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24 results for Daigle,+Bernie

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ArticlesPeer ReviewedFull Text
Stochastic Simulation Service: Bridging the Gap between the Computational Expert and the Biologist
Author / Creator:Drawert, Brian ; Hellander, Andreas ; Bales, Ben ; Banerjee, Debjani ; Bellesia, Giovanni ; Daigle, Jr, Bernie J ; Douglas, Geoffrey ; Gu, Mengyuan ; Gupta, Anand ; Hellander, Stefan ; Horuk, Chris ; Nath, Dibyendu ; Takkar, Aviral ; Wu, Sheng ; Lötstedt, Per ; Krintz, Chandra ; Petzold, Linda R
Publisher:United States: Public Library of Science
Journal title:PLoS computational biology, 2016-12, Vol.12 (12), p.e1005220-e1005220
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Prognostic analysis of histopathological images using pre-trained convolutional neural networks: application to hepatocellular carcinoma
Author / Creator:Lu, Liangqun ; Daigle, Jr, Bernie J
Publisher:United States: PeerJ. Ltd
Journal title:PeerJ (San Francisco, CA), 2020-03, Vol.8, p.e8668, Article e8668
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GEOlimma: differential expression analysis and feature selection using pre-existing microarray data
Author / Creator:Lu, Liangqun ; Townsend, Kevin A ; Daigle, Jr, Bernie J
Publisher:England: BioMed Central Ltd
Journal title:BMC bioinformatics, 2021-02, Vol.22 (1), p.44-44, Article 44
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ArticlesPeer ReviewedFull Text
Accelerated maximum likelihood parameter estimation for stochastic biochemical systems
Author / Creator:Daigle, Jr, Bernie J ; Roh, Min K ; Petzold, Linda R ; Niemi, Jarad
Publisher:England: BioMed Central Ltd
Journal title:BMC bioinformatics, 2012-05, Vol.13 (1), p.68-68, Article 68
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ArticlesPeer ReviewedFull Text
Core module biomarker identification with network exploration for breast cancer metastasis
Author / Creator:Yang, Ruoting ; Daigle, Jr, Bernie J ; Petzold, Linda R ; Doyle, 3rd, Francis J
Publisher:England: BioMed Central Ltd
Journal title:BMC bioinformatics, 2012-01, Vol.13 (1), p.12-12, Article 12
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Multi-omic biomarker identification and validation for diagnosing warzone-related post-traumatic stress disorder
Author / Creator:Dean, Kelsey R. ; Hammamieh, Rasha ; Mellon, Synthia H. ; Abu-Amara, Duna ; Flory, Janine D. ; Guffanti, Guia ; Wang, Kai ; Daigle, Bernie J. ; Gautam, Aarti ; Lee, Inyoul ; Yang, Ruoting ; Almli, Lynn M. ; Bersani, F. Saverio ; Chakraborty, Nabarun ; Donohue, Duncan ; Kerley, Kimberly ; Kim, Taek-Kyun ; Laska, Eugene ; Young Lee, Min ; Lindqvist, Daniel ; Lori, Adriana ; Lu, Liangqun ; Misganaw, Burook ; Muhie, Seid ; Newman, Jennifer ; Price, Nathan D. ; Qin, Shizhen ; Reus, Victor I. ; Siegel, Carole ; Somvanshi, Pramod R. ; Thakur, Gunjan S. ; Zhou, Yong ; Hood, Leroy ; Ressler, Kerry J. ; Wolkowitz, Owen M. ; Yehuda, Rachel ; Jett, Marti ; Doyle, Francis J. ; Marmar, Charles
Publisher:London: Nature Publishing Group UK
Journal title:Molecular psychiatry, 2020-12, Vol.25 (12), p.3337-3349
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ArticlesPeer ReviewedFull Text
Epigenetic biotypes of post-traumatic stress disorder in war-zone exposed veteran and active duty males
Author / Creator:Yang, Ruoting ; Gautam, Aarti ; Getnet, Derese ; Daigle, Bernie J. ; Miller, Stacy ; Misganaw, Burook ; Dean, Kelsey R. ; Kumar, Raina ; Muhie, Seid ; Wang, Kai ; Lee, Inyoul ; Abu-Amara, Duna ; Flory, Janine D. ; Hood, Leroy ; Wolkowitz, Owen M. ; Mellon, Synthia H. ; Doyle, Francis J. ; Yehuda, Rachel ; Marmar, Charles R. ; Ressler, Kerry J. ; Hammamieh, Rasha ; Jett, Marti
