Degui Zhi

Degui Zhi

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Degui Zhi

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RaPID: ultra-fast, powerful, and accurate detection of segments identical by descent (IBD) in biobank-scale cohorts.

Genome Biol 2019 07 25;20(1):143. Epub 2019 Jul 25.

School of Biomedical Informatics, The University of Texas Health Science Center at Houston, Houston, TX, 77030, USA.

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http://dx.doi.org/10.1186/s13059-019-1754-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6659282PMC
July 2019

Multi-allelic positional Burrows-Wheeler transform.

BMC Bioinformatics 2019 Jun 6;20(Suppl 11):279. Epub 2019 Jun 6.

Department of Computer Science, University of Central Florida, Orlando, FL, 32816, USA.

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http://dx.doi.org/10.1186/s12859-019-2821-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6551244PMC
June 2019

Network context matters: graph convolutional network model over social networks improves the detection of unknown HIV infections among young men who have sex with men.

J Am Med Inform Assoc 2019 Jun 14. Epub 2019 Jun 14.

School of Biomedical Informatics, University of Texas Health Science Center at Houston, Houston, Texas, USA.

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http://dx.doi.org/10.1093/jamia/ocz070DOI Listing
June 2019

Predicting gene expression using DNA methylation in three human populations.

PeerJ 2019 1;7:e6757. Epub 2019 May 1.

Department of Biostatistics and Bioinformatics, Emory University, Atlanta, GA, United States of America.

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http://dx.doi.org/10.7717/peerj.6757DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6500370PMC
May 2019

Time-sensitive clinical concept embeddings learned from large electronic health records.

BMC Med Inform Decis Mak 2019 Apr 9;19(Suppl 2):58. Epub 2019 Apr 9.

School of Biomedical Informatics, The University of Texas Health Science Center at Houston, Houston, TX, USA.

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https://bmcmedinformdecismak.biomedcentral.com/articles/10.1
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http://dx.doi.org/10.1186/s12911-019-0766-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6454598PMC
April 2019

All pins are not created equal: communicating skin cancer visually on Pinterest.

Transl Behav Med 2019 03;9(2):336-346

School of Biomedical Informatics, University of Texas Health Science Center at Houston, Houston, TX, USA.

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http://dx.doi.org/10.1093/tbm/iby044DOI Listing
March 2019

Clinical Named Entity Recognition Using Deep Learning Models.

AMIA Annu Symp Proc 2017 16;2017:1812-1819. Epub 2018 Apr 16.

School of Biomedical Informatics, the University of Texas Health Science Center at Houston, Houston, TX, USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5977567PMC
February 2019

Gene2vec: distributed representation of genes based on co-expression.

BMC Genomics 2019 Feb 4;20(Suppl 1):82. Epub 2019 Feb 4.

The University of Texas School of Biomedical Informatics, Houston, TX, 77030, USA.

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http://dx.doi.org/10.1186/s12864-018-5370-xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6360648PMC
February 2019

The International Conference on Intelligent Biology and Medicine (ICIBM) 2018: genomics with bigger data and wider applications.

BMC Genomics 2019 Feb 4;20(Suppl 1):80. Epub 2019 Feb 4.

Center for Precision Health, School of Biomedical Informatics, The University of Texas Health Science Center at Houston, Houston, TX, 77030, USA.

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http://dx.doi.org/10.1186/s12864-018-5369-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6360715PMC
February 2019

The International Conference on Intelligent Biology and Medicine (ICIBM) 2018: genomics meets medicine.

BMC Med Genomics 2019 Jan 31;12(Suppl 1):20. Epub 2019 Jan 31.

Raymond G. Perelman Center for Cellular and Molecular Therapeutics, Children's Hospital of Philadelphia, Philadelphia, PA, 19104, USA.

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http://dx.doi.org/10.1186/s12920-018-0448-5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6357345PMC
January 2019

Tweeting about measles during stages of an outbreak: A semantic network approach to the framing of an emerging infectious disease.

Am J Infect Control 2018 12 19;46(12):1375-1380. Epub 2018 Jun 19.

School of Biomedical Informatics, University of Texas Health Science Center at Houston, Houston, TX.

