.08.020}, year = {2021}, date = {2021-02-01}, journal = {American Journal of Preventive Medicine}, volume = {60}, number = {2}, pages = {213-221}, abstract = {Adverse childhood experiences are linked to deleterious outcomes in adulthood. Certain populations have been shown to be more vulnerable to adversity in childhood than others. Despite these findings, research in this area lacks an empirical investigation that examines adverse childhood experiences among American Indian and Alaska Native populations using large, nationally representative data. As such, the authors have compiled what they believe is the largest empirical investigation of adverse childhood experiences among American Indian and Alaska Native individuals to date.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Adverse childhood experiences are linked to deleterious outcomes in adulthood. Certain populations have been shown to be more vulnerable to adversity in childhood than others. Despite these findings, research in this area lacks an empirical investigation that examines adverse childhood experiences among American Indian and Alaska Native populations using large, nationally representative data. As such, the authors have compiled what they believe is the largest empirical investigation of adverse childhood experiences among American Indian and Alaska Native individuals to date. |
Ladner, Jason T; Henson, Sierra N; Boyle, Annalee S; Engelbrektson, Anna L; Fink, Zane W; Rahee, Fatima; D'ambrozio, Jonathan; Schaecher, Kurt E; Stone, Mars; Dong, Wenjuan; Dadwal, Sanjeet; Yu, Jianhua; Caligiuri, Michael A; Cieplak, Piotr; Bjørås, Magnar; Fenstad, Mona H; Nordbø, Svein A; Kainov, Denis E; Muranaka, Norihito; Chee, Mark S; Shiryaev, Sergey A; Altin, John A Epitope-resolved profiling of the SARS-CoV-2 antibody response identifies cross-reactivity with endemic human coronaviruses Journal Article Cell Reports Medicine, 2 ( 1), 2021. @article{Ladner2021, title = {Epitope-resolved profiling of the SARS-CoV-2 antibody response identifies cross-reactivity with endemic human coronaviruses}, author = {Jason T Ladner and Sierra N Henson and Annalee S Boyle and Anna L Engelbrektson and Zane W Fink and Fatima Rahee and Jonathan D'ambrozio and Kurt E Schaecher and Mars Stone and Wenjuan Dong and Sanjeet Dadwal and Jianhua Yu and Michael A Caligiuri and Piotr Cieplak and Magnar Bjørås and Mona H Fenstad and Svein A Nordbø and Denis E Kainov and Norihito Muranaka and Mark S Chee and Sergey A Shiryaev and John A Altin}, url = {https://doi.org/10.1016/j.xcrm.2020.100189}, doi = {10.1016/j.xcrm.2020.100189}, year = {2021}, date = {2021-01-19}, journal = {Cell Reports Medicine}, volume = {2}, number = { 1}, abstract = {The SARS-CoV-2 proteome shares regions of conservation with endemic human coronaviruses (CoVs), but it remains unknown to what extent these may be cross-recognized by the antibody response. Here, we study cross-reactivity using a highly multiplexed peptide assay (PepSeq) to generate an epitope-resolved view of IgG reactivity across all human CoVs in both COVID-19 convalescent and negative donors. PepSeq resolves epitopes across the SARS-CoV-2 Spike and Nucleocapsid proteins that are commonly targeted in convalescent donors, including several sites also recognized in some uninfected controls. By comparing patterns of homologous reactivity between CoVs and using targeted antibody-depletion experiments, we demonstrate that SARS-CoV-2 elicits antibodies that cross-recognize pandemic and endemic CoV antigens at two Spike S2 subunit epitopes. We further show that these cross-reactive antibodies preferentially bind endemic homologs. Our findings highlight sites at which the SARS-CoV-2 response appears to be shaped by previous CoV exposures and which have the potential to raise broadly neutralizing responses.}, keywords = {}, pubstate = {published}, tppubtype = {article} } The SARS-CoV-2 proteome shares regions of conservation with endemic human coronaviruses (CoVs), but it remains unknown to what extent these may be cross-recognized by the antibody response. Here, we study cross-reactivity using a highly multiplexed peptide assay (PepSeq) to generate an epitope-resolved view of IgG reactivity across all human CoVs in both COVID-19 convalescent and negative donors. PepSeq resolves epitopes across the SARS-CoV-2 Spike and Nucleocapsid proteins that are commonly targeted in convalescent donors, including several sites also recognized in some uninfected controls. By comparing patterns of homologous reactivity between CoVs and using targeted antibody-depletion experiments, we demonstrate that SARS-CoV-2 elicits antibodies that cross-recognize pandemic and endemic CoV antigens at two Spike S2 subunit epitopes. We further show that these cross-reactive antibodies preferentially bind endemic homologs. Our findings highlight sites at which the SARS-CoV-2 response appears to be shaped by previous CoV exposures and which have the potential to raise broadly neutralizing responses. |
Magdaleno, Carina; House, Trenton; Pawar, Jogendra S; Carvalho, Sophia; Rajasekaran, Narendiran; Varadaraj, Archana Fibronectin assembly regulates lumen formation in breast acini Journal Article Journal of Cellular Biochemistry, 2021. @article{Magdaleno2021, title = {Fibronectin assembly regulates lumen formation in breast acini}, author = {Carina Magdaleno and Trenton House and Jogendra S. Pawar and Sophia Carvalho and Narendiran Rajasekaran and Archana Varadaraj}, url = {https://doi.org/10.1002/jcb.29885}, doi = {10.1002/jcb.29885}, year = {2021}, date = {2021-01-13}, journal = {Journal of Cellular Biochemistry}, abstract = {Fibronectin (FN) is an extracellular matrix (ECM) glycoprotein that self‐assembles into FN fibrils, forming a FN matrix contributing to the stiffness of the ECM. Stromal FN stiffness in cancer has been shown to impact epithelial functions such as migration, cancer metastasis, and epithelial‐to‐mesenchymal transition. The role of the FN matrix of epithelial cells in driving such processes remains less well understood and is the focus of this study. Hypoxia, defined by low oxygen tension (<5%) is one of the hallmarks of tumor microenvironments impacting fibril reorganization in stromal and epithelial cells. Here, using the MCF10 breast epithelial progression series of cell lines encompassing normal, preinvasive, and invasive states, we show that FN fibril formation decreases during hypoxia, coinciding with a decrease in migratory potential of these cells. Conversely, we find that FN fibril disruption during three‐dimensional acinar growth of normal breast cells resulted in acinar luminal filling. Our data also demonstrates that the luminal filling upon fibril disruption in untransformed MCF10A cells results in a loss of apicobasal polarity, characteristic of pre‐invasive and invasive breast cell lines MCF10AT and MCF10 DCIS.com. Overall this is the first study that relates fibril‐mediated changes in epithelial cells as critical players in lumen clearing of breast acini and maintenance of the untransformed growth characteristic.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Fibronectin (FN) is an extracellular matrix (ECM) glycoprotein that self‐assembles into FN fibrils, forming a FN matrix contributing to the stiffness of the ECM. Stromal FN stiffness in cancer has been shown to impact epithelial functions such as migration, cancer metastasis, and epithelial‐to‐mesenchymal transition. The role of the FN matrix of epithelial cells in driving such processes remains less well understood and is the focus of this study. Hypoxia, defined by low oxygen tension (<5%) is one of the hallmarks of tumor microenvironments impacting fibril reorganization in stromal and epithelial cells. Here, using the MCF10 breast epithelial progression series of cell lines encompassing normal, preinvasive, and invasive states, we show that FN fibril formation decreases during hypoxia, coinciding with a decrease in migratory potential of these cells. Conversely, we find that FN fibril disruption during three‐dimensional acinar growth of normal breast cells resulted in acinar luminal filling. Our data also demonstrates that the luminal filling upon fibril disruption in untransformed MCF10A cells results in a loss of apicobasal polarity, characteristic of pre‐invasive and invasive breast cell lines MCF10AT and MCF10 DCIS.com. Overall this is the first study that relates fibril‐mediated changes in epithelial cells as critical players in lumen clearing of breast acini and maintenance of the untransformed growth characteristic. |
Miller, Erin; Barragan, Veronica; Chiriboga, Jorge; Weddell, Chad; Luna, Ligia; Jiménez, Dulce J; Aleman, John; Mihaljevic, Joseph R; Olivas, Sonora; Marks, Jane; Izurieta, Ricardo; Nieto, Nathan; Keim, Paul; Trueba, Gabriel; Caporaso, Gregory J; Pearson, Talima Leptospira in river and soil in a highly endemic area of Ecuador Journal Article BMC Microbiology, 21 (1), 2021. @article{Miller2021, title = {Leptospira in river and soil in a highly endemic area of Ecuador}, author = {Erin Miller and Veronica Barragan and Jorge Chiriboga and Chad Weddell and Ligia Luna and Dulce J Jiménez and John Aleman and Joseph R Mihaljevic and Sonora Olivas and Jane Marks and Ricardo Izurieta and Nathan Nieto and Paul Keim and Gabriel Trueba and J Gregory Caporaso and Talima Pearson}, url = {https://doi.org/10.1186/s12866-020-02069-y}, doi = {10.1186/s12866-020-02069-y}, year = {2021}, date = {2021-01-07}, journal = {BMC Microbiology}, volume = {21}, number = {1}, abstract = {Leptospira are shed into the environment via urine of infected animals. Rivers are thought to be an important risk factor for transmission to humans, though much is unknown about the types of environment or characteristics that favor survival. To address this, we screened for Leptospira DNA in two rivers in rural Ecuador where Leptospirosis is endemic.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Leptospira are shed into the environment via urine of infected animals. Rivers are thought to be an important risk factor for transmission to humans, though much is unknown about the types of environment or characteristics that favor survival. To address this, we screened for Leptospira DNA in two rivers in rural Ecuador where Leptospirosis is endemic. |
Ransdell, Lynda B; Lane, Taylor S; Schwartz, Anna L; Wayment, Heidi A; Baldwin, Julie A International Journal of Environmental Research and Public Health, 18 (2), pp. 1-35, 2021. @article{Ransdell2021, title = {Mentoring new and early-stage investigators and underrepresented minority faculty for research success in health-related fields: An integrative literature review (2010-2020)}, author = {Lynda B. Ransdell and Taylor S. Lane and Anna L. Schwartz and Heidi A. Wayment and Julie A. Baldwin}, url = {https://doi.org/10.3390/ijerph18020432}, doi = {10.3390/ijerph18020432}, year = {2021}, date = {2021-01-07}, journal = {International Journal of Environmental Research and Public Health}, volume = {18}, number = {2}, pages = {1-35}, abstract = {Mentoring to develop research skills is an important strategy for facilitating faculty success. The purpose of this study was to conduct an integrative literature review to examine the barriers and facilitators to mentoring in health-related research, particularly for three categories: New investigators (NI), early-stage investigators (ESI) and underrepresented minority faculty (UMF). PsychINFO, CINAHL and PubMed were searched for papers published in English from 2010 to 2020, and 46 papers were reviewed. Most papers recommended having multiple mentors and many recommended assessing baseline research skills. Barriers and facilitators were both individual and institutional. Individual barriers mentioned most frequently were a lack of time and finding work-life balance. UMF mentioned barriers related to bias, discrimination and isolation. Institutional barriers included lack of mentors, lack of access to resources, and heavy teaching and service loads. UMF experienced institutional barriers such as devaluation of experience or expertise. Individual facilitators were subdivided and included writing and synthesis as technical skills, networking and collaborating as interpersonal skills, and accountability, leadership, time management, and resilience/grit as personal skills. Institutional facilitators included access to mentoring, professional development opportunities, and workload assigned to research. Advocacy for diversity and cultural humility were included as unique interpersonal and institutional facilitators for UMF. Several overlapping and unique barriers and facilitators to mentoring for research success for NI, ESI and UMF in the health-related disciplines are presented.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Mentoring to develop research skills is an important strategy for facilitating faculty success. The purpose of this study was to conduct an integrative literature review to examine the barriers and facilitators to mentoring in health-related research, particularly for three categories: New investigators (NI), early-stage investigators (ESI) and underrepresented minority faculty (UMF). PsychINFO, CINAHL and PubMed were searched for papers published in English from 2010 to 2020, and 46 papers were reviewed. Most papers recommended having multiple mentors and many recommended assessing baseline research skills. Barriers and facilitators were both individual and institutional. Individual barriers mentioned most frequently were a lack of time and finding work-life balance. UMF mentioned barriers related to bias, discrimination and isolation. Institutional barriers included lack of mentors, lack of access to resources, and heavy teaching and service loads. UMF experienced institutional barriers such as devaluation of experience or expertise. Individual facilitators were subdivided and included writing and synthesis as technical skills, networking and collaborating as interpersonal skills, and accountability, leadership, time management, and resilience/grit as personal skills. Institutional facilitators included access to mentoring, professional development opportunities, and workload assigned to research. Advocacy for diversity and cultural humility were included as unique interpersonal and institutional facilitators for UMF. Several overlapping and unique barriers and facilitators to mentoring for research success for NI, ESI and UMF in the health-related disciplines are presented. |
2020 |
Wagner, Eric F; Baldwin, Julie A Recovery in Special Emphasis Populations Journal Article Alcohol Research Current Reviews, 40 (3), 2020. @article{Wagner2020, title = {Recovery in Special Emphasis Populations}, author = {Eric F. Wagner and Julie A. Baldwin}, url = {https://arcr.niaaa.nih.gov/recovery-aud/recovery-special-emphasis-populations}, doi = {10.35946/arcr.v40.3.05}, year = {2020}, date = {2020-12-10}, journal = {Alcohol Research Current Reviews}, volume = {40}, number = {3}, abstract = {Special emphasis populations in the current context can be defined as groups experiencing health disparities resulting in elevated risk to health, safety, and well-being from drinking alcohol. Individuals from marginalized minority populations often encounter barriers to accessing and receiving effective alcohol treatment due to social inequities and disadvantaged life contexts, which also may adversely affect recovery from alcohol use disorder (AUD). Recovery from AUD often involves the adoption of a stable non-drinking lifestyle (sobriety), increased health and well-being, and increased social connection. Although there has been considerable work on AUD epidemiology among special emphasis populations, little research exists directly examining recovery among racial/ethnic minority populations and/or sexual and gender minority populations. The current narrative review hopes to spark scholarly interest in this critically neglected area. This article opens with a review of special emphasis populations and their alcohol-related risks. Next, definitions of recovery, Alcoholics Anonymous, and culturally adapted recovery models for racial/ethnic minority populations are explored. This is followed by a discussion of factors that may particularly influence recovery among marginalized minority populations. This narrative review concludes with a discussion of research priorities for promoting health equity through studies focused on understanding and supporting recovery from AUD among marginalized minority populations}, keywords = {}, pubstate = {published}, tppubtype = {article} } Special emphasis populations in the current context can be defined as groups experiencing health disparities resulting in elevated risk to health, safety, and well-being from drinking alcohol. Individuals from marginalized minority populations often encounter barriers to accessing and receiving effective alcohol treatment due to social inequities and disadvantaged life contexts, which also may adversely affect recovery from alcohol use disorder (AUD). Recovery from AUD often involves the adoption of a stable non-drinking lifestyle (sobriety), increased health and well-being, and increased social connection. Although there has been considerable work on AUD epidemiology among special emphasis populations, little research exists directly examining recovery among racial/ethnic minority populations and/or sexual and gender minority populations. The current narrative review hopes to spark scholarly interest in this critically neglected area. This article opens with a review of special emphasis populations and their alcohol-related risks. Next, definitions of recovery, Alcoholics Anonymous, and culturally adapted recovery models for racial/ethnic minority populations are explored. This is followed by a discussion of factors that may particularly influence recovery among marginalized minority populations. This narrative review concludes with a discussion of research priorities for promoting health equity through studies focused on understanding and supporting recovery from AUD among marginalized minority populations |