Publisher:London: Nature Publishing Group UK
Journal title:Molecular psychiatry, 2021-08, Vol.26 (8), p.4300-4314
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Utilization of machine learning for identifying symptom severity military-related PTSD subtypes and their biological correlates
Author / Creator:Siegel, Carole E. ; Laska, Eugene M. ; Lin, Ziqiang ; Xu, Mu ; Abu-Amara, Duna ; Jeffers, Michelle K. ; Qian, Meng ; Milton, Nicholas ; Flory, Janine D. ; Hammamieh, Rasha ; Daigle, Bernie J. ; Gautam, Aarti ; Dean, Kelsey R. ; Reus, Victor I. ; Wolkowitz, Owen M. ; Mellon, Synthia H. ; Ressler, Kerry J. ; Yehuda, Rachel ; Wang, Kai ; Hood, Leroy ; Doyle, Francis J. ; Jett, Marti ; Marmar, Charles R.
Publisher:London: Nature Publishing Group UK
Journal title:Translational psychiatry, 2021-04, Vol.11 (1), p.227-227, Article 227
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ArticlesPeer ReviewedFull Text
SParSE++: improved event-based stochastic parameter search
Author / Creator:Roh, Min K ; Daigle, Jr, Bernie J
Publisher:England: BioMed Central Ltd
Journal title:BMC systems biology, 2016-11, Vol.10 (1), p.109-109, Article 109
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ArticlesPeer ReviewedFull Text
Identification of disease states associated with coagulopathy in trauma
Author / Creator:Zhang, Yuanyang ; Wu, Tie Bo ; Daigle, Jr, Bernie J ; Cohen, Mitchell ; Petzold, Linda
Publisher:England: BioMed Central Ltd
Journal title:BMC medical informatics and decision making, 2016-09, Vol.16 (1), p.124-124, Article 124
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ArticlesPeer ReviewedFull Text
Core modular blood and brain biomarkers in social defeat mouse model for post traumatic stress disorder
Author / Creator:Yang, Ruoting ; Daigle, Jr, Bernie J ; Muhie, Seid Y ; Hammamieh, Rasha ; Jett, Marti ; Petzold, Linda ; Doyle, 3rd, Francis J
Publisher:England: BioMed Central Ltd
Journal title:BMC systems biology, 2013-08, Vol.7 (1), p.80-80, Article 80
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Circulating cell-free mitochondrial DNA levels and glucocorticoid sensitivity in a cohort of male veterans with and without combat-related PTSD
Author / Creator:Blalock, Zachary N. ; Wu, Gwyneth W. Y ; Lindqvist, Daniel ; Trumpff, Caroline ; Flory, Janine D. ; Lin, Jue ; Reus, Victor I. ; Rampersaud, Ryan ; Hammamieh, Rasha ; Gautam, Aarti ; Doyle, Francis J. ; Marmar, Charles R. ; Jett, Marti ; Yehuda, Rachel ; Wolkowitz, Owen M. ; Mellon, Synthia H.
Publisher:London: Nature Publishing Group UK
Journal title:Translational psychiatry, 2024-01, Vol.14 (1), p.22-22, Article 22
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ArticlesPeer ReviewedFull Text
Polygenic risk associated with post-traumatic stress disorder onset and severity
Author / Creator:Misganaw, Burook ; Guffanti, Guia ; Lori, Adriana ; Abu-Amara, Duna ; Flory, Janine D. ; Mueller, Susanne ; Yehuda, Rachel ; Jett, Marti ; Marmar, Charles R. ; Ressler, Kerry J. ; Doyle, Francis J.
Publisher:London: Nature Publishing Group UK
Journal title:Translational psychiatry, 2019-06, Vol.9 (1), p.165, Article 165
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ArticlesPeer ReviewedFull Text
M-BISON: microarray-based integration of data sources using networks
Author / Creator:Daigle, Jr, Bernie J ; Altman, Russ B
Publisher:England: BioMed Central Ltd
Journal title:BMC bioinformatics, 2008-04, Vol.9 (1), p.214-214, Article 214
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Proceedings of the 16th Annual UT-KBRIN Bioinformatics Summit 2016: bioinformatics: Burns, TN, USA. April 21-23, 2017