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http://dx.doi.org/10.1016/j.ajic.2018.05.019DOI Listing
December 2018

The International Conference on Intelligent Biology and Medicine (ICIBM) 2018: systems biology on diverse data types.

BMC Syst Biol 2018 12 21;12(Suppl 8):125. Epub 2018 Dec 21.

Center for Precision Health, School of Biomedical Informatics, The University of Texas Health Science Center at Houston, Houston, TX, 77030, USA.

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http://dx.doi.org/10.1186/s12918-018-0648-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6302362PMC
December 2018

The International Conference on Intelligent Biology and Medicine (ICIBM) 2018: bioinformatics towards translational applications.

BMC Bioinformatics 2018 Dec 28;19(Suppl 17):492. Epub 2018 Dec 28.

Center for Precision Health, School of Biomedical Informatics, The University of Texas Health Science Center at Houston, Houston, TX, 77030, USA.

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http://dx.doi.org/10.1186/s12859-018-2460-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6309051PMC
December 2018

Social media and outbreaks of emerging infectious diseases: A systematic review of literature.

Am J Infect Control 2018 09 5;46(9):962-972. Epub 2018 Apr 5.

School of Biomedical Informatics, University of Texas Health Science Center at Houston, Houston, Texas.

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http://dx.doi.org/10.1016/j.ajic.2018.02.010DOI Listing
September 2018

A study of generalizability of recurrent neural network-based predictive models for heart failure onset risk using a large and heterogeneous EHR data set.

J Biomed Inform 2018 Aug 15;84:11-16. Epub 2018 Jun 15.

School of Biomedical Informatics, University of Texas Health Science Center at Houston (UTHealth), Houston, TX, United States. Electronic address:

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http://dx.doi.org/10.1016/j.jbi.2018.06.011DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6076336PMC
August 2018

Public Perception Analysis of Tweets During the 2015 Measles Outbreak: Comparative Study Using Convolutional Neural Network Models.

J Med Internet Res 2018 07 9;20(7):e236. Epub 2018 Jul 9.

School of Biomedical Informatics, The University of Texas Health Science Center at Houston, Houston, TX, United States.

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http://dx.doi.org/10.2196/jmir.9413DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6056740PMC
July 2018

A Genome-Wide Association Study Reveals That Genes with Functions for Bone Development Are Associated with Body Conformation in Catfish.

Mar Biotechnol (NY) 2017 Dec 2;19(6):570-578. Epub 2017 Oct 2.

Fish Molecular Genetics and Biotechnology Laboratory, Aquatic Genomics Unit, School of Fisheries, Aquaculture and Aquatic Sciences, Auburn University, Auburn, AL, 36849, USA.

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http://dx.doi.org/10.1007/s10126-017-9775-3DOI Listing
December 2017

DRREP: deep ridge regressed epitope predictor.

BMC Genomics 2017 Oct 3;18(Suppl 6):676. Epub 2017 Oct 3.

Department of Computer Science, University of Central Florida, Orlando, FL, USA.

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http://dx.doi.org/10.1186/s12864-017-4024-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5629616PMC
October 2017

An epigenome-wide association study of inflammatory response to fenofibrate in the Genetics of Lipid Lowering Drugs and Diet Network.

Pharmacogenomics 2017 Sep 24;18(14):1333-1341. Epub 2017 Aug 24.

Department of Epidemiology, School of Public Health, University of Alabama at Birmingham, Birmingham, AL 35294, USA.

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http://dx.doi.org/10.2217/pgs-2017-0037DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5593083PMC
September 2017

An Optimal Bahadur-Efficient Method in Detection of Sparse Signals with Applications to Pathway Analysis in Sequencing Association Studies.

PLoS One 2016 5;11(7):e0152667. Epub 2016 Jul 5.

Department of Biostatistics, University of Alabama at Birmingham, Birmingham, AL, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0152667PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4933358PMC
July 2017

Influence of common and rare genetic variation on warfarin dose among African-Americans and European-Americans using the exome array.

Pharmacogenomics 2017 Jul 7;18(11):1059-1073. Epub 2017 Jul 7.

Department of Neurology, School of Medicine, University of Alabama at Birmingham, Birmingham, AL 35294, USA.