Eaves, Emery; II, Robert Trotter T; Baldwin, Julie A Human Organization, 79 (4), pp. 292-303, 2020. @article{Eaves2020b, title = {Another silver lining?: Anthropological perspectives on the promise and practice of relaxed restrictions for telemedicine and medication-assisted treatment in the context of COVID-19}, author = {Emery Eaves and Robert T. Trotter II and Julie A. Baldwin}, url = {https://meridian.allenpress.com/human-organization/article-abstract/79/4/292/449044/Another-Silver-Lining-Anthropological-Perspectives?redirectedFrom=fulltext}, doi = {10.17730/1938-3525-79.4.292}, year = {2020}, date = {2020-12-02}, journal = {Human Organization}, volume = {79}, number = {4}, pages = {292-303}, abstract = {As a response to the COVID-19 pandemic, the United States Drug Enforcement Administration (DEA) has temporarily relaxed restrictions to serve people who are opioid dependent during social distancing mandates. Changes include allowing patients to take home more doses of methadone and buprenorphine rather than coming to the clinic every day (for methadone) or weekly (for buprenorphine) and relaxed restrictions on telehealth delivery. Telemedicine Program representatives have described the relaxing of federal regulations as a "silver lining" to the COVID-19 pandemic. Drawing from medical anthropology approaches to epidemic surveillance and understandings of risk, we critically evaluate media representations of recent changes to telemedicine, prescribing, and opioid treatment delivery. Ethnographic research with providers and stakeholders in Arizona from 2017 to the present add insight to our analysis of media reports on these topics. Our findings demonstrate that media portrayal of access to medication-assisted treatment (MAT) as the key to preventing both COVID-19 and overdose among people who are opioid dependent misses important risks and potential inequities. Applied social science questions raised by the new guidelines include: who receives take-home doses of methadone and buprenorphine and why; and how media representations of risk and benefit rationales shape real-world policy and practice.}, keywords = {}, pubstate = {published}, tppubtype = {article} } As a response to the COVID-19 pandemic, the United States Drug Enforcement Administration (DEA) has temporarily relaxed restrictions to serve people who are opioid dependent during social distancing mandates. Changes include allowing patients to take home more doses of methadone and buprenorphine rather than coming to the clinic every day (for methadone) or weekly (for buprenorphine) and relaxed restrictions on telehealth delivery. Telemedicine Program representatives have described the relaxing of federal regulations as a "silver lining" to the COVID-19 pandemic. Drawing from medical anthropology approaches to epidemic surveillance and understandings of risk, we critically evaluate media representations of recent changes to telemedicine, prescribing, and opioid treatment delivery. Ethnographic research with providers and stakeholders in Arizona from 2017 to the present add insight to our analysis of media reports on these topics. Our findings demonstrate that media portrayal of access to medication-assisted treatment (MAT) as the key to preventing both COVID-19 and overdose among people who are opioid dependent misses important risks and potential inequities. Applied social science questions raised by the new guidelines include: who receives take-home doses of methadone and buprenorphine and why; and how media representations of risk and benefit rationales shape real-world policy and practice. |
Mousavi, Sajad; Afghah, Fatemeh; Acharya, Rajendra U HAN-ECG: An interpretable atrial fibrillation detection model using hierarchical attention networks Journal Article Computers in Biology and Medicine, 127 , 2020. @article{Mousavi2020b, title = {HAN-ECG: An interpretable atrial fibrillation detection model using hierarchical attention networks}, author = {Sajad Mousavi and Fatemeh Afghah and U Rajendra Acharya}, url = {https://www.sciencedirect.com/science/article/pii/S0010482520303887?via%3Dihub}, doi = {10.1016/j.compbiomed.2020.104057}, year = {2020}, date = {2020-12-01}, journal = {Computers in Biology and Medicine}, volume = {127}, abstract = {Atrial fibrillation (AF) is one of the most prevalent cardiac arrhythmias that affects the lives of many people around the world and is associated with a five-fold increased risk of stroke and mortality. Like other problems in the healthcare domain, artificial intelligence (AI)-based models have been used to detect AF from patients' ECG signals. The cardiologist level performance in detecting this arrhythmia is often achieved by deep learning-based methods, however, they suffer from the lack of interpretability. In other words, these approaches are unable to explain the reasons behind their decisions. The lack of interpretability is a common challenge toward a wide application of machine learning (ML)-based approaches in the healthcare which limits the trust of clinicians in such methods. To address this challenge, we propose HAN-ECG, an interpretable bidirectional-recurrent-neural-network-based approach for the AF detection task. The HAN-ECG employs three attention mechanism levels to provide a multi-resolution analysis of the patterns in ECG leading to AF. The detected patterns by this hierarchical attention model facilitate the interpretation of the neural network decision process in identifying the patterns in the signal which contributed the most to the final detection. Experimental results on two AF databases demonstrate that our proposed model performs better than the existing algorithms. Visualization of these attention layers illustrates that our proposed model decides upon the important waves and heartbeats which are clinically meaningful in the detection task (e.g., absence of P-waves, and irregular R-R intervals for the AF detection task).}, keywords = {}, pubstate = {published}, tppubtype = {article} } Atrial fibrillation (AF) is one of the most prevalent cardiac arrhythmias that affects the lives of many people around the world and is associated with a five-fold increased risk of stroke and mortality. Like other problems in the healthcare domain, artificial intelligence (AI)-based models have been used to detect AF from patients' ECG signals. The cardiologist level performance in detecting this arrhythmia is often achieved by deep learning-based methods, however, they suffer from the lack of interpretability. In other words, these approaches are unable to explain the reasons behind their decisions. The lack of interpretability is a common challenge toward a wide application of machine learning (ML)-based approaches in the healthcare which limits the trust of clinicians in such methods. To address this challenge, we propose HAN-ECG, an interpretable bidirectional-recurrent-neural-network-based approach for the AF detection task. The HAN-ECG employs three attention mechanism levels to provide a multi-resolution analysis of the patterns in ECG leading to AF. The detected patterns by this hierarchical attention model facilitate the interpretation of the neural network decision process in identifying the patterns in the signal which contributed the most to the final detection. Experimental results on two AF databases demonstrate that our proposed model performs better than the existing algorithms. Visualization of these attention layers illustrates that our proposed model decides upon the important waves and heartbeats which are clinically meaningful in the detection task (e.g., absence of P-waves, and irregular R-R intervals for the AF detection task). |
Eaves, Emery R; Camplain, Ricky L; Lininger, Monica R; Trotter, Robert T Adverse childhood experiences in relation to drug and alcohol use in 30 days prior to incarceration in a county jail Journal Article International Journal of Prisoner Health, 2020. @article{Eaves2020, title = {Adverse childhood experiences in relation to drug and alcohol use in 30 days prior to incarceration in a county jail}, author = {Emery R. Eaves and Ricky L. Camplain and Monica R. Lininger and Robert T. Trotter}, url = {https://doi.org/10.1108/IJPH-06-2020-0038}, doi = {10.1108/IJPH-06-2020-0038}, year = {2020}, date = {2020-11-16}, journal = {International Journal of Prisoner Health}, abstract = {Purpose: The purpose of this paper is to characterize the relationship between adverse childhood experiences (ACEs) and substance use among people incarcerated in a county jail. Design/methodology/approach: A questionnaire was administered to 199 individuals incarcerated in a Southwest county jail as part of a social-epidemiological exploration of converging comorbidities in incarcerated populations. Among 96 participants with complete ACEs data, the authors determined associations between individual ACEs items and a summative score with methamphetamine (meth), heroin, other opiates and cocaine use and binge drinking in the 30 days prior to incarceration using logistic regression. Findings: People who self-reported use of methamphetamine, heroin, other opiates or cocaine in the 30 days prior to incarceration had higher average ACEs scores. Methamphetamine use was significantly associated with living with anyone who served time in a correctional facility and with someone trying to make them touch sexually. Opiate use was significantly associated with living with anyone who was depressed, mentally ill or suicidal; living with anyone who used illegal street drugs or misused prescription medications; and if an adult touched them sexually. Binge drinking was significantly associated with having lived with someone who was a problem drinker or alcoholic. Social implications: The findings point to a need for research to understand differences between methamphetamine use and opiate use in relation to particular adverse experiences during childhood and a need for tailored intervention for people incarcerated in jail. Originality/value: Significant associations between methamphetamine use and opiate use and specific ACEs suggest important entry points for improving jail and community programming.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Purpose: The purpose of this paper is to characterize the relationship between adverse childhood experiences (ACEs) and substance use among people incarcerated in a county jail. Design/methodology/approach: A questionnaire was administered to 199 individuals incarcerated in a Southwest county jail as part of a social-epidemiological exploration of converging comorbidities in incarcerated populations. Among 96 participants with complete ACEs data, the authors determined associations between individual ACEs items and a summative score with methamphetamine (meth), heroin, other opiates and cocaine use and binge drinking in the 30 days prior to incarceration using logistic regression. Findings: People who self-reported use of methamphetamine, heroin, other opiates or cocaine in the 30 days prior to incarceration had higher average ACEs scores. Methamphetamine use was significantly associated with living with anyone who served time in a correctional facility and with someone trying to make them touch sexually. Opiate use was significantly associated with living with anyone who was depressed, mentally ill or suicidal; living with anyone who used illegal street drugs or misused prescription medications; and if an adult touched them sexually. Binge drinking was significantly associated with having lived with someone who was a problem drinker or alcoholic. Social implications: The findings point to a need for research to understand differences between methamphetamine use and opiate use in relation to particular adverse experiences during childhood and a need for tailored intervention for people incarcerated in jail. Originality/value: Significant associations between methamphetamine use and opiate use and specific ACEs suggest important entry points for improving jail and community programming. |
Sy, Angela; Hayes, Traci; Laurila, Kelly; Noboa, Carlamarie; Langwerden, Robbert J; Hospital, Michelle M; Andújar-Pérez, Doris A; Stevenson, Lakesha; Cunningham, Suzanne Randolph M; Rollins, Latrice; Madanat, Hala; Penn, Tanya; Mehravaran, Shiva Evaluating Research Centers in Minority Institutions: Framework, Metrics, Best Practices, and Challenges Journal Article International Journal of Environmental Research and Public Health, 17 (22), 2020. @article{Sy2020, title = {Evaluating Research Centers in Minority Institutions: Framework, Metrics, Best Practices, and Challenges}, author = {Angela Sy and Traci Hayes and Kelly Laurila and Carlamarie Noboa and Robbert J Langwerden and Michelle M Hospital and Doris A Andújar-Pérez and Lakesha Stevenson and Suzanne M Randolph Cunningham and Latrice Rollins and Hala Madanat and Tanya Penn and Shiva Mehravaran}, url = {https://www.mdpi.com/1660-4601/17/22/8373}, doi = {10.3390/ijerph17228373}, year = {2020}, date = {2020-11-12}, journal = {International Journal of Environmental Research and Public Health}, volume = {17}, number = {22}, abstract = {The NIH-funded Research Centers in Minority Institutions (RCMI) program is currently funding 18 academic institutions to strengthen the research environment and contribution to health disparities research. The purpose of this multiphase mixed-methods study was to establish a uniform evaluation framework for demonstrating the collective success of this research consortium. Methods included discussions of aims and logic models at the RCMI Evaluators' Workshop, a literature review to inform an evaluation conceptual framework, and a case study survey to obtain evaluation-related information and metrics. Ten RCMIs participated in the workshop and 14 submitted responses to the survey. The resultant RCMI Evaluation Conceptual Model presents a practical ongoing approach to document RCMIs' impacts on health disparities. Survey results identified 37 common metrics under four primary categories. Evaluation challenges were issues related to limited human resources, data collection, decision-making, defining metrics, cost-sharing, and revenue-generation. There is a need for further collaborative efforts across RCMI sites to engage program leadership and community stakeholders in addressing the identified evaluation challenges and measurement. Program leadership should be engaged to apply the Evaluation Conceptual Framework and common metrics to allow for valid inter-institutional comparisons and consortium-wide evaluations. Stakeholders could ensure evaluation metrics are used to facilitate community impacts.}, keywords = {}, pubstate = {published}, tppubtype = {article} } The NIH-funded Research Centers in Minority Institutions (RCMI) program is currently funding 18 academic institutions to strengthen the research environment and contribution to health disparities research. The purpose of this multiphase mixed-methods study was to establish a uniform evaluation framework for demonstrating the collective success of this research consortium. Methods included discussions of aims and logic models at the RCMI Evaluators' Workshop, a literature review to inform an evaluation conceptual framework, and a case study survey to obtain evaluation-related information and metrics. Ten RCMIs participated in the workshop and 14 submitted responses to the survey. The resultant RCMI Evaluation Conceptual Model presents a practical ongoing approach to document RCMIs' impacts on health disparities. Survey results identified 37 common metrics under four primary categories. Evaluation challenges were issues related to limited human resources, data collection, decision-making, defining metrics, cost-sharing, and revenue-generation. There is a need for further collaborative efforts across RCMI sites to engage program leadership and community stakeholders in addressing the identified evaluation challenges and measurement. Program leadership should be engaged to apply the Evaluation Conceptual Framework and common metrics to allow for valid inter-institutional comparisons and consortium-wide evaluations. Stakeholders could ensure evaluation metrics are used to facilitate community impacts. |