Author / Creator:Rouchka, Eric C. ; Chariker, Julia H. ; Tieri, David A. ; Park, Juw Won ; Rajurkar, Shreedharkumar ; Singh, Vikas ; Verma, Nishchal K. ; Cui, Yan ; Farman, Mark ; Condon, Bradford ; Moore, Neil ; Jaromczyk, Jerzy ; Jaromczyk, Jolanta ; Harris, Daniel ; Calie, Patrick ; Shin, Eun Kyong ; Davis, Robert L. ; Shaban-Nejad, Arash ; Mitchell, Joshua M. ; Flight, Robert M. ; Wang, Qing Jun ; Higashi, Richard M. ; Fan, Teresa W-M ; Lane, Andrew N. ; Moseley, Hunter N. B. ; Lu, Liangqun ; Daigle, Bernie J ; Chen, Xi ; Smelter, Andrey ; Jaromczyk, Jerzy W. ; Chen, Li ; Phan, Bailey K. ; Serpico, Nathaniel J. ; Toney, Ethan G. ; Melton, Caroline E. ; Mandel, Jennifer R. ; Daigle, Bernie J. ; Chen, Hao ; Zaman, Kazi I. ; Homayouni, Ramin ; Trainor, Patrick J. ; Carlisle, Samantha M. ; DeFilippis, Andrew P. ; Rai, Shesh N.
Publisher:London: BioMed Central
Journal title:BMC bioinformatics, 2017-10, Vol.18 (S9), Article 377
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Proceedings of the 16th Annual UT-KBRIN Bioinformatics Summit 2016: bioinformatics
Author / Creator:Rouchka, Eric C ; Chariker, Julia H ; Tieri, David A ; Park, Juw Won ; Rajurkar, Shreedharkumar ; Singh, Vikas ; Verma, Nishchal K ; Cui, Yan ; Farman, Mark ; Condon, Bradford ; Moore, Neil ; Jaromczyk, Jerzy ; Jaromczyk, Jolanta ; Harris, Daniel ; Calie, Patrick ; Shin, Eun Kyong ; Davis, Robert L ; Shaban-Nejad, Arash ; Mitchell, Joshua M ; Flight, Robert M ; Wang, Qing Jun ; Higashi, Richard M ; Fan, Teresa W-M ; Lane, Andrew N ; Moseley, Hunter N. B ; Lu, Liangqun ; Daigle, Bernie J ; Chen, Xi ; Smelter, Andrey ; Jaromczyk, Jerzy W ; Chen, Li ; Phan, Bailey K ; Serpico, Nathaniel J ; Toney, Ethan G ; Melton, Caroline E ; Mandel, Jennifer R ; Daigle, Bernie J ; Chen, Hao ; Zaman, Kazi I ; Homayouni, Ramin ; Trainor, Patrick J ; Carlisle, Samantha M ; DeFilippis, Andrew P ; Rai, Shesh N
Publisher:BioMed Central Ltd
Journal title:BMC bioinformatics, 2017-10, Vol.18 (Suppl 9), p.1-9
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Using pre-existing microarray datasets to increase experimental power: application to insulin resistance
Author / Creator:Daigle, Jr, Bernie J ; Deng, Alicia ; McLaughlin, Tracey ; Cushman, Samuel W ; Cam, Margaret C ; Reaven, Gerald ; Tsao, Philip S ; Altman, Russ B
Publisher:United States: Public Library of Science
Journal title:PLoS computational biology, 2010-03, Vol.6 (3), p.e1000718-e1000718
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ArticlesFull Text
GEOlimma: Differential Expression Analysis and Feature Selection Using Pre-Existing Microarray Data
Author / Creator:Lu, Liangqun ; Townsend, Kevin ; Daigle, Bernie
Publisher:Cold Spring Harbor: Cold Spring Harbor Laboratory Press
Journal title:bioRxiv, 2019-07
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ArticlesPeer ReviewedFull Text
Toward a data-driven model of trauma dynamics
Author / Creator:Petzold, Linda ; Zhang, Yuanyan ; Daigle, Bernie ; Ferrigno, Lisa ; Cohen, Mitch
Publisher:Philadelphia: Elsevier Inc
Journal title:Journal of critical care, 2013-12, Vol.28 (6), p.e37-e37
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Mechanistic insights on metabolic dysfunction in PTSD: Role of glucocorticoid receptor sensitivity and energy deficit
Author / Creator:Pramod Rajaram Somvanshi ; Mellon, Synthia H ; Flory, Janine D ; Abu-Amara, Duna ; Wolkowitz, Owen M ; Yehuda, Rachel ; Jett, Marti ; Marmar, Charles ; Hood, Leroy ; Wang, Kai ; Lee, Inyoul ; Hammamieh, Rasha ; Gautam, Aarti ; Daigle, Bernie J ; Yang, Ruoting ; Doyle, Francis J
Publisher:Cold Spring Harbor: Cold Spring Harbor Laboratory Press
Journal title:bioRxiv, 2018-12
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Stochastic Simulation Service: Bridging the Gap between the Computational Expert and the Biologist