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http://dx.doi.org/10.2217/pgs-2017-0046DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5619051PMC
July 2017

Discovery and fine-mapping of adiposity loci using high density imputation of genome-wide association studies in individuals of African ancestry: African Ancestry Anthropometry Genetics Consortium.

Authors:
Maggie C Y Ng Mariaelisa Graff Yingchang Lu Anne E Justice Poorva Mudgal Ching-Ti Liu Kristin Young Lisa R Yanek Mary F Feitosa Mary K Wojczynski Kristin Rand Jennifer A Brody Brian E Cade Latchezar Dimitrov Qing Duan Xiuqing Guo Leslie A Lange Michael A Nalls Hayrettin Okut Salman M Tajuddin Bamidele O Tayo Sailaja Vedantam Jonathan P Bradfield Guanjie Chen Wei-Min Chen Alessandra Chesi Marguerite R Irvin Badri Padhukasahasram Jennifer A Smith Wei Zheng Matthew A Allison Christine B Ambrosone Elisa V Bandera Traci M Bartz Sonja I Berndt Leslie Bernstein William J Blot Erwin P Bottinger John Carpten Stephen J Chanock Yii-Der Ida Chen David V Conti Richard S Cooper Myriam Fornage Barry I Freedman Melissa Garcia Phyllis J Goodman Yu-Han H Hsu Jennifer Hu Chad D Huff Sue A Ingles Esther M John Rick Kittles Eric Klein Jin Li Barbara McKnight Uma Nayak Barbara Nemesure Adesola Ogunniyi Andrew Olshan Michael F Press Rebecca Rohde Benjamin A Rybicki Babatunde Salako Maureen Sanderson Yaming Shao David S Siscovick Janet L Stanford Victoria L Stevens Alex Stram Sara S Strom Dhananjay Vaidya John S Witte Jie Yao Xiaofeng Zhu Regina G Ziegler Alan B Zonderman Adebowale Adeyemo Stefan Ambs Mary Cushman Jessica D Faul Hakon Hakonarson Albert M Levin Katherine L Nathanson Erin B Ware David R Weir Wei Zhao Degui Zhi Donna K Arnett Struan F A Grant Sharon L R Kardia Olufunmilayo I Oloapde D C Rao Charles N Rotimi Michele M Sale L Keoki Williams Babette S Zemel Diane M Becker Ingrid B Borecki Michele K Evans Tamara B Harris Joel N Hirschhorn Yun Li Sanjay R Patel Bruce M Psaty Jerome I Rotter James G Wilson Donald W Bowden L Adrienne Cupples Christopher A Haiman Ruth J F Loos Kari E North

PLoS Genet 2017 Apr 21;13(4):e1006719. Epub 2017 Apr 21.

Department of Epidemiology, University of North Carolina, Chapel Hill, NC, United States of America.

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http://dx.doi.org/10.1371/journal.pgen.1006719DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5419579PMC
April 2017

Epigenetic Patterns in Blood Associated With Lipid Traits Predict Incident Coronary Heart Disease Events and Are Enriched for Results From Genome-Wide Association Studies.

Circ Cardiovasc Genet 2017 Jan;10(1)