Canori, Alexandra; Kumar, Amit; Hiremath, Shivayogi V Factors associated with multiple hospital readmissions for individuals with spinal cord injury Journal Article Commonhealth, 1 (2), 2020. @article{Canori2020, title = {Factors associated with multiple hospital readmissions for individuals with spinal cord injury}, author = {Alexandra Canori and Amit Kumar and Shivayogi V Hiremath }, url = {https://onlinelibrary.wiley.com/doi/10.1002/jcb.29885 }, doi = {doi.org/10.15367/ch.v1i2.399}, year = {2020}, date = {2020-10-28}, journal = {Commonhealth}, volume = {1}, number = {2}, abstract = {The study purpose was to identify patient-level and clinical factors associated with multiple hospital readmissions in individuals with spinal cord injury (SCI). Of the 1170 participants included in the study, 228 were readmitted once and 120 were readmitted multiple times. In our study, 34.2% and 10.8% were readmitted more than once due to genitourinary and respiratory conditions, respectively. Lower utilization of rehabilitation services, lower functional status, unemployment, and depression were associated with higher odds of being readmitted multiple times within one year of discharge from inpatient rehabilitation facility. }, keywords = {}, pubstate = {published}, tppubtype = {article} } The study purpose was to identify patient-level and clinical factors associated with multiple hospital readmissions in individuals with spinal cord injury (SCI). Of the 1170 participants included in the study, 228 were readmitted once and 120 were readmitted multiple times. In our study, 34.2% and 10.8% were readmitted more than once due to genitourinary and respiratory conditions, respectively. Lower utilization of rehabilitation services, lower functional status, unemployment, and depression were associated with higher odds of being readmitted multiple times within one year of discharge from inpatient rehabilitation facility. |
Barger, Steven D; Lininger, Monica R; II, Robert Trotter T; Wayment, Heidi A; Mbegbu, Mimi; Kyman, Shari; Pearson, Talima Educational Attainment and Staphylococcus aureus Colonization in a Hispanic Border Community: Testing Fundamental Cause Theory Journal Article mSphere, 5 (5), 2020. @article{Barger2020b, title = {Educational Attainment and Staphylococcus aureus Colonization in a Hispanic Border Community: Testing Fundamental Cause Theory}, author = {Steven D Barger and Monica R Lininger and Robert T Trotter II and Heidi A Wayment and Mimi Mbegbu and Shari Kyman and Talima Pearson}, year = {2020}, date = {2020-09-20}, journal = {mSphere}, volume = {5}, number = {5}, keywords = {}, pubstate = {published}, tppubtype = {article} } |
Williamson, Heather J; McCarthy, Michael J; Garcia, Yolanda E; Bacon, Rachel; Dunn, Dorothy J; Baldwin, Julie A Public Policy & Aging Report, 20 (20), pp. 1–3, 2020. @article{Williamson2020b, title = {Addressing the Needs of Rural Caregivers of Individuals with Alzheimer’s Disease and Related Dementias During and Beyond Coronavirus Disease 2019 (COVID-19)}, author = {Heather J. Williamson and Michael J. McCarthy and Yolanda E. Garcia and Rachel Bacon and Dorothy J. Dunn and Julie A. Baldwin}, url = {https://doi.org/10.1093/ppar/praa024}, doi = {10.1093/ppar/praa024}, year = {2020}, date = {2020-09-04}, journal = {Public Policy & Aging Report}, volume = {20}, number = {20}, pages = {1–3}, abstract = {More than 25% of those 65 years or older in the United States reside in rural areas (Skoufalos et al., 2017). Aging family caregivers of individuals with Alzheimer’s disease and related dementias (ADRD) provide critical daily supports for their loved one. Caregivers in rural areas face unique challenges in accessing needed health and social services, while also having limited informal supports from family and friends due to geographic isolation (Cho et al., 2016; Greenwood et al., 2015; Pinquart & Sörensen, 2005). Rural-residing ADRD caregivers living in northern Arizona have been disproportionately affected by the coronavirus disease 2019 (COVID-19) pandemic, with higher rates of COVID-19 than urban areas and with limited community resources (Arizona Department of Health Services, 2020; Kaplan, 2020; Sanderson et al., 2017). OVID-19 public health actions, including social distancing, self isolation, and sheltering in place, may be effective for curbing the spread of COVID-19. However, the emotional and psychosocial impacts of these prevention efforts are yet to be understood among already strained aging caregivers providing constant care for a person with ADRD.}, keywords = {}, pubstate = {published}, tppubtype = {article} } More than 25% of those 65 years or older in the United States reside in rural areas (Skoufalos et al., 2017). Aging family caregivers of individuals with Alzheimer’s disease and related dementias (ADRD) provide critical daily supports for their loved one. Caregivers in rural areas face unique challenges in accessing needed health and social services, while also having limited informal supports from family and friends due to geographic isolation (Cho et al., 2016; Greenwood et al., 2015; Pinquart & Sörensen, 2005). Rural-residing ADRD caregivers living in northern Arizona have been disproportionately affected by the coronavirus disease 2019 (COVID-19) pandemic, with higher rates of COVID-19 than urban areas and with limited community resources (Arizona Department of Health Services, 2020; Kaplan, 2020; Sanderson et al., 2017). OVID-19 public health actions, including social distancing, self isolation, and sheltering in place, may be effective for curbing the spread of COVID-19. However, the emotional and psychosocial impacts of these prevention efforts are yet to be understood among already strained aging caregivers providing constant care for a person with ADRD. |
Yazzie, Del; Tallis, Kristen; Curley, Caleigh; Sanderson, Priscilla R; Eddie, Regina; Behrens, Timothy K; Antone-Nez, Ramona; Ashley, Martin; Benally, Herbert John; Begay, Gloria Ann; Jumbo-Rintila, Shirleen; de Heer, Hendrik D The Navajo Nation Healthy Diné Nation Act: A Two Percent Tax on Foods of Minimal-to-No Nutritious Value, 2015–2019 Preventing Chronic Disease Journal Article Preventing Chronic Disease, 17 , 2020. @article{Yazzie2020, title = {The Navajo Nation Healthy Diné Nation Act: A Two Percent Tax on Foods of Minimal-to-No Nutritious Value, 2015–2019 Preventing Chronic Disease}, author = {Del Yazzie and Kristen Tallis and Caleigh Curley and Priscilla R. Sanderson and Regina Eddie and Timothy K. Behrens and Ramona Antone-Nez and Martin Ashley and Herbert John Benally and Gloria Ann Begay and Shirleen Jumbo-Rintila and Hendrik D. de Heer}, url = {https://www.cdc.gov/pcd/issues/2020/pdf/20_0038.pdf}, year = {2020}, date = {2020-09-03}, journal = {Preventing Chronic Disease}, volume = {17}, abstract = {Our study summarizes tax revenue and disbursements from the Navajo Nation Healthy Diné Nation Act of 2014, which included a 2% tax on foods of minimal-to-no nutritional value (junk food tax), the first in the United States and in any sovereign tribal nation. Since the tax was implemented in 2015, its gross revenue has been $7.58 million, including $1,887,323 in 2016, the first full year. Revenue decreased in absolute value by 3.2% in 2017, 1.2% in 2018, and 4.6% in 2019, a significant downward trend (P = .02). Revenue allocated for wellness projects averaged $13,171 annually for each local community, with over 99% successfully disbursed and more rural areas generating significantly less revenue. Our results provide context on expected revenue, decreases over time, and feasibility for tribal and rural communities considering similar policies.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Our study summarizes tax revenue and disbursements from the Navajo Nation Healthy Diné Nation Act of 2014, which included a 2% tax on foods of minimal-to-no nutritional value (junk food tax), the first in the United States and in any sovereign tribal nation. Since the tax was implemented in 2015, its gross revenue has been $7.58 million, including $1,887,323 in 2016, the first full year. Revenue decreased in absolute value by 3.2% in 2017, 1.2% in 2018, and 4.6% in 2019, a significant downward trend (P = .02). Revenue allocated for wellness projects averaged $13,171 annually for each local community, with over 99% successfully disbursed and more rural areas generating significantly less revenue. Our results provide context on expected revenue, decreases over time, and feasibility for tribal and rural communities considering similar policies. |
Pro, George; Hubach, Randolph; Wheeler, Denna; Camplain, Ricky; Haberstroh, Shane; Giano, Zachary; Camplain, Carolyn; Baldwin, Julie A Differences in US COVID-19 case rates and case fatality rates across the urban-rural continuum Journal Article Rural Remote Health, 20 (3), 2020. @article{Pro2020b, title = {Differences in US COVID-19 case rates and case fatality rates across the urban-rural continuum}, author = {George Pro and Randolph Hubach and Denna Wheeler and Ricky Camplain and Shane Haberstroh and Zachary Giano and Carolyn Camplain and Julie A Baldwin}, url = {https://www.rrh.org.au/journal/article/6074}, doi = {10.22605/RRH6074}, year = {2020}, date = {2020-08-19}, journal = {Rural Remote Health}, volume = {20}, number = {3}, abstract = {The majority of COVID-19 public health and media messaging in the USA has focused on major outbreaks in densely populated urban areas, including New York City, New Orleans and Seattle. This attention is indeed warranted, as the number of deaths is an important indicator of outbreak severity and informs public health, medical and government responses. In addition to case rates and the number of deaths, the case fatality rate is another epidemiologic tool used in disease surveillance and is helpful in illuminating disparities between urban and rural populations. Case fatality rates account for the number of deaths (numerator) and the number of reported cases (denominator), allowing for direct comparisons of the mortality burden of a disease between areas where the reported case rates may differ.}, keywords = {}, pubstate = {published}, tppubtype = {article} } The majority of COVID-19 public health and media messaging in the USA has focused on major outbreaks in densely populated urban areas, including New York City, New Orleans and Seattle. This attention is indeed warranted, as the number of deaths is an important indicator of outbreak severity and informs public health, medical and government responses. In addition to case rates and the number of deaths, the case fatality rate is another epidemiologic tool used in disease surveillance and is helpful in illuminating disparities between urban and rural populations. Case fatality rates account for the number of deaths (numerator) and the number of reported cases (denominator), allowing for direct comparisons of the mortality burden of a disease between areas where the reported case rates may differ. |
Edgeley, Catrin M; Burnett, Jack T Navigating the wildfire-pandemic interface: Public perceptions of COVID-19 and the 2020 wildfire season in Arizona Journal Article Fire, 3 (3), pp. 41, 2020. @article{Edgeley2020, title = {Navigating the wildfire-pandemic interface: Public perceptions of COVID-19 and the 2020 wildfire season in Arizona}, author = {Catrin M Edgeley and Jack T Burnett}, url = {https://www.mdpi.com/2571-6255/3/3/41}, doi = {10.3390/fire3030041}, year = {2020}, date = {2020-08-09}, journal = {Fire}, volume = {3}, number = {3}, pages = {41}, abstract = {COVID-19 has complicated wildfire management and public safety for the 2020 fire season. It is unclear whether COVID-19 has impacted the ability of residents in the wildland-urban interface to prepare for and evacuate from wildfire, or the extent to which residents feel their household's safety has been affected. Several areas with high wildfire risk are also experiencing record numbers of COVID-19 cases, including the state of Arizona in the southwestern United States. We conducted a mixed-mode survey of households in close proximity to two recent wildfires in rural Arizona to better understand whether residents living in the wildland-urban interface perceive COVID-19 as a factor in wildfire safety. Preliminary data suggest that the current challenges around collective action to address wildfire risk may be further exacerbated due to COVID-19, and that the current pandemic has potentially widened existing disparities in household capacity to conduct wildfire risk mitigation activities in the wildland-urban interface. Proactive planning for wildfire has also increased perceived ability to practice safe distancing from others during evacuation, highlighting the benefits that household planning for wildfire can have on other concurrent hazards. Parallels in both the wildfire and pandemic literature highlight vast opportunities for future research that can expand upon and advance our findings.}, keywords = {}, pubstate = {published}, tppubtype = {article} } COVID-19 has complicated wildfire management and public safety for the 2020 fire season. It is unclear whether COVID-19 has impacted the ability of residents in the wildland-urban interface to prepare for and evacuate from wildfire, or the extent to which residents feel their household's safety has been affected. Several areas with high wildfire risk are also experiencing record numbers of COVID-19 cases, including the state of Arizona in the southwestern United States. We conducted a mixed-mode survey of households in close proximity to two recent wildfires in rural Arizona to better understand whether residents living in the wildland-urban interface perceive COVID-19 as a factor in wildfire safety. Preliminary data suggest that the current challenges around collective action to address wildfire risk may be further exacerbated due to COVID-19, and that the current pandemic has potentially widened existing disparities in household capacity to conduct wildfire risk mitigation activities in the wildland-urban interface. Proactive planning for wildfire has also increased perceived ability to practice safe distancing from others during evacuation, highlighting the benefits that household planning for wildfire can have on other concurrent hazards. Parallels in both the wildfire and pandemic literature highlight vast opportunities for future research that can expand upon and advance our findings. |
Ferdows, Nasim B; Aranda, María P; Baldwin, Julie A; Ferdows, Soroosh Baghban; Ahluwalia, Jasjit S; Kumar, Amit Assessment of Racial Disparities in Mortality Rates Among Older Adults Living in US Rural vs Urban Counties From 1968 to 2016 Journal Article JAMA Network Open, 3 (8), 2020. @article{Ferdows2020, title = {Assessment of Racial Disparities in Mortality Rates Among Older Adults Living in US Rural vs Urban Counties From 1968 to 2016}, author = {Nasim B Ferdows and María P Aranda and Julie A Baldwin and Soroosh Baghban Ferdows and Jasjit S Ahluwalia and Amit Kumar}, url = {https://jamanetwork.com/journals/jamanetworkopen/fullarticle/2768943}, doi = {10.1001/jamanetworkopen.2020.1224}, year = {2020}, date = {2020-08-03}, journal = {JAMA Network Open}, volume = {3}, number = {8}, abstract = {Population-based mortality rates are important indicators of overall health status. Mortality rates may reflect underlying disparities in access to health care, quality of care, racial and geographical variations, and other socioeconomic factors associated with health. However, there is limited information on historical trends in mortality rates between older Black and White adults living in urban compared with rural communities.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Population-based mortality rates are important indicators of overall health status. Mortality rates may reflect underlying disparities in access to health care, quality of care, racial and geographical variations, and other socioeconomic factors associated with health. However, there is limited information on historical trends in mortality rates between older Black and White adults living in urban compared with rural communities. |