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Prognostic analysis of histopathological images using pre-trained convolutional neural networks: application to hepatocellular carcinoma

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GEOlimma: differential expression analysis and feature selection using pre-existing microarray data

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Accelerated maximum likelihood parameter estimation for stochastic biochemical systems

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Core module biomarker identification with network exploration for breast cancer metastasis

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Multi-omic biomarker identification and validation for diagnosing warzone-related post-traumatic stress disorder

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Epigenetic biotypes of post-traumatic stress disorder in war-zone exposed veteran and active duty males

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Utilization of machine learning for identifying symptom severity military-related PTSD subtypes and their biological correlates

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SParSE++: improved event-based stochastic parameter search

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Identification of disease states associated with coagulopathy in trauma

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Core modular blood and brain biomarkers in social defeat mouse model for post traumatic stress disorder

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Circulating cell-free mitochondrial DNA levels and glucocorticoid sensitivity in a cohort of male veterans with and without combat-related PTSD

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Polygenic risk associated with post-traumatic stress disorder onset and severity

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M-BISON: microarray-based integration of data sources using networks

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Proceedings of the 16th Annual UT-KBRIN Bioinformatics Summit 2016: bioinformatics: Burns, TN, USA. April 21-23, 2017

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Proceedings of the 16th Annual UT-KBRIN Bioinformatics Summit 2016: bioinformatics

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Using pre-existing microarray datasets to increase experimental power: application to insulin resistance

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GEOlimma: Differential Expression Analysis and Feature Selection Using Pre-Existing Microarray Data

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Toward a data-driven model of trauma dynamics

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Mechanistic insights on metabolic dysfunction in PTSD: Role of glucocorticoid receptor sensitivity and energy deficit

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