From the Department of Medical Sciences, Molecular Epidemiology and Science for Life Laboratory (Å.K.H., S.G., E.I.) and Department of Medical Sciences, Molecular Medicine and Science for Life Laboratory (J.K.S.), Uppsala University, Sweden; Cardiovascular Medicine unit, Department of Medicine Solna, Karolinska Institute, Stockholm, Sweden (Å.K.H.) Framingham Heart Study, MA (M.M.M., R.J., C.Y., C.L., T.H., S.D., L.A.C., D.L.); Department of Biostatistics (C.L., L.A.C., S.D.), Boston University, MA; Boston University, MA (M.M.M.); Department of Cardiology, Boston Children's Hospital, MA (M.M.M.); Population Sciences Branch, National Heart, Lung, and Blood Institute, National Institutes of Health, Bethesda, MD (M.M.M., R.J., C.Y., C.L., T.H., D.L.); Centre for Cognitive Ageing and Cognitive Epidemiology (R.E.M., J.M.S., I.J.D.), Medical Genetics Section, Centre for Genomics and Experimental Medicine, Institute of Genetics and Molecular Medicine (R.E.M.), Alzheimer Scotland Dementia Research Centre (J.M.S.), and Department of Psychology (I.J.D.), University of Edinburgh, United Kingdom; Queensland Brain Institute, The University of Queensland, Brisbane, Australia (R.E.M., A.F.M., S.S.); Institute for Molecular Bioscience, University of Queensland, Brisbane, Queensland, Australia (S.S., A.F.M.); Hebrew Senior Life, Harvard Medical School, Boston, MA (R.J.); Department of Epidemiology, School of Public Health (M.R.I.) and Department of Biostatistics, Section on Statistical Genetics (D.Z.), University of Alabama at Birmingham; Department of Biostatistics, Harvard School of Public Health, Boston, MA (L. Liang); William Harvey Research Institute, Barts and The London School of Medicine and Dentistry, Queen Mary University of London, United Kingdom (P.D.); Princess Al-Jawhara Al-Brahim Centre of Excellence in Research of Hereditary Disorders (PACER-HD), King Abdulaziz University, Jeddah, Saudi Arabia (P.D.); Department of Twin Research and Genetic Epidemiology, King's College London, United Kingdom (T.D.S.); Deparment of Medical Sciences, Cardiovascular Epidemiology, Uppsala University Hospital, Sweden (J.S., L.L.); Children's Hospital Oakland Research Institute, CA (R.M.K.); College of Public Health, University of Kentucky, Lexington (D.K.A.); and Department of Medicine, Division of Cardiovascular Medicine, Stanford University School of Medicine, CA (E.I.).

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http://dx.doi.org/10.1161/CIRCGENETICS.116.001487DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5331877PMC
January 2017

Gravidas with class III obesity: evaluating the abdominal skin microbiota above and below the panniculus (.).

J Matern Fetal Neonatal Med 2016 Oct 23;29(20):3312-6. Epub 2015 Dec 23.

e Department of Cell , Developmental, and Integrative Biology, University of Alabama at Birmingham , Birmingham , AL , USA.

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http://www.tandfonline.com/doi/full/10.3109/14767058.2015.11
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http://dx.doi.org/10.3109/14767058.2015.1124081DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4975423PMC
October 2016

A Genome-Wide Association Study Identifies Multiple Regions Associated with Head Size in Catfish.

G3 (Bethesda) 2016 10 13;6(10):3389-3398. Epub 2016 Oct 13.

Fish Molecular Genetics and Biotechnology Laboratory, Aquatic Genomics Unit, School of Fisheries, Aquaculture and Aquatic Sciences, Auburn University, Alabama 36849

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http://dx.doi.org/10.1534/g3.116.032201DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5068958PMC
October 2016

Epigenetic Signatures of Cigarette Smoking.

Circ Cardiovasc Genet 2016 Oct 20;9(5):436-447. Epub 2016 Sep 20.

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http://dx.doi.org/10.1161/CIRCGENETICS.116.001506DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5267325PMC
October 2016

The Bioenergetic Health Index is a sensitive measure of oxidative stress in human monocytes.

Redox Biol 2016 08 24;8:43-50. Epub 2015 Dec 24.

Department of Urology, University of Alabama at Birmingham, Birmingham, AL 35294, United States. Electronic address:

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http://dx.doi.org/10.1016/j.redox.2015.12.008DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4712317PMC
August 2016

Use of ECMO in the Management of Severe Acute Respiratory Distress Syndrome: A Survey of Academic Medical Centers in the United States.

ASAIO J 2015 Sep-Oct;61(5):556-63

From the *Division of Pulmonary, Allergy and Critical Care Medicine, University of Alabama at Birmingham, Birmingham, Alabama; †Department of Biostatistics, Ryals School Public Health, University of Alabama at Birmingham, Birmingham, Alabama; ‡Division of Pulmonary, Critical Care, and Sleep Medicine, Columbia University, New York, New York; and §Department of Cardiothoracic Surgery, University of Kentucky, Lexington, Kentucky.