Williamson, Heather J; Chief, Carmenlita; Jiménez, Dulce; Begay, Andria; Milner, Trudie F; Sullivan, Shevaun; Torres, Emma; Remiker, Mark; Longorio, Alexandra Elvira Samarron; Sabo, Samantha; Teufel-Shone, Nicolette I Voices of Community Partners: Perspectives Gained from Conversations of Community-Based Participatory Research Experiences Journal Article International Journal of Environmental Research and Public Health, 2020. @article{Williamson2020, title = {Voices of Community Partners: Perspectives Gained from Conversations of Community-Based Participatory Research Experiences}, author = {Heather J. Williamson and Carmenlita Chief and Dulce Jiménez and Andria Begay and Trudie F. Milner and Shevaun Sullivan and Emma Torres and Mark Remiker and Alexandra Elvira Samarron Longorio and Samantha Sabo and Nicolette I. Teufel-Shone}, url = {https://www.mdpi.com/1660-4601/17/14/5245}, doi = {10.3390/ijerph17145245}, year = {2020}, date = {2020-07-21}, journal = {International Journal of Environmental Research and Public Health}, abstract = {Community-based participatory research (CBPR) has been documented as an effective approach to research with underserved communities, particularly with racial and ethnic minority groups. However, much of the literature promoting the use of CBPR with underserved communities is written from the perspective of the researchers and not from the perspective of the community partner. The purpose of this article is to capture lessons learned from the community partners’insight gained through their experiences with CBPR. A multi-investigator consensus method was used to qualitatively code the transcripts of a CBPR story-telling video series. Seven major themes were identified: (1) expectations for engaging in research, (2) cultural humility, (3) respecting the partnership, (4) open communication, (5) genuine commitment, (6) valuing strengths and recognizing capacities, and (7) collaborating to yield meaningful results. The themes drawn from the community partner’s voice align with the tenets of CBPR advanced in the academic literature.More opportunities to include the community voice when promoting CBPR should be undertaken to help introduce the concepts to potential community partners who may be research cautious.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Community-based participatory research (CBPR) has been documented as an effective approach to research with underserved communities, particularly with racial and ethnic minority groups. However, much of the literature promoting the use of CBPR with underserved communities is written from the perspective of the researchers and not from the perspective of the community partner. The purpose of this article is to capture lessons learned from the community partners’insight gained through their experiences with CBPR. A multi-investigator consensus method was used to qualitatively code the transcripts of a CBPR story-telling video series. Seven major themes were identified: (1) expectations for engaging in research, (2) cultural humility, (3) respecting the partnership, (4) open communication, (5) genuine commitment, (6) valuing strengths and recognizing capacities, and (7) collaborating to yield meaningful results. The themes drawn from the community partner’s voice align with the tenets of CBPR advanced in the academic literature.More opportunities to include the community voice when promoting CBPR should be undertaken to help introduce the concepts to potential community partners who may be research cautious. |
Ghazanfari, Behzad; Afghah, Fatemeh; Hajiaghayi, Mohammadtaghi Inverse Feature Learning: Feature Learning Based on Representation Learning of Error Journal Article IEEEXplore, 8 , pp. 132937 - 132949, 2020. @article{Ghazanfari2020, title = {Inverse Feature Learning: Feature Learning Based on Representation Learning of Error}, author = {Behzad Ghazanfari and Fatemeh Afghah and Mohammadtaghi Hajiaghayi}, url = {https://ieeexplore.ieee.org/document/9143092}, doi = {10.1109/ACCESS.2020.3009902}, year = {2020}, date = {2020-07-17}, journal = {IEEEXplore}, volume = {8}, pages = {132937 - 132949}, abstract = {This paper proposes inverse feature learning (IFL) as a novel supervised feature learning technique that learns a set of high-level features for classification based on an error representation approach. The key contribution of this method is to learn the representation of error as high-level features, while current representation learning methods interpret error by loss functions which are obtained as a function of differences between the true labels and the predicted ones. One advantage of this error representation is that the learned features for each class can be obtained independently of learned features for other classes; therefore, IFL can learn simultaneously meaning that it can learn new classes' features without retraining. Error representation learning can also help with generalization and reduce the chance of over-fitting by adding a set of impactful features to the original data set which capture the relationships between each instance and different classes through an error generation and analysis process. This method can be particularly effective in data sets, where the instances of each class have diverse feature representations or the ones with imbalanced classes. The experimental results show that the proposed IFL results in better performance compared to the state-of-the-art classification techniques for several popular data sets. We hope this paper can open a new path to utilize the proposed perspective of error representation learning in different feature learning domains.}, keywords = {}, pubstate = {published}, tppubtype = {article} } This paper proposes inverse feature learning (IFL) as a novel supervised feature learning technique that learns a set of high-level features for classification based on an error representation approach. The key contribution of this method is to learn the representation of error as high-level features, while current representation learning methods interpret error by loss functions which are obtained as a function of differences between the true labels and the predicted ones. One advantage of this error representation is that the learned features for each class can be obtained independently of learned features for other classes; therefore, IFL can learn simultaneously meaning that it can learn new classes' features without retraining. Error representation learning can also help with generalization and reduce the chance of over-fitting by adding a set of impactful features to the original data set which capture the relationships between each instance and different classes through an error generation and analysis process. This method can be particularly effective in data sets, where the instances of each class have diverse feature representations or the ones with imbalanced classes. The experimental results show that the proposed IFL results in better performance compared to the state-of-the-art classification techniques for several popular data sets. We hope this paper can open a new path to utilize the proposed perspective of error representation learning in different feature learning domains. |
Ingram, Maia; Sabo, Samantha; Redondo, Floribella; Soto, Yanitza; Russell, Kim; Carter, Heather; Bender, Brook; de Zapien, Jill Guernsey Establishing voluntary certification of community health workers in Arizona: a policy case study of building a unified workforce Journal Article Human Resources for Health, 18 (46), 2020. @article{Ingram2020, title = {Establishing voluntary certification of community health workers in Arizona: a policy case study of building a unified workforce}, author = {Maia Ingram and Samantha Sabo and Floribella Redondo and Yanitza Soto and Kim Russell and Heather Carter and Brook Bender and Jill Guernsey de Zapien }, url = {https://doi.org/10.1186/s12960-020-00487-7}, doi = {10.1186/s12960-020-00487-7}, year = {2020}, date = {2020-06-26}, journal = {Human Resources for Health}, volume = {18}, number = {46}, abstract = {Community health workers (CHWs) are widely recognized as essential to addressing disparities in health care delivery and outcomes in US vulnerable populations. In the state of Arizona, the sustainability of the workforce is threatened by low wages, poor job security, and limited opportunities for training and advancement within the profession. CHW voluntary certification offers an avenue to increase the recognition, compensation, training, and standardization of the workforce. However, passing voluntary certification legislation in an anti-regulatory state such as Arizona posed a major challenge that required a robust advocacy effort.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Community health workers (CHWs) are widely recognized as essential to addressing disparities in health care delivery and outcomes in US vulnerable populations. In the state of Arizona, the sustainability of the workforce is threatened by low wages, poor job security, and limited opportunities for training and advancement within the profession. CHW voluntary certification offers an avenue to increase the recognition, compensation, training, and standardization of the workforce. However, passing voluntary certification legislation in an anti-regulatory state such as Arizona posed a major challenge that required a robust advocacy effort. |
Jones, M C; Credo, Jonathan; Ingram, Jani; Baldwin, Julie A; Trotter, Robert T; Propper, Catherine Arsenic Concentrations in Ground and Surface Waters across Arizona Including Native Lands Journal Article Journal of Contemporary Water Research & Education, 122 (5), pp. 523-537, 2020. @article{Jones2020, title = {Arsenic Concentrations in Ground and Surface Waters across Arizona Including Native Lands}, author = {M.C. Jones and Jonathan Credo and Jani Ingram and Julie A. Baldwin and Robert T. Trotter and Catherine Propper}, url = {https://doi.org/10.1111/j.1936-704X.2020.03331.x}, doi = {10.1002/jcb.29885}, year = {2020}, date = {2020-06-01}, journal = {Journal of Contemporary Water Research & Education}, volume = {122}, number = {5}, pages = {523-537}, abstract = {Parts of the Southwestern United States report arsenic levels in water resources that are above the United States Environmental Protection Agency’s current drinking water limits. Prolonged exposure to arsenic through food and drinking water can contribute to significant health problems including cancer, developmental effects, cardiovascular disease, neurotoxicity, and diabetes. In order to understand exposure risks, water sampling and testing has been conducted throughout Arizona. This information is available to the public through often non-overlapping databases that are difficult to access and in impracticable formats. The current study utilized a systemic compilation of online databases to compile a spreadsheet containing over 33,000 water samples. The reported arsenic concentrations from these databases were collected from 1990–2017. Using ArcGIS software, these data were converted into a map shapefile and overlaid onto a map of Arizona. This visual representation shows that arsenic levels in surface and ground water exceed the United States Environmental Protection Agency’s drinking water limits for many sites in several counties in Arizona, and there is an underrepresentation of sampling in several tribal jurisdictions. This information is useful for water managers and private well owners throughout the State for determining safe drinking water sources and limiting exposure to arsenic.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Parts of the Southwestern United States report arsenic levels in water resources that are above the United States Environmental Protection Agency’s current drinking water limits. Prolonged exposure to arsenic through food and drinking water can contribute to significant health problems including cancer, developmental effects, cardiovascular disease, neurotoxicity, and diabetes. In order to understand exposure risks, water sampling and testing has been conducted throughout Arizona. This information is available to the public through often non-overlapping databases that are difficult to access and in impracticable formats. The current study utilized a systemic compilation of online databases to compile a spreadsheet containing over 33,000 water samples. The reported arsenic concentrations from these databases were collected from 1990–2017. Using ArcGIS software, these data were converted into a map shapefile and overlaid onto a map of Arizona. This visual representation shows that arsenic levels in surface and ground water exceed the United States Environmental Protection Agency’s drinking water limits for many sites in several counties in Arizona, and there is an underrepresentation of sampling in several tribal jurisdictions. This information is useful for water managers and private well owners throughout the State for determining safe drinking water sources and limiting exposure to arsenic. |
Reynolds, Lori; Rogers, Oaklee; Benford, Andrew; Ingwaldson, Ammie; Vu, Bethany; Holstege, Tiffany; Alvarado, Korinna Virtual Nature as an Intervention for Reducing Stress and Improving Mood in People with Substance Use Disorder Journal Article Journal of Addiction, 2020 , 2020. @article{Reynolds2020, title = {Virtual Nature as an Intervention for Reducing Stress and Improving Mood in People with Substance Use Disorder}, author = {Lori Reynolds and Oaklee Rogers and Andrew Benford and Ammie Ingwaldson and Bethany Vu and Tiffany Holstege and Korinna Alvarado}, url = {https://doi.org/10.1155/2020/1892390}, doi = {10.1155/2020/1892390}, year = {2020}, date = {2020-05-20}, journal = {Journal of Addiction}, volume = {2020}, abstract = {Substance use disorder (SUD) afflicts a large percentage of the United States population, with negative implications that cost more than $420 billion annually. This population often experiences negative emotions throughout the recovery process, including anxiety, depression, stress, and negative affect. Currently, evidence-based treatment strategies for SUD include cognitive behavioral therapy, motivational interviewing, 12-step programs, and mindfulness-based treatment. One intervention that has not been studied at length among individuals with SUD is use of the natural environment as treatment. Among other patient populations, nature has been shown to reduce stress and anxiety by regulating autonomic nervous system function, reducing symptoms of depression, and improving mood. The purpose of this study was to investigate whether viewing nature videos could similarly reduce stress and improve mood in individuals with SUD. A crossover design was used to compare viewing a nature scene and practicing mindfulness-based activities for women with SUD at a residential treatment facility. Over four weeks, participants engaged in the two activities for the first 10 minutes of their daily program. Immediately before and after each 10 minute session, measures were taken for heart rate, in beats per minute (BPM); affect, using the Positive and Negative Affect Scale (PANAS); and overall mood, using a 10-point rating scale from “very unpleasant” to “pleasant.” Thirty-six women completed the study. For viewing a nature scene and practicing the mindfulness-based activities, there were statistically significant reductions in mean negative affect scores () and heart rate (). In addition, for participants in both conditions, overall mood improved significantly (). The results from this study provide initial evidence that viewing nature has similar benefits to MBT in the treatment of stress and negative mood associated with the SUD recovery process and may be an additional, cost-effective treatment strategy for individuals with SUD.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Substance use disorder (SUD) afflicts a large percentage of the United States population, with negative implications that cost more than $420 billion annually. This population often experiences negative emotions throughout the recovery process, including anxiety, depression, stress, and negative affect. Currently, evidence-based treatment strategies for SUD include cognitive behavioral therapy, motivational interviewing, 12-step programs, and mindfulness-based treatment. One intervention that has not been studied at length among individuals with SUD is use of the natural environment as treatment. Among other patient populations, nature has been shown to reduce stress and anxiety by regulating autonomic nervous system function, reducing symptoms of depression, and improving mood. The purpose of this study was to investigate whether viewing nature videos could similarly reduce stress and improve mood in individuals with SUD. A crossover design was used to compare viewing a nature scene and practicing mindfulness-based activities for women with SUD at a residential treatment facility. Over four weeks, participants engaged in the two activities for the first 10 minutes of their daily program. Immediately before and after each 10 minute session, measures were taken for heart rate, in beats per minute (BPM); affect, using the Positive and Negative Affect Scale (PANAS); and overall mood, using a 10-point rating scale from “very unpleasant” to “pleasant.” Thirty-six women completed the study. For viewing a nature scene and practicing the mindfulness-based activities, there were statistically significant reductions in mean negative affect scores () and heart rate (). In addition, for participants in both conditions, overall mood improved significantly (). The results from this study provide initial evidence that viewing nature has similar benefits to MBT in the treatment of stress and negative mood associated with the SUD recovery process and may be an additional, cost-effective treatment strategy for individuals with SUD. |
Lindly, Olivia J; Martin, Alison J; Lally, Kathryn Community Mental Health Journal, 2020. @article{Lindly2020, title = {A Profile of Care Coordination, Missed School Days, and Unmet Needs Among Oregon Children With Special Health Care Needs With Behavioral and Mental Health Conditions}, author = {Olivia J Lindly and Alison J Martin and Kathryn Lally}, url = {https://doi.org/10.1007/s10597-020-00609-4}, doi = {10.1007/s10597-020-00609-4}, year = {2020}, date = {2020-04-01}, journal = {Community Mental Health Journal}, abstract = {To inform Oregon's Title V needs assessment activities, we aimed to (1) characterize the state's subpopulation of children with special health care needs (CSHCN) with behavioral and mental health conditions (B/MHC) and (2) determine associations of care coordination with missed school days and unmet needs for this subpopulation. We analyzed 2009-2010 National Survey of Children with Special Health Care Needs data on 736 Oregon CSHCN < 18 years, including 418 CSHCN with B/MHC. Among Oregon CSHCN with B/MHC: 48.9% missed ≥ 4 school days, 25% had ≥ 1 unmet health services need, and 14.8% had ≥ 1 unmet family support services need. Care coordination was associated with lower adjusted odds of ≥ 1 unmet health services need but was not significantly associated with missed school days or unmet family support services need. The approach to identify Oregon CSHCN with B/MHC may be adopted by other states endeavoring to improve health for this vulnerable subpopulation}, keywords = {}, pubstate = {published}, tppubtype = {article} } To inform Oregon's Title V needs assessment activities, we aimed to (1) characterize the state's subpopulation of children with special health care needs (CSHCN) with behavioral and mental health conditions (B/MHC) and (2) determine associations of care coordination with missed school days and unmet needs for this subpopulation. We analyzed 2009-2010 National Survey of Children with Special Health Care Needs data on 736 Oregon CSHCN < 18 years, including 418 CSHCN with B/MHC. Among Oregon CSHCN with B/MHC: 48.9% missed ≥ 4 school days, 25% had ≥ 1 unmet health services need, and 14.8% had ≥ 1 unmet family support services need. Care coordination was associated with lower adjusted odds of ≥ 1 unmet health services need but was not significantly associated with missed school days or unmet family support services need. The approach to identify Oregon CSHCN with B/MHC may be adopted by other states endeavoring to improve health for this vulnerable subpopulation |
Pro, George; Utter, Jeff; Haberstroh, Shane; Baldwin, Julie Drug Alcohol Dependence , 209 , 2020. @article{Pro2020c, title = {Dual mental health diagnoses predict the receipt of medication-assisted opioid treatment: Associations moderated by state Medicaid expansion status, race/ethnicity and gender, and year}, author = {George Pro and Jeff Utter and Shane Haberstroh and Julie Baldwin}, url = {https://doi.org/10.1016/j.drugalcdep.2020.107952}, doi = {10.1016/j.drugalcdep.2020.107952}, year = {2020}, date = {2020-04-01}, journal = {Drug Alcohol Dependence }, volume = {209}, abstract = {Mental health diagnoses (MHD) are common among those with opioid use disorders (OUD). Methadone/buprenorphine are effective medication-assisted treatment (MAT) strategies; however, treatment receipt is low among those with dual MHDs. Medicaid expansions have broadly increased access to OUD and mental health services over time, but MAT uptake may vary depending on multiple factors, including MHD status, state Medicaid expansion decisions, and race/ethnicity and gender. Examining clinical and policy approaches to promoting MAT uptake may improve services among marginalized groups.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Mental health diagnoses (MHD) are common among those with opioid use disorders (OUD). Methadone/buprenorphine are effective medication-assisted treatment (MAT) strategies; however, treatment receipt is low among those with dual MHDs. Medicaid expansions have broadly increased access to OUD and mental health services over time, but MAT uptake may vary depending on multiple factors, including MHD status, state Medicaid expansion decisions, and race/ethnicity and gender. Examining clinical and policy approaches to promoting MAT uptake may improve services among marginalized groups. |
Stout, Nicole L; Brown, Justin C; Schwartz, Anna L; Marshall, Timothy F; Campbell, Anna M; Nekhlyudov, Larissa; Zucker, David S; Basen-Engquist, Karen M; Campbell, Grace; Meyerhardt, Jeffrey; Cheville, Andrea L; Covington, Kelley R; Ligibel, Jennifer A; Sokolof, Jonas M; Schmitz, Kathryn H; Alfano, Catherine M An exercise oncology clinical pathway: Screening and referral for personalized interventions Journal Article American Cancer Society Journals, 2020. @article{Stout2020, title = {An exercise oncology clinical pathway: Screening and referral for personalized interventions}, author = {Nicole L Stout and Justin C Brown and Anna L Schwartz and Timothy F Marshall and Anna M Campbell and Larissa Nekhlyudov and David S Zucker and Karen M Basen-Engquist and Grace Campbell and Jeffrey Meyerhardt and Andrea L Cheville and Kelley R Covington and Jennifer A Ligibel and Jonas M Sokolof and Kathryn H Schmitz and Catherine M Alfano}, url = {https://acsjournals.onlinelibrary.wiley.com/doi/abs/10.1002/cncr.32860}, doi = {10.1002/cncr.32860}, year = {2020}, date = {2020-03-25}, journal = {American Cancer Society Journals}, abstract = {This article presents a clinical screening and referral framework to enable health care professionals to guide individuals with cancer to safe and effective exercise programs.}, keywords = {}, pubstate = {published}, tppubtype = {article} } This article presents a clinical screening and referral framework to enable health care professionals to guide individuals with cancer to safe and effective exercise programs. |
Pearson, Talima; Sahl, Jason; Hepp, Crystal; Handady, Karthik; Hornstra, Heidie; Vazquez, Adam J; Mayo, Erik Settles Mark; Kaestli, Mirjam; Williamson, Heather; Price, Erin P; Sarovich, Derek S; Cook, James M; Wolken, Spenser R; Bowen, Richard; Tuanyok, Apichai; Foster, Jeffrey; Drees, Keven P; Kidd, Timothy J; Bell, Scott C; Currie, Bart J; Keim, Paul PLoS Pathogens, 2020. @article{Pearson2020, title = {Pathogen to Commensal? Longitudinal Within-Host Population Dynamics, Evolution, and Adaptation During a Chronic >16-year Burkholderia Pseudomallei Infection}, author = {Talima Pearson and Jason Sahl and Crystal Hepp and Karthik Handady and Heidie Hornstra and Adam J. Vazquez and Erik Settles Mark Mayo and Mirjam Kaestli and Heather Williamson and Erin P. Price and Derek S. Sarovich and James M. Cook and Spenser R. Wolken and Richard Bowen and Apichai Tuanyok and Jeffrey Foster and Keven P. Drees and Timothy J. Kidd and Scott C. Bell and Bart J. Currie and Paul Keim}, url = {https://journals.plos.org/plospathogens/article?id=10.1371/journal.ppat.1008298}, doi = {10.1371/journal.ppat.1008298}, year = {2020}, date = {2020-03-05}, journal = {PLoS Pathogens}, abstract = {Although acute melioidosis is the most common outcome of Burkholderia pseudomallei infection, we have documented a case, P314, where disease severity lessened with time, and the pathogen evolved towards a commensal relationship with the host. In the current study, we used whole-genome sequencing to monitor this long-term symbiotic relationship to better understand B. pseudomallei persistence in P314's sputum despite intensive initial therapeutic regimens. We collected and sequenced 118 B. pseudomallei isolates from P314's airways over a >16-year period, and also sampled the patient's home environment, recovering six closely related B. pseudomallei isolates from the household water system. Using comparative genomics, we identified 126 SNPs in the core genome of the 124 isolates or 162 SNPs/indels when the accessory genome was included. The core SNPs were used to construct a phylogenetic tree, which demonstrated a close relationship between environmental and clinical isolates and detailed within-host evolutionary patterns. The phylogeny had little homoplasy, consistent with a strictly clonal mode of genetic inheritance. Repeated sampling revealed evidence of genetic diversification, but frequent extinctions left only one successful lineage through the first four years and two lineages after that. Overall, the evolution of this population is nonadaptive and best explained by genetic drift. However, some genetic and phenotypic changes are consistent with in situ adaptation. Using a mouse model, P314 isolates caused greatly reduced morbidity and mortality compared to the environmental isolates. Additionally, potentially adaptive phenotypes emerged and included differences in the O-antigen, capsular polysaccharide, motility, and colony morphology. The >13-year co-existence of two long-lived lineages presents interesting hypotheses that can be tested in future studies to provide additional insights into selective pressures, niche differentiation, and microbial adaptation. This unusual melioidosis case presents a rare example of the evolutionary progression towards commensalism by a highly virulent pathogen within a single human host.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Although acute melioidosis is the most common outcome of Burkholderia pseudomallei infection, we have documented a case, P314, where disease severity lessened with time, and the pathogen evolved towards a commensal relationship with the host. In the current study, we used whole-genome sequencing to monitor this long-term symbiotic relationship to better understand B. pseudomallei persistence in P314's sputum despite intensive initial therapeutic regimens. We collected and sequenced 118 B. pseudomallei isolates from P314's airways over a >16-year period, and also sampled the patient's home environment, recovering six closely related B. pseudomallei isolates from the household water system. Using comparative genomics, we identified 126 SNPs in the core genome of the 124 isolates or 162 SNPs/indels when the accessory genome was included. The core SNPs were used to construct a phylogenetic tree, which demonstrated a close relationship between environmental and clinical isolates and detailed within-host evolutionary patterns. The phylogeny had little homoplasy, consistent with a strictly clonal mode of genetic inheritance. Repeated sampling revealed evidence of genetic diversification, but frequent extinctions left only one successful lineage through the first four years and two lineages after that. Overall, the evolution of this population is nonadaptive and best explained by genetic drift. However, some genetic and phenotypic changes are consistent with in situ adaptation. Using a mouse model, P314 isolates caused greatly reduced morbidity and mortality compared to the environmental isolates. Additionally, potentially adaptive phenotypes emerged and included differences in the O-antigen, capsular polysaccharide, motility, and colony morphology. The >13-year co-existence of two long-lived lineages presents interesting hypotheses that can be tested in future studies to provide additional insights into selective pressures, niche differentiation, and microbial adaptation. This unusual melioidosis case presents a rare example of the evolutionary progression towards commensalism by a highly virulent pathogen within a single human host. |
Cocking, Jill Hager; Deberg, Michael; Schupp, Jim; Sahl, Jason; Wiggins, Kristin; Porty, Ariel; Hornstra, Heidie M; Hepp, Crystal; Jardine, Claire; Furstenau, Tara N; Schulte-Hostedde, Albrecht; Fofanov, Viacheslav Y; Pearson, Talima Selective Whole Genome Amplification and Sequencing of Coxiella Burnetii Directly From Environmental Samples Journal Article Genomics, 112 (2), pp. 1872-1878, 2020. @article{Cocking2020, title = {Selective Whole Genome Amplification and Sequencing of Coxiella Burnetii Directly From Environmental Samples}, author = {Jill Hager Cocking and Michael Deberg and Jim Schupp and Jason Sahl and Kristin Wiggins and Ariel Porty and Heidie M. Hornstra and Crystal Hepp and Claire Jardine and Tara N. Furstenau and Albrecht Schulte-Hostedde and Viacheslav Y. Fofanov and Talima Pearson}, url = {https://www.sciencedirect.com/science/article/pii/S0888754319302058?via%3Dihub}, doi = {10.1016/j.ygeno.2019.10.022}, year = {2020}, date = {2020-03-01}, journal = {Genomics}, volume = {112}, number = {2}, pages = {1872-1878}, abstract = {Whole genome sequencing (WGS) is a widely available, inexpensive means of providing a wealth of information about an organism's diversity and evolution. However, WGS for many pathogenic bacteria remain limited because they are difficult, slow and/or dangerous to culture. To avoid culturing, metagenomic sequencing can be performed directly on samples, but the sequencing effort required to characterize low frequency organisms can be expensive. Recently developed methods for selective whole genome amplification (SWGA) can enrich target DNA to provide efficient sequencing. We amplified Coxiella burnetii (a bacterial select agent and human/livestock pathogen) from 3 three environmental samples that were overwhelmed with host DNA. The 68- to 147-fold enrichment of the bacterial sequences provided enough genome coverage for SNP analyses and phylogenetic placement. SWGA is a valuable tool for the study of difficult-to-culture organisms and has the potential to facilitate high-throughput population characterizations as well as targeted epidemiological or forensic investigations.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Whole genome sequencing (WGS) is a widely available, inexpensive means of providing a wealth of information about an organism's diversity and evolution. However, WGS for many pathogenic bacteria remain limited because they are difficult, slow and/or dangerous to culture. To avoid culturing, metagenomic sequencing can be performed directly on samples, but the sequencing effort required to characterize low frequency organisms can be expensive. Recently developed methods for selective whole genome amplification (SWGA) can enrich target DNA to provide efficient sequencing. We amplified Coxiella burnetii (a bacterial select agent and human/livestock pathogen) from 3 three environmental samples that were overwhelmed with host DNA. The 68- to 147-fold enrichment of the bacterial sequences provided enough genome coverage for SNP analyses and phylogenetic placement. SWGA is a valuable tool for the study of difficult-to-culture organisms and has the potential to facilitate high-throughput population characterizations as well as targeted epidemiological or forensic investigations. |