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http://dx.doi.org/10.1097/MAT.0000000000000245DOI Listing
July 2016

A genome-wide study of lipid response to fenofibrate in Caucasians: a combined analysis of the GOLDN and ACCORD studies.

Pharmacogenet Genomics 2016 07;26(7):324-33

Departments of aEpidemiology bBiostatistics, University of Alabama at Birmingham, Birmingham, Alabama cDepartment of Statistics, North Carolina State University, Raleigh dUAB Biostatistics, Diabetes Center for Research, University of North Carolina at Chapel Hill School of Medicine eUAB Epidemiology, Center for Pharmacogenomics and Individualized Therapy, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina fDepartment of Experimental and Clinical Pharmacology, University of Minnesota, Minneapolis, Minnesota gNCState Biostatistics, Jean Mayer USDA Human Nutrition Research Center on Aging, Tufts University, Boston, Massachusetts hDepartment of Genetics, Division of Statistical Genomics, Washington University in St Louis, St Louis, Missouri iLaboratory of Statistical and Mathematical Genetics jLaboratory for Biochemistry, Molecular Phenotyping, and Microarray kInstitute for Translational Genomics and Population Sciences, Harbor-UCLA Medical Center, Torrance, California, USA.

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http://dx.doi.org/10.1097/FPC.0000000000000219DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4986826PMC
July 2016

Genetically predicted longer telomere length is associated with increased risk of B-cell lymphoma subtypes.

Authors:
Mitchell J Machiela Qing Lan Susan L Slager Roel C H Vermeulen Lauren R Teras Nicola J Camp James R Cerhan John J Spinelli Sophia S Wang Alexandra Nieters Joseph Vijai Meredith Yeager Zhaoming Wang Hervé Ghesquières James McKay Lucia Conde Paul I W de Bakker David G Cox Laurie Burdett Alain Monnereau Christopher R Flowers Anneclaire J De Roos Angela R Brooks-Wilson Graham G Giles Mads Melbye Jian Gu Rebecca D Jackson Eleanor Kane Mark P Purdue Claire M Vajdic Demetrius Albanes Rachel S Kelly Mariagrazia Zucca Kimberly A Bertrand Anne Zeleniuch-Jacquotte Charles Lawrence Amy Hutchinson Degui Zhi Thomas M Habermann Brian K Link Anne J Novak Ahmet Dogan Yan W Asmann Mark Liebow Carrie A Thompson Stephen M Ansell Thomas E Witzig Hervé Tilly Corinne Haioun Thierry J Molina Henrik Hjalgrim Bengt Glimelius Hans-Olov Adami Göran Roos Paige M Bracci Jacques Riby Martyn T Smith Elizabeth A Holly Wendy Cozen Patricia Hartge Lindsay M Morton Richard K Severson Lesley F Tinker Kari E North Nikolaus Becker Yolanda Benavente Paolo Boffetta Paul Brennan Lenka Foretova Marc Maynadie Anthony Staines Tracy Lightfoot Simon Crouch Alex Smith Eve Roman W Ryan Diver Kenneth Offit Andrew Zelenetz Robert J Klein Danylo J Villano Tongzhang Zheng Yawei Zhang Theodore R Holford Jenny Turner Melissa C Southey Jacqueline Clavel Jarmo Virtamo Stephanie Weinstein Elio Riboli Paolo Vineis Rudolph Kaaks Heiner Boeing Anne Tjønneland Emanuele Angelucci Simonetta Di Lollo Marco Rais Immaculata De Vivo Edward Giovannucci Peter Kraft Jinyan Huang Baoshan Ma Yuanqing Ye Brian C H Chiu Liming Liang Ju-Hyun Park Charles C Chung Dennis D Weisenburger Joseph F Fraumeni Gilles Salles Martha Glenn Lisa Cannon-Albright Karen Curtin Xifeng Wu Karin E Smedby Silvia de Sanjose Christine F Skibola Sonja I Berndt Brenda M Birmann Stephen J Chanock Nathaniel Rothman

Hum Mol Genet 2016 Apr 9;25(8):1663-76. Epub 2016 Feb 9.

Division of Cancer Epidemiology and Genetics, National Cancer Institute, Bethesda, MD, USA.