Pinto, Bronson I; Cruz, Nathan D; Lujan, Oscar R; Propper, Catherine R; Kellar, Robert S In Vitro Scratch Assay to Demonstrate Effects of Arsenic on Skin Cell Migration Journal Article Jove, 144 , 2020. @article{Pinto2020, title = {In Vitro Scratch Assay to Demonstrate Effects of Arsenic on Skin Cell Migration}, author = {Bronson I Pinto and Nathan D Cruz and Oscar R Lujan and Catherine R Propper and Robert S Kellar}, url = {https://www.jove.com/video/58838/in-vitro-scratch-assay-to-demonstrate-effects-arsenic-on-skin-cell}, doi = {10.3791/58838}, year = {2020}, date = {2020-02-23}, journal = {Jove}, volume = {144}, abstract = {Understanding the physiologic mechanisms of wound healing has been the focus of ongoing research for many years. This research directly translates into changes in clinical standards used for treating wounds and decreasing morbidity and mortality for patients. Wound healing is a complex process that requires strategic cell and tissue interaction and function. One of the many critically important functions of wound healing is individual and collective cellular migration. Upon injury, various cells from the blood, surrounding connective, and epithelial tissues rapidly migrate to the wound site by way of chemical and/or physical stimuli. This migration response can largely dictate the outcomes and success of a healing wound. Understanding this specific cellular function is important for translational medicine that can lead to improved wound healing outcomes. Here, we describe a protocol used to better understand cellular migration as it pertains to wound healing, and how changes to the cellular environment can significantly alter this process. In this example study, dermal fibroblasts were grown in media supplemented with fetal bovine serum (FBS) as monolayer cultures in tissue culture flasks. Cells were aseptically transferred into tissue culture treated 12-well plates and grown to 100% confluence. Upon reaching confluence, the cells in the monolayer were vertically scratched using a p200 pipet tip. Arsenic diluted in culture media supplemented with FBS was added to individual wells at environmentally relevant doses ranging 0.1-10 μM. Images were captured every 4 hours (h) over a 24 h period using an inverted light microscope to observe cellular migration (wound closure). Images were individually analyzed using image analysis software, and percent wound closure was calculated. Results demonstrate that arsenic slows down wound healing. This technique provides a rapid and inexpensive first screen for evaluation of the effects of contaminants on wound healing.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Understanding the physiologic mechanisms of wound healing has been the focus of ongoing research for many years. This research directly translates into changes in clinical standards used for treating wounds and decreasing morbidity and mortality for patients. Wound healing is a complex process that requires strategic cell and tissue interaction and function. One of the many critically important functions of wound healing is individual and collective cellular migration. Upon injury, various cells from the blood, surrounding connective, and epithelial tissues rapidly migrate to the wound site by way of chemical and/or physical stimuli. This migration response can largely dictate the outcomes and success of a healing wound. Understanding this specific cellular function is important for translational medicine that can lead to improved wound healing outcomes. Here, we describe a protocol used to better understand cellular migration as it pertains to wound healing, and how changes to the cellular environment can significantly alter this process. In this example study, dermal fibroblasts were grown in media supplemented with fetal bovine serum (FBS) as monolayer cultures in tissue culture flasks. Cells were aseptically transferred into tissue culture treated 12-well plates and grown to 100% confluence. Upon reaching confluence, the cells in the monolayer were vertically scratched using a p200 pipet tip. Arsenic diluted in culture media supplemented with FBS was added to individual wells at environmentally relevant doses ranging 0.1-10 μM. Images were captured every 4 hours (h) over a 24 h period using an inverted light microscope to observe cellular migration (wound closure). Images were individually analyzed using image analysis software, and percent wound closure was calculated. Results demonstrate that arsenic slows down wound healing. This technique provides a rapid and inexpensive first screen for evaluation of the effects of contaminants on wound healing. |
Ghazanfari, Behzad; Zhang, Sixian; Afghah, Fatemeh; Payton-McCauslin, Nathan Simultaneous Multiple Features Tracking of Beats: A Representation Learning Approach to Reduce False Alarm Rate in ICUs Journal Article Proceedings IEEE International Conference on Bioinformatics and Biomedicine, pp. 2350-2355, 2020. @article{Ghazanfari2020b, title = {Simultaneous Multiple Features Tracking of Beats: A Representation Learning Approach to Reduce False Alarm Rate in ICUs}, author = {Behzad Ghazanfari and Sixian Zhang and Fatemeh Afghah and Nathan Payton-McCauslin}, url = {https://ieeexplore.ieee.org/document/8983408}, doi = {10.1109/bibm47256.2019.8983408}, year = {2020}, date = {2020-02-06}, journal = {Proceedings IEEE International Conference on Bioinformatics and Biomedicine}, pages = {2350-2355}, abstract = {The high rate of false alarms is a key challenge related to patient care in intensive care units (ICUs) that can result in delayed responses of the medical staff. Several rule-based and machine learning-based techniques have been developed to address this problem. However, the majority of these methods rely on the availability of different physiological signals such as different electrocardiogram (ECG) leads, arterial blood pressure (ABP), and photoplethysmogram (PPG), where each signal is analyzed by an independent processing unit and the results are fed to an algorithm to determine an alarm. That calls for novel methods that can accurately detect the cardiac events by only accessing one signal (e.g., ECG) with a low level of computation and sensors requirement. We propose a novel and robust representation learning framework for ECG analysis that only rely on a single lead ECG signal and yet achieves considerably better performance compared to the state-of-the-art works in this domain, without relying on an expert knowledge. We evaluate the performance of this method using the "2015 Physionet computing in cardiology challenge" dataset. To the best of our knowledge, the best previously reported performance is based on both expert knowledge and machine learning where all available signals of ECG, ABP and PPG are utilized. Our proposed method reaches the performance of 97.3%, 95.5 %, and 90.8 % in terms of sensitivity, specificity, and the challenge's score, respectively for the detection of five arrhythmias when only one single ECG lead signals is used without any expert knowledge.}, keywords = {}, pubstate = {published}, tppubtype = {article} } The high rate of false alarms is a key challenge related to patient care in intensive care units (ICUs) that can result in delayed responses of the medical staff. Several rule-based and machine learning-based techniques have been developed to address this problem. However, the majority of these methods rely on the availability of different physiological signals such as different electrocardiogram (ECG) leads, arterial blood pressure (ABP), and photoplethysmogram (PPG), where each signal is analyzed by an independent processing unit and the results are fed to an algorithm to determine an alarm. That calls for novel methods that can accurately detect the cardiac events by only accessing one signal (e.g., ECG) with a low level of computation and sensors requirement. We propose a novel and robust representation learning framework for ECG analysis that only rely on a single lead ECG signal and yet achieves considerably better performance compared to the state-of-the-art works in this domain, without relying on an expert knowledge. We evaluate the performance of this method using the "2015 Physionet computing in cardiology challenge" dataset. To the best of our knowledge, the best previously reported performance is based on both expert knowledge and machine learning where all available signals of ECG, ABP and PPG are utilized. Our proposed method reaches the performance of 97.3%, 95.5 %, and 90.8 % in terms of sensitivity, specificity, and the challenge's score, respectively for the detection of five arrhythmias when only one single ECG lead signals is used without any expert knowledge. |
Kumar, Amit; Rivera-Hernandez, Maricruz; Karmarkar, Amol M; Chou, Lin-Na; Kuo, Yong-Fang; Baldwin, Julie A; Panagiotou, Orestis A; Burke, Robert E; Ottenbacher, Kenneth J Social and Health-Related Factors Associated With Enrollment in Medicare Advantage Plans in Older Adults Journal Article Journal of the American Geriatrics Society, 68 (2), pp. 313-320, 2020. @article{Kumar2020, title = {Social and Health-Related Factors Associated With Enrollment in Medicare Advantage Plans in Older Adults}, author = {Amit Kumar and Maricruz Rivera-Hernandez and Amol M. Karmarkar and Lin-Na Chou and Yong-Fang Kuo and Julie A. Baldwin and Orestis A. Panagiotou and Robert E. Burke and Kenneth J. Ottenbacher}, url = {https://onlinelibrary.wiley.com/doi/full/10.1111/jgs.16202}, doi = {10.1111/jgs.16202}, year = {2020}, date = {2020-02-01}, journal = {Journal of the American Geriatrics Society}, volume = {68}, number = {2}, pages = {313-320}, abstract = {Among Mexican American older adults, FFS enrollees were more likely to be born in Mexico, speak Spanish, have lower levels of education, and have more disability than MA enrollees. Older adults with a larger number of limitations of instrumental activities of daily living (odds ratio [OR] = .50; 95% confidence interval [CI] = .26‐.98) and more social support (OR = .70; 95% CI = .45‐.98) were less likely to switch from FFS to MA compared with older adults with no limitations and less social support. Additionally, older adults living in counties with a greater number of MA plans were more likely to switch from FFS to MA (OR = 2.1; 95% CI = 1.45‐3.16), compared with counties with a lower number of MA plans. In counties with a higher number of MA plans, older adults with more social support had lower odds of switching from FFS to MA (OR = .48; 95% CI = .28‐.82) compared with older adults with less social support.Compared with those enrolled in MA, older Mexican American adults enrolled in Medicare FFS are more socioeconomically disadvantaged and more likely to demonstrate poor health status. Stronger social support and increased physical limitations were strongly associated with less frequent switching from FFS to MA plans. Additionally, increased availability of MA plans at the county level is a significant driver of enrollment in MA plans. }, keywords = {}, pubstate = {published}, tppubtype = {article} } Among Mexican American older adults, FFS enrollees were more likely to be born in Mexico, speak Spanish, have lower levels of education, and have more disability than MA enrollees. Older adults with a larger number of limitations of instrumental activities of daily living (odds ratio [OR] = .50; 95% confidence interval [CI] = .26‐.98) and more social support (OR = .70; 95% CI = .45‐.98) were less likely to switch from FFS to MA compared with older adults with no limitations and less social support. Additionally, older adults living in counties with a greater number of MA plans were more likely to switch from FFS to MA (OR = 2.1; 95% CI = 1.45‐3.16), compared with counties with a lower number of MA plans. In counties with a higher number of MA plans, older adults with more social support had lower odds of switching from FFS to MA (OR = .48; 95% CI = .28‐.82) compared with older adults with less social support.Compared with those enrolled in MA, older Mexican American adults enrolled in Medicare FFS are more socioeconomically disadvantaged and more likely to demonstrate poor health status. Stronger social support and increased physical limitations were strongly associated with less frequent switching from FFS to MA plans. Additionally, increased availability of MA plans at the county level is a significant driver of enrollment in MA plans. |
Camplain, Ricky; Camplain, Carolyn; II, Robert Trotter T; Pro, George; Sabo, Samantha; Eaves, Emery; Peoples, Marie; Baldwin, Julie A Racial/Ethnic Differences in Drug- and Alcohol-Related Arrest Outcomes in a Southwest County From 2009 to 2018 Journal Article American Journal of Public Health, 110 (S1), pp. 585-592, 2020. @article{Camplain2020, title = {Racial/Ethnic Differences in Drug- and Alcohol-Related Arrest Outcomes in a Southwest County From 2009 to 2018}, author = {Ricky Camplain and Carolyn Camplain and Robert T. Trotter II and George Pro and Samantha Sabo and Emery Eaves and Marie Peoples and Julie A. Baldwin}, url = {https://doi.org/10.2105/AJPH.2019.305409}, doi = {10.2105/AJPH.2019.305409}, year = {2020}, date = {2020-01-22}, journal = {American Journal of Public Health}, volume = {110}, number = {S1}, pages = {585-592}, abstract = {Among misdemeanor drug- and alcohol-related arrests, American Indian/Alaska Native (AI/AN; adjusted odds ratio [AOR] = 3.60; 95% confidence interval [CI] = 3.32, 3.90), Latino (AOR = 1.53; 95% CI = 1.35, 1.73), and Black persons (AOR = 1.28; 95% CI = 1.05, 1.55) were more likely than White persons to be booked into jail as opposed to cited and released. AI/AN (AOR = 10.77; 95% CI = 9.40, 12.35), Latino (AOR = 2.63; 95% CI = 2.12, 3.28), and Black persons (AOR = 1.84; 95% CI = 1.19, 2.84) also were more likely than White persons to be convicted and serve time for their misdemeanor charges. Results were similar for felony drug- and alcohol-related arrests aggregated and stratified. Conclusions. Our results suggest that race/ethnicity is associated with outcomes in drug-related arrests and that overrepresentation of racial/ethnic minorities in the criminal justice system cannot be attributed to greater use of drugs and alcohol in general. More than 60% of criminal justice–involved individuals are racial/ethnic minorities, even though these groups make up just 30% of the US population.1,2 Black, Latino, and American Indian/Alaska Native (AI/AN) persons are more likely to be incarcerated compared with White persons,1–3 and police interactions among racial/ethnic minorities are more likely to result in arrest, even after accounting for arrest decision-making by police.4 Of more than 10.5 million arrests made across the United States in 2017, 15% were drug-related, and 9% involved driving while intoxicated with alcohol.5 The War on Drugs has been credited with creating policies that significantly contribute to racial/ethnic and socioeconomic disparities in drug arrests,6 further embedding racial/ethnic disparities within the criminal justice system. Racial/ethnic minorities continue to be more likely than White individuals to be incarcerated for nonviolent substance-related offenses7,8 and imprisoned for drug charges.9 With regard to alcohol, racial/ethnic minorities are more likely to experience negative consequences, such as arrest and detainment for drinking, potentially because of perceived racial discrimination and racial/ethnic stigma.10 The Southwest United States, for example, has a long history of overrepresentation of AI/AN persons in the justice system2 specifically for alcohol-related offenses,11 yet AI/AN people in the Southwest have higher alcohol abstention rates than in the general population.12 Importantly, inherent bias toward AI/AN persons by law enforcement has been reported in towns that are in close proximity to tribal nations (i.e., border towns),13 presumably a more common occurrence than on tribal lands or in non–border towns. However, research on criminal justice outcomes among AI/AN individuals is limited. Although it is clear that racial/ethnic minorities are overrepresented in the criminal justice system, it is less clear how outcomes at different points of interactions with the criminal justice system, including entry into the system, prosecution and pretrial services, adjudication, sentencing and sanctions, and corrections,14 differ by race/ethnicity, specifically for drug- and alcohol-related offenses. Thus, we aimed to estimate the association between race/ethnicity and arrest outcomes among individuals arrested for drug- or alcohol-related reasons in a rural Southwest US county (the county) from 2009 to 2018.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Among misdemeanor drug- and alcohol-related arrests, American Indian/Alaska Native (AI/AN; adjusted odds ratio [AOR] = 3.60; 95% confidence interval [CI] = 3.32, 3.90), Latino (AOR = 1.53; 95% CI = 1.35, 1.73), and Black persons (AOR = 1.28; 95% CI = 1.05, 1.55) were more likely than White persons to be booked into jail as opposed to cited and released. AI/AN (AOR = 10.77; 95% CI = 9.40, 12.35), Latino (AOR = 2.63; 95% CI = 2.12, 3.28), and Black persons (AOR = 1.84; 95% CI = 1.19, 2.84) also were more likely than White persons to be convicted and serve time for their misdemeanor charges. Results were similar for felony drug- and alcohol-related arrests aggregated and stratified. Conclusions. Our results suggest that race/ethnicity is associated with outcomes in drug-related arrests and that overrepresentation of racial/ethnic minorities in the criminal justice system cannot be attributed to greater use of drugs and alcohol in general. More than 60% of criminal justice–involved individuals are racial/ethnic minorities, even though these groups make up just 30% of the US population.1,2 Black, Latino, and American Indian/Alaska Native (AI/AN) persons are more likely to be incarcerated compared with White persons,1–3 and police interactions among racial/ethnic minorities are more likely to result in arrest, even after accounting for arrest decision-making by police.4 Of more than 10.5 million arrests made across the United States in 2017, 15% were drug-related, and 9% involved driving while intoxicated with alcohol.5 The War on Drugs has been credited with creating policies that significantly contribute to racial/ethnic and socioeconomic disparities in drug arrests,6 further embedding racial/ethnic disparities within the criminal justice system. Racial/ethnic minorities continue to be more likely than White individuals to be incarcerated for nonviolent substance-related offenses7,8 and imprisoned for drug charges.9 With regard to alcohol, racial/ethnic minorities are more likely to experience negative consequences, such as arrest and detainment for drinking, potentially because of perceived racial discrimination and racial/ethnic stigma.10 The Southwest United States, for example, has a long history of overrepresentation of AI/AN persons in the justice system2 specifically for alcohol-related offenses,11 yet AI/AN people in the Southwest have higher alcohol abstention rates than in the general population.12 Importantly, inherent bias toward AI/AN persons by law enforcement has been reported in towns that are in close proximity to tribal nations (i.e., border towns),13 presumably a more common occurrence than on tribal lands or in non–border towns. However, research on criminal justice outcomes among AI/AN individuals is limited. Although it is clear that racial/ethnic minorities are overrepresented in the criminal justice system, it is less clear how outcomes at different points of interactions with the criminal justice system, including entry into the system, prosecution and pretrial services, adjudication, sentencing and sanctions, and corrections,14 differ by race/ethnicity, specifically for drug- and alcohol-related offenses. Thus, we aimed to estimate the association between race/ethnicity and arrest outcomes among individuals arrested for drug- or alcohol-related reasons in a rural Southwest US county (the county) from 2009 to 2018. |
Barger, Steven D; Broom, Timothy W; Esposito, Michael V; Lane, Taylor S BMJ Open, 2020. @article{Barger2020, title = {Is subjective well-being independently associated with mortality? A 14-year prospective cohort study in a representative sample of 25 139 US men and women}, author = {Steven D Barger and Timothy W Broom and Michael V Esposito and Taylor S Lane}, url = {https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7045262/}, doi = {10.1136/bmjopen-2019-031776}, year = {2020}, date = {2020-01-14}, journal = {BMJ Open}, abstract = {A population-based prospective cohort study based on an in-person interview. Cox regression was used to examine mortality hazards for happiness alone and for a standardized summary well-being measure that included happiness, life satisfaction and negative emotions. Using pre-specified analyses, we first adjusted for age and then additionally adjusted for self-rated health and then race/ethnicity, marital status, smoking and socioeconomic status.}, keywords = {}, pubstate = {published}, tppubtype = {article} } A population-based prospective cohort study based on an in-person interview. Cox regression was used to examine mortality hazards for happiness alone and for a standardized summary well-being measure that included happiness, life satisfaction and negative emotions. Using pre-specified analyses, we first adjusted for age and then additionally adjusted for self-rated health and then race/ethnicity, marital status, smoking and socioeconomic status. |
Mousavi, Sajad; Fotoohinasab, Atiyeh; Afghah, Fatemeh Single-modal and multi-modal false arrhythmia alarm reduction using attention-based convolutional and recurrent neural networks Journal Article PLoS One, 15 (1), 2020. @article{Mousavi2020, title = {Single-modal and multi-modal false arrhythmia alarm reduction using attention-based convolutional and recurrent neural networks}, author = {Sajad Mousavi and Atiyeh Fotoohinasab and Fatemeh Afghah}, url = {https://pubmed.ncbi.nlm.nih.gov/31923226/}, doi = {10.1371/journal.pone.0226990}, year = {2020}, date = {2020-01-10}, journal = {PLoS One}, volume = {15}, number = {1}, abstract = {This study proposes a deep learning model that effectively suppresses the false alarms in the intensive care units (ICUs) without ignoring the true alarms using single- and multi- modal biosignals. Most of the current work in the literature are either rule-based methods, requiring prior knowledge of arrhythmia analysis to build rules, or classical machine learning approaches, depending on hand-engineered features. In this work, we apply convolutional neural networks to automatically extract time-invariant features, an attention mechanism to put more emphasis on the important regions of the segmented input signal(s) that are more likely to contribute to an alarm, and long short-term memory units to capture the temporal information presented in the signal segments. We trained our method efficiently using a two-step training algorithm (i.e., pre-training and fine-tuning the proposed network) on the dataset provided by the PhysioNet computing in cardiology challenge 2015. The evaluation results demonstrate that the proposed method obtains better results compared to other existing algorithms for the false alarm reduction task in ICUs. The proposed method achieves a sensitivity of 93.88% and a specificity of 92.05% for the alarm classification, considering three different signals. In addition, our experiments for 5 separate alarm types leads significant results, where we just consider a single-lead ECG (e.g., a sensitivity of 90.71%, a specificity of 88.30%, an AUC of 89.51 for alarm type of Ventricular Tachycardia arrhythmia).}, keywords = {}, pubstate = {published}, tppubtype = {article} } This study proposes a deep learning model that effectively suppresses the false alarms in the intensive care units (ICUs) without ignoring the true alarms using single- and multi- modal biosignals. Most of the current work in the literature are either rule-based methods, requiring prior knowledge of arrhythmia analysis to build rules, or classical machine learning approaches, depending on hand-engineered features. In this work, we apply convolutional neural networks to automatically extract time-invariant features, an attention mechanism to put more emphasis on the important regions of the segmented input signal(s) that are more likely to contribute to an alarm, and long short-term memory units to capture the temporal information presented in the signal segments. We trained our method efficiently using a two-step training algorithm (i.e., pre-training and fine-tuning the proposed network) on the dataset provided by the PhysioNet computing in cardiology challenge 2015. The evaluation results demonstrate that the proposed method obtains better results compared to other existing algorithms for the false alarm reduction task in ICUs. The proposed method achieves a sensitivity of 93.88% and a specificity of 92.05% for the alarm classification, considering three different signals. In addition, our experiments for 5 separate alarm types leads significant results, where we just consider a single-lead ECG (e.g., a sensitivity of 90.71%, a specificity of 88.30%, an AUC of 89.51 for alarm type of Ventricular Tachycardia arrhythmia). |
Pro, George; Camplain, Ricky; de Heer, Brooke; Chief, Carmenlita; Teufel-Shone, Nicolette Journal of Racial and Ethnic Health Disparities, 2020. @article{Pro2020, title = {A National Epidemiologic Profile of Physical Intimate Partner Violence, Adverse Childhood Experiences, and Supportive Childhood Relationships: Group Differences in Predicted Trends and Associations}, author = {George Pro and Ricky Camplain and Brooke de Heer and Carmenlita Chief and Nicolette Teufel-Shone}, url = {https://pubmed.ncbi.nlm.nih.gov/31912443/ }, doi = {10.1007/s40615-019-00696-4}, year = {2020}, date = {2020-01-07}, journal = {Journal of Racial and Ethnic Health Disparities}, abstract = {Adverse childhood experiences (ACEs) are common in the USA and associated with multiple health sequelae. Physical intimate partner violence (IPV) is a type of revictimization that some adults with ACEs may be more prone to. Positive and supportive childhood environments may buffer the effects of ACEs, but little is known about the differential associations between physical IPV and ACEs and supportive childhood environments. We sought to illustrate racial/ethnic and gender differences in the adjusted predicted probability of physical IPV across multiple ACE and supportive childhood scores.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Adverse childhood experiences (ACEs) are common in the USA and associated with multiple health sequelae. Physical intimate partner violence (IPV) is a type of revictimization that some adults with ACEs may be more prone to. Positive and supportive childhood environments may buffer the effects of ACEs, but little is known about the differential associations between physical IPV and ACEs and supportive childhood environments. We sought to illustrate racial/ethnic and gender differences in the adjusted predicted probability of physical IPV across multiple ACE and supportive childhood scores. |
Camplain, Ricky; Pinn, Travis A; Williamson, Heather J; Pro, George; Becenti, Lyle; Bret, James; Luna, Crystal; Baldwin, Julie A Adaptation of the System for Observing Play and Recreation in Communities (SOPARC) for the Measurement of Physical Activity in Jail Settings Journal Article Int Journal of Environ Res Public Health, 17 (1), pp. 349, 2020. @article{Camplain2020b, title = {Adaptation of the System for Observing Play and Recreation in Communities (SOPARC) for the Measurement of Physical Activity in Jail Settings}, author = {Ricky Camplain and Travis A. Pinn and Heather J. Williamson and George Pro and Lyle Becenti and James Bret and Crystal Luna and Julie A. Baldwin}, url = {https://pubmed.ncbi.nlm.nih.gov/31947914/}, doi = {10.3390/ijerph17010349}, year = {2020}, date = {2020-01-04}, journal = {Int Journal of Environ Res Public Health}, volume = {17}, number = {1}, pages = {349}, abstract = {Over 9 million people are incarcerated in jail each year, but physical activity has not been assessed among incarcerated populations. Measuring physical activity in the jail setting is complicated as current physical activity measurement tools are not designed for use inside jail facilities. Therefore, we adapted an evidence-based physical activity measurement tool, the System for Observing Play and Recreation in Communities (SOPARC), to assess physical activity within a jail facility. SOPARC was designed to obtain observational information on physical activity of individuals. The study team created a protocol for SOPARC for use in jail facilities. Unlike the original SOPARC, access to recreation time in jail required prior scheduling. Target areas were unnecessary as recreation spaces were enclosed. The adapted SOPARC protocol for jails included start and end times, the number of individuals that attended, and recreation time users' physical activity levels, footwear, outerwear, uniform color, and use of mobility assistive devices. The use of SOPARC in the jail setting requires adaptation to adequately capture physical activity data among incarcerated individuals. Accurately measuring physical activity among incarcerated individuals and the environment in which they are active may allow for future development and testing of physical activity interventions in jail facilities. }, keywords = {}, pubstate = {published}, tppubtype = {article} } Over 9 million people are incarcerated in jail each year, but physical activity has not been assessed among incarcerated populations. Measuring physical activity in the jail setting is complicated as current physical activity measurement tools are not designed for use inside jail facilities. Therefore, we adapted an evidence-based physical activity measurement tool, the System for Observing Play and Recreation in Communities (SOPARC), to assess physical activity within a jail facility. SOPARC was designed to obtain observational information on physical activity of individuals. The study team created a protocol for SOPARC for use in jail facilities. Unlike the original SOPARC, access to recreation time in jail required prior scheduling. Target areas were unnecessary as recreation spaces were enclosed. The adapted SOPARC protocol for jails included start and end times, the number of individuals that attended, and recreation time users' physical activity levels, footwear, outerwear, uniform color, and use of mobility assistive devices. The use of SOPARC in the jail setting requires adaptation to adequately capture physical activity data among incarcerated individuals. Accurately measuring physical activity among incarcerated individuals and the environment in which they are active may allow for future development and testing of physical activity interventions in jail facilities. |
2019 |
Lee, Naomi R; Noonan, Carolyn J; Nelson, Lonnie; Umans, Jason G HPV Knowledge and Attitudes Among American Indian and Alaska Native Health and STEM Conference Attendees Journal Article International Journal of Indigenous Health, 14 (2), pp. 205-221, 2019. @article{Lee2019, title = {HPV Knowledge and Attitudes Among American Indian and Alaska Native Health and STEM Conference Attendees}, author = {Naomi R. Lee and Carolyn J. Noonan and Lonnie Nelson and Jason G. Umans}, url = {https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7199482/}, doi = {10.32799/ijih.v14i2.31920}, year = {2019}, date = {2019-10-31}, journal = {International Journal of Indigenous Health}, volume = {14}, number = {2}, pages = {205-221}, abstract = {American Indian and Alaska Native women had approximately twice the incidence of cervical cancer as white women. Preventive measures for cervical cancer rely on screening and HPV vaccination. However, vaccine series completion and catch-up vaccinations for eligible adults are low across all racial/ethnic groups. Therefore, the aim of this study was to identify gaps in knowledge and evaluate the attitudes toward HPV and the vaccine among AIANs with various levels of training in the STEM and health-related fields. A survey was used to collect data from audience members at two national conferences geared towards American Indian and Alaska Natives in health and STEM fields in September 2017. A vignette study was administered via a live electronic poll to test knowledge (true/false questions), attitudes, and to collect demographic information. Respondents self-identified as primarily American Indian and Alaska Native (74%), pursuing or completed a graduate degree (67%), and female (85%). Most respondents (86%) were aware of HPV-associated cancer in men. However, most (48-90%) answered incorrectly to detailed true/false statements about HPV and available vaccines. After educational information was provided, opinions collected via vignettes highlighted mainly positive attitudes toward vaccination; specifically, that vaccines are safe and all eligible community members should be vaccinated (75% and 84%, respectively). We observed that our respondents with higher educational attainment still lacked accurate knowledge pertaining to HPV and the vaccine. Overall, continued education about HPV and the vaccine is needed across all levels of education including American Indian and Alaska Native community members and health professionals.}, keywords = {}, pubstate = {published}, tppubtype = {article} } American Indian and Alaska Native women had approximately twice the incidence of cervical cancer as white women. Preventive measures for cervical cancer rely on screening and HPV vaccination. However, vaccine series completion and catch-up vaccinations for eligible adults are low across all racial/ethnic groups. Therefore, the aim of this study was to identify gaps in knowledge and evaluate the attitudes toward HPV and the vaccine among AIANs with various levels of training in the STEM and health-related fields. A survey was used to collect data from audience members at two national conferences geared towards American Indian and Alaska Natives in health and STEM fields in September 2017. A vignette study was administered via a live electronic poll to test knowledge (true/false questions), attitudes, and to collect demographic information. Respondents self-identified as primarily American Indian and Alaska Native (74%), pursuing or completed a graduate degree (67%), and female (85%). Most respondents (86%) were aware of HPV-associated cancer in men. However, most (48-90%) answered incorrectly to detailed true/false statements about HPV and available vaccines. After educational information was provided, opinions collected via vignettes highlighted mainly positive attitudes toward vaccination; specifically, that vaccines are safe and all eligible community members should be vaccinated (75% and 84%, respectively). We observed that our respondents with higher educational attainment still lacked accurate knowledge pertaining to HPV and the vaccine. Overall, continued education about HPV and the vaccine is needed across all levels of education including American Indian and Alaska Native community members and health professionals. |