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http://hmg.oxfordjournals.org/content/early/2016/02/22/hmg.d
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http://www.hmg.oxfordjournals.org/lookup/doi/10.1093/hmg/ddw
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http://dx.doi.org/10.1093/hmg/ddw027DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4854019PMC
April 2016

Vaginal Microbiota in Pregnancy: Evaluation Based on Vaginal Flora, Birth Outcome, and Race.

Am J Perinatol 2016 Mar 19;33(4):401-8. Epub 2015 Oct 19.

Division of Maternal-Fetal Medicine, Department of Obstetrics and Gynecology, Center for Women's Reproductive Health, Birmingham, Alabama.

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http://dx.doi.org/10.1055/s-0035-1565919DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5166555PMC
March 2016

Meta-analysis of genome-wide association studies discovers multiple loci for chronic lymphocytic leukemia.

Authors:
Sonja I Berndt Nicola J Camp Christine F Skibola Joseph Vijai Zhaoming Wang Jian Gu Alexandra Nieters Rachel S Kelly Karin E Smedby Alain Monnereau Wendy Cozen Angela Cox Sophia S Wang Qing Lan Lauren R Teras Moara Machado Meredith Yeager Angela R Brooks-Wilson Patricia Hartge Mark P Purdue Brenda M Birmann Claire M Vajdic Pierluigi Cocco Yawei Zhang Graham G Giles Anne Zeleniuch-Jacquotte Charles Lawrence Rebecca Montalvan Laurie Burdett Amy Hutchinson Yuanqing Ye Timothy G Call Tait D Shanafelt Anne J Novak Neil E Kay Mark Liebow Julie M Cunningham Cristine Allmer Henrik Hjalgrim Hans-Olov Adami Mads Melbye Bengt Glimelius Ellen T Chang Martha Glenn Karen Curtin Lisa A Cannon-Albright W Ryan Diver Brian K Link George J Weiner Lucia Conde Paige M Bracci Jacques Riby Donna K Arnett Degui Zhi Justin M Leach Elizabeth A Holly Rebecca D Jackson Lesley F Tinker Yolanda Benavente Núria Sala Delphine Casabonne Nikolaus Becker Paolo Boffetta Paul Brennan Lenka Foretova Marc Maynadie James McKay Anthony Staines Kari G Chaffee Sara J Achenbach Celine M Vachon Lynn R Goldin Sara S Strom Jose F Leis J Brice Weinberg Neil E Caporaso Aaron D Norman Anneclaire J De Roos Lindsay M Morton Richard K Severson Elio Riboli Paolo Vineis Rudolph Kaaks Giovanna Masala Elisabete Weiderpass María-Dolores Chirlaque Roel C H Vermeulen Ruth C Travis Melissa C Southey Roger L Milne Demetrius Albanes Jarmo Virtamo Stephanie Weinstein Jacqueline Clavel Tongzhang Zheng Theodore R Holford Danylo J Villano Ann Maria John J Spinelli Randy D Gascoyne Joseph M Connors Kimberly A Bertrand Edward Giovannucci Peter Kraft Anne Kricker Jenny Turner Maria Grazia Ennas Giovanni M Ferri Lucia Miligi Liming Liang Baoshan Ma Jinyan Huang Simon Crouch Ju-Hyun Park Nilanjan Chatterjee Kari E North John A Snowden Josh Wright Joseph F Fraumeni Kenneth Offit Xifeng Wu Silvia de Sanjose James R Cerhan Stephen J Chanock Nathaniel Rothman Susan L Slager

Nat Commun 2016 Mar 9;7:10933. Epub 2016 Mar 9.

Department of Health Sciences Research, Mayo Clinic, Rochester, Minnesota 55905, USA.

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http://dx.doi.org/10.1038/ncomms10933DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4786871PMC
March 2016

Defining the effects of storage on platelet bioenergetics: The role of increased proton leak.

Biochim Biophys Acta 2015 Nov 29;1852(11):2525-34. Epub 2015 Aug 29.