Trotter, Robert T; Fofanov, Viacheslav Y; Camplain, Ricky; Arazan, Christine L; Camplain, Carolyn; Eaves, Emery R; Hanabury, Mary; Hepp, Crystal M; Kohlbeck, Bailey S; Lininger, Monica R; Peoples, Marie; Dmitrieva, Natalia O; Baldwin, Julie A Health disparities in jail populations: Mixed methods and multi-disciplinary community engagement for justice and health impacts Journal Article Practicing Anthropology, 41 (4), pp. 2-10-16, 2019. @article{Trotter2019, title = {Health disparities in jail populations: Mixed methods and multi-disciplinary community engagement for justice and health impacts}, author = {Robert T Trotter and Viacheslav Y Fofanov and Ricky Camplain and Christine L Arazan and Carolyn Camplain and Emery R Eaves and Mary Hanabury and Crystal M Hepp and Bailey S Kohlbeck and Monica R Lininger and Marie Peoples and Natalia O Dmitrieva and Julie A Baldwin}, doi = {10.17730/0888-4552.41.4.2}, year = {2019}, date = {2019-10-04}, journal = {Practicing Anthropology}, volume = {41}, number = {4}, pages = {2-10-16}, abstract = {This special issue of Practicing Anthropology presents multidisciplinary and multisectoral views of a community engaged health disparities project titled "Health Disparities in Jail Populations: Converging Epidemics of Infectious Disease, Chronic Illness, Behavioral Health, and Substance Abuse." The overall project incorporated traditional anthropological mixed-methods approaches with theory and methods from informatics, epidemiology, genomics, evolutionary and computational biology, community engagement, and applied/translational science.}, keywords = {}, pubstate = {published}, tppubtype = {article} } This special issue of Practicing Anthropology presents multidisciplinary and multisectoral views of a community engaged health disparities project titled "Health Disparities in Jail Populations: Converging Epidemics of Infectious Disease, Chronic Illness, Behavioral Health, and Substance Abuse." The overall project incorporated traditional anthropological mixed-methods approaches with theory and methods from informatics, epidemiology, genomics, evolutionary and computational biology, community engagement, and applied/translational science. |
Pearson, Talima; Barger, Steven; Lininger, Monica; Wayment, Heidi; Hepp, Crystal; Villa, Francisco; Tucker-Morgan, Karen; Kyman, Shari; Cabrera, Melissa; Hurtado, Kevin; Menard, Ashley; Fulbright, Kelly; Wood, Colin; Mbegbu, Mimi; Zambrano, Yesenia; Fletcher, Annette; Medina-Rodriguez, Sarah; Manone, Mark; Aguirre, Amanda; Milner, Trudie; II, Robert Trotter T Health Disparities in Staphylococcus aureus Transmission and Carriage in a Border Region of the United States Based on Cultural Differences in Social Relationships: Protocol for a Survey Study Journal Article JMIR Research Protocols, 8 (9), 2019. @article{T2019, title = {Health Disparities in Staphylococcus aureus Transmission and Carriage in a Border Region of the United States Based on Cultural Differences in Social Relationships: Protocol for a Survey Study}, author = {Talima Pearson and Steven Barger and Monica Lininger and Heidi Wayment and Crystal Hepp and Francisco Villa and Karen Tucker-Morgan and Shari Kyman and Melissa Cabrera and Kevin Hurtado and Ashley Menard and Kelly Fulbright and Colin Wood and Mimi Mbegbu and Yesenia Zambrano and Annette Fletcher and Sarah Medina-Rodriguez and Mark Manone and Amanda Aguirre and Trudie Milner and Robert T. Trotter II}, year = {2019}, date = {2019-09-27}, journal = {JMIR Research Protocols}, volume = {8}, number = {9}, abstract = {Health care–associated Staphylococcus aureus infections are declining but remain common. Conversely, rates of community-associated infections have not decreased because of the inadequacy of public health mechanisms to control transmission in a community setting. Our long-term goal is to use risk-based information from empirical socio-cultural-biological evidence of carriage and transmission to inform intervention strategies that reduce S aureus transmission in the community. Broad differences in social interactions because of cultural affiliation, travel, and residency patterns may impact S aureus carriage and transmission, either as risk or as protective factors. This study is designed to evaluate ethnic-specific prevalence of S aureus carriage in a US border community. The study will also examine the extent to which kin and nonkin social relationships are concordant with carriage prevalence in social groups. Genetic analysis of S aureus strains will further distinguish putative transmission pathways across social relationship contexts and inform our understanding of the correspondence of S aureus reservoirs across clinical and community settings. Basic community-engaged nonprobabilistic sampling procedures provide a rigorous framework for completion of this 5-year study of the social and cultural parameters of S aureus carriage and transmission.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Health care–associated Staphylococcus aureus infections are declining but remain common. Conversely, rates of community-associated infections have not decreased because of the inadequacy of public health mechanisms to control transmission in a community setting. Our long-term goal is to use risk-based information from empirical socio-cultural-biological evidence of carriage and transmission to inform intervention strategies that reduce S aureus transmission in the community. Broad differences in social interactions because of cultural affiliation, travel, and residency patterns may impact S aureus carriage and transmission, either as risk or as protective factors. This study is designed to evaluate ethnic-specific prevalence of S aureus carriage in a US border community. The study will also examine the extent to which kin and nonkin social relationships are concordant with carriage prevalence in social groups. Genetic analysis of S aureus strains will further distinguish putative transmission pathways across social relationship contexts and inform our understanding of the correspondence of S aureus reservoirs across clinical and community settings. Basic community-engaged nonprobabilistic sampling procedures provide a rigorous framework for completion of this 5-year study of the social and cultural parameters of S aureus carriage and transmission. |
Greene, Joshua R; Merrett, Kahla L; Heyert, Alexanndra J; Simmons, Lucas F; Migliori, Camille M; Vogt, Kristen C; Castro, Rebeca S; Phillips, Paul D; Baker, Joseph L; Lindberg, Gerrick E; Fox, David T; Sesto, Rico Del E; Koppisch, Andrew T Scope and efficacy of the broad-spectrum topical antiseptic choline geranate Journal Article PLoS One, 14 (9), 2019. @article{Greene2019, title = {Scope and efficacy of the broad-spectrum topical antiseptic choline geranate}, author = {Joshua R Greene and Kahla L Merrett and Alexanndra J Heyert and Lucas F Simmons and Camille M Migliori and Kristen C Vogt and Rebeca S Castro and Paul D Phillips and Joseph L Baker and Gerrick E Lindberg and David T Fox and Rico E Del Sesto and Andrew T Koppisch}, url = {https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0222211}, doi = {10.1371/journal.pone.0222211}, year = {2019}, date = {2019-09-17}, journal = {PLoS One}, volume = {14}, number = {9}, abstract = {Choline geranate (also described as Choline And GEranic acid, or CAGE) has been developed as a novel biocompatible antiseptic material capable of penetrating skin and aiding the transdermal delivery of co-administered antibiotics. The antibacterial properties of CAGE were analyzed against 24 and 72 hour old biofilms of 11 clinically isolated ESKAPE pathogens (defined as Enterococcus faecium, Staphylococcus aureus, Klebsiella pneumoniae, Acinetobacter baumanii, Pseudomonas aeruginosa, and Enterobacter sp, respectively), including multidrug resistant (MDR) isolates. CAGE was observed to eradicate in vitro biofilms at concentrations as low as 3.56 mM (0.156% v:v) in as little as 2 hours, which represents both an improved potency and rate of biofilm eradication relative to that reported for most common standard-of-care topical antiseptics in current use. In vitro time-kill studies on 24 hour old Staphylococcus aureus biofilms indicate that CAGE exerts its antibacterial effect upon contact and a 0.1% v:v solution reduced biofilm viability by over three orders of magnitude (a 3log10 reduction) in 15 minutes. Furthermore, disruption of the protective layer of exopolymeric substances in mature biofilms of Staphylococcus aureus by CAGE (0.1% v:v) was observed in 120 minutes. Insight into the mechanism of action of CAGE was provided with molecular modeling studies alongside in vitro antibiofilm assays. The geranate ion and geranic acid components of CAGE are predicted to act in concert to integrate into bacterial membranes, affect membrane thinning and perturb membrane homeostasis. Taken together, our results show that CAGE demonstrates all properties required of an effective topical antiseptic and the data also provides insight into how its observed antibiofilm properties may manifest.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Choline geranate (also described as Choline And GEranic acid, or CAGE) has been developed as a novel biocompatible antiseptic material capable of penetrating skin and aiding the transdermal delivery of co-administered antibiotics. The antibacterial properties of CAGE were analyzed against 24 and 72 hour old biofilms of 11 clinically isolated ESKAPE pathogens (defined as Enterococcus faecium, Staphylococcus aureus, Klebsiella pneumoniae, Acinetobacter baumanii, Pseudomonas aeruginosa, and Enterobacter sp, respectively), including multidrug resistant (MDR) isolates. CAGE was observed to eradicate in vitro biofilms at concentrations as low as 3.56 mM (0.156% v:v) in as little as 2 hours, which represents both an improved potency and rate of biofilm eradication relative to that reported for most common standard-of-care topical antiseptics in current use. In vitro time-kill studies on 24 hour old Staphylococcus aureus biofilms indicate that CAGE exerts its antibacterial effect upon contact and a 0.1% v:v solution reduced biofilm viability by over three orders of magnitude (a 3log10 reduction) in 15 minutes. Furthermore, disruption of the protective layer of exopolymeric substances in mature biofilms of Staphylococcus aureus by CAGE (0.1% v:v) was observed in 120 minutes. Insight into the mechanism of action of CAGE was provided with molecular modeling studies alongside in vitro antibiofilm assays. The geranate ion and geranic acid components of CAGE are predicted to act in concert to integrate into bacterial membranes, affect membrane thinning and perturb membrane homeostasis. Taken together, our results show that CAGE demonstrates all properties required of an effective topical antiseptic and the data also provides insight into how its observed antibiofilm properties may manifest. |
Mousavi, Seyed Sajad; Afghah, Fatemah; Razi, Abolfazl; Acharya, Rajendra U Learning where to attend for detection of atrial fibrillation with deep visual attention Journal Article IEEE EMBS Int Conf Biomed Health Inform, 2019. @article{Mousavi2019c, title = {Learning where to attend for detection of atrial fibrillation with deep visual attention}, author = {Seyed Sajad Mousavi and Fatemah Afghah and Abolfazl Razi and U Rajendra Acharya}, url = {https://pubmed.ncbi.nlm.nih.gov/33083788/}, doi = {10.1109/BHI.2019.8834637}, year = {2019}, date = {2019-09-12}, journal = {IEEE EMBS Int Conf Biomed Health Inform}, abstract = {The complexity of the patterns associated with atrial fibrillation (AF) and the high level of noise affecting these patterns have significantly limited the application of current signal processing and shallow machine learning approaches to accurately detect this condition. Deep neural networks have shown to be very powerful to learn the non-linear patterns in various problems such as computer vision tasks. While deep learning approaches have been utilized to learn complex patterns related to the presence of AF in electrocardiogram (ECG) signals, they can considerably benefit from knowing which parts of the signal is more important to focus on during learning. In this paper, we introduce a two-channel deep neural network to more accurately detect the presence of AF in the ECG signals. The first channel takes in an ECG signal and automatically learns where to attend for detection of AF. The second channel simultaneously takes in the same ECG signal to consider all features of the entire signal. Besides improving detection accuracy, this model can guide the physicians via visualization that what parts of the given ECG signal are important to attend while trying to detect atrial fibrillation. The experimental results confirm that the proposed model significantly improves the performance of AF detection on well-known MIT-BIH AF database with 5-s ECG segments (achieved a sensitivity of 99.53%, specificity of 99.26% and accuracy of 99.40%). }, keywords = {}, pubstate = {published}, tppubtype = {article} } The complexity of the patterns associated with atrial fibrillation (AF) and the high level of noise affecting these patterns have significantly limited the application of current signal processing and shallow machine learning approaches to accurately detect this condition. Deep neural networks have shown to be very powerful to learn the non-linear patterns in various problems such as computer vision tasks. While deep learning approaches have been utilized to learn complex patterns related to the presence of AF in electrocardiogram (ECG) signals, they can considerably benefit from knowing which parts of the signal is more important to focus on during learning. In this paper, we introduce a two-channel deep neural network to more accurately detect the presence of AF in the ECG signals. The first channel takes in an ECG signal and automatically learns where to attend for detection of AF. The second channel simultaneously takes in the same ECG signal to consider all features of the entire signal. Besides improving detection accuracy, this model can guide the physicians via visualization that what parts of the given ECG signal are important to attend while trying to detect atrial fibrillation. The experimental results confirm that the proposed model significantly improves the performance of AF detection on well-known MIT-BIH AF database with 5-s ECG segments (achieved a sensitivity of 99.53%, specificity of 99.26% and accuracy of 99.40%). |
Chen, Jiaming; Valehi, Ali; Afghah, Fatemeh; Razi, Abolfazl A Deviation Analysis Framework for ECG Signals Using Controlled Spatial Transformation. Journal Article IEEE EMBS International Conference on Biomedical & Health Informatics (BHI), pp. 1-4, 2019. @article{Chen2019, title = {A Deviation Analysis Framework for ECG Signals Using Controlled Spatial Transformation.}, author = {Jiaming Chen and Ali Valehi and Fatemeh Afghah and Abolfazl Razi}, url = {https://ieeexplore.ieee.org/document/8834617/authors#authors}, doi = {10.1109/BHI.2019.8834617}, year = {2019}, date = {2019-09-11}, journal = {IEEE EMBS International Conference on Biomedical & Health Informatics (BHI)}, pages = {1-4}, abstract = {Current automated heart monitoring tools use supervised learning methods to recognize heart disorders based on ECG signal morphology. We develop a new ECG processing algorithm that enables early prediction of disorders through a novel deviation analysis. The idea is developing a patient-specific ECG baseline and characterizing the deviation of signal morphology towards any of the abnormality classes with specific morphological features. To enable this feature, a novel controlled non-linear transformation is designed to achieve maximal symmetry in the feature space. Our results using benchmark MIT-BIH database show that the proposed method achieves a classification accuracy of 96% and can be used to trigger yellow alarms to warn patients from increased risk of upcoming heart abnormalities (5% to 10% increase with respect to normal conditions). This feature can be used in health monitoring devices to advise patients to take preventive and precaution actions before critical situations.}, keywords = {}, pubstate = {published}, tppubtype = {article} } Current automated heart monitoring tools use supervised learning methods to recognize heart disorders based on ECG signal morphology. We develop a new ECG processing algorithm that enables early prediction of disorders through a novel deviation analysis. The idea is developing a patient-specific ECG baseline and characterizing the deviation of signal morphology towards any of the abnormality classes with specific morphological features. To enable this feature, a novel controlled non-linear transformation is designed to achieve maximal symmetry in the feature space. Our results using benchmark MIT-BIH database show that the proposed method achieves a classification accuracy of 96% and can be used to trigger yellow alarms to warn patients from increased risk of upcoming heart abnormalities (5% to 10% increase with respect to normal conditions). This feature can be used in health monitoring devices to advise patients to take preventive and precaution actions before critical situations. |
Camplain, Ricky; Baldwin, Julie A Commentary: The Search for Health Equity among Individuals Incarcerated in Jail Journal Article Practicing Anthropology, 41 (1), pp. 46-48, 2019. @article{Camplain2019c, title = {Commentary: The Search for Health Equity among Individuals Incarcerated in Jail }, author = {Ricky Camplain and Julie A. Baldwin}, url = {https://doi.org/10.17730/0888-4552.41.4.46}, doi = {10.17730/0888-4552.41.4.46}, year = {2019}, date = {2019-09-01}, journal = {Practicing Anthropology}, volume = {41}, number = {1}, pages = {46-48}, keywords = {}, pubstate = {published}, tppubtype = {article} } |