Department of Pathology, University of Alabama at Birmingham, Birmingham, AL, USA; UAB Mitochondrial Medicine Laboratory, University of Alabama at Birmingham, Birmingham, AL, USA; Center for Free Radical Biology, University of Alabama at Birmingham, Birmingham, AL, USA. Electronic address:

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http://dx.doi.org/10.1016/j.bbadis.2015.08.026DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4582014PMC
November 2015

Biomedical data integration, modeling, and simulation in the era of big data and translational medicine.

Biomed Res Int 2014 24;2014:731546. Epub 2014 Jul 24.

Institute of Health Sciences, Anhui University, Hefei 230601, China.

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http://www.hindawi.com/journals/bmri/2014/731546/
Publisher Site
http://dx.doi.org/10.1155/2014/731546DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4131419PMC
September 2015

Directional dominance on stature and cognition in diverse human populations.

Authors:
Peter K Joshi Tonu Esko Hannele Mattsson Niina Eklund Ilaria Gandin Teresa Nutile Anne U Jackson Claudia Schurmann Albert V Smith Weihua Zhang Yukinori Okada Alena Stančáková Jessica D Faul Wei Zhao Traci M Bartz Maria Pina Concas Nora Franceschini Stefan Enroth Veronique Vitart Stella Trompet Xiuqing Guo Daniel I Chasman Jeffery R O'Connel Tanguy Corre Suraj S Nongmaithem Yuning Chen Massimo Mangino Daniela Ruggiero Michela Traglia Aliki-Eleni Farmaki Tim Kacprowski Andrew Bjonnes Ashley van der Spek Ying Wu Anil K Giri Lisa R Yanek Lihua Wang Edith Hofer Cornelius A Rietveld Olga McLeod Marilyn C Cornelis Cristian Pattaro Niek Verweij Clemens Baumbach Abdel Abdellaoui Helen R Warren Dragana Vuckovic Hao Mei Claude Bouchard John R B Perry Stefania Cappellani Saira S Mirza Miles C Benton Ulrich Broeckel Sarah E Medland Penelope A Lind Giovanni Malerba Alexander Drong Loic Yengo Lawrence F Bielak Degui Zhi Peter J van der Most Daniel Shriner Reedik Mägi Gibran Hemani Tugce Karaderi Zhaoming Wang Tian Liu Ilja Demuth Jing Hua Zhao Weihua Meng Lazaros Lataniotis Sander W van der Laan Jonathan P Bradfield Andrew R Wood Amelie Bonnefond Tarunveer S Ahluwalia Leanne M Hall Erika Salvi Seyhan Yazar Lisbeth Carstensen Hugoline G de Haan Mark Abney Uzma Afzal Matthew A Allison Najaf Amin Folkert W Asselbergs Stephan J L Bakker R Graham Barr Sebastian E Baumeister Daniel J Benjamin Sven Bergmann Eric Boerwinkle Erwin P Bottinger Archie Campbell Aravinda Chakravarti Yingleong Chan Stephen J Chanock Constance Chen Y-D Ida Chen Francis S Collins John Connell Adolfo Correa L Adrienne Cupples George Davey Smith Gail Davies Marcus Dörr Georg Ehret Stephen B Ellis Bjarke Feenstra Mary F Feitosa Ian Ford Caroline S Fox Timothy M Frayling Nele Friedrich Frank Geller Generation Scotland Irina Gillham-Nasenya Omri Gottesman Misa Graff Francine Grodstein Charles Gu Chris Haley Christopher J Hammond Sarah E Harris Tamara B Harris Nicholas D Hastie Nancy L Heard-Costa Kauko Heikkilä Lynne J Hocking Georg Homuth Jouke-Jan Hottenga Jinyan Huang Jennifer E Huffman Pirro G Hysi M Arfan Ikram Erik Ingelsson Anni Joensuu Åsa Johansson Pekka Jousilahti J Wouter Jukema Mika Kähönen Yoichiro Kamatani Stavroula Kanoni Shona M Kerr Nazir M Khan Philipp Koellinger Heikki A Koistinen Manraj K Kooner Michiaki Kubo Johanna Kuusisto Jari Lahti Lenore J Launer Rodney A Lea Benjamin Lehne Terho Lehtimäki David C M Liewald Lars Lind Marie Loh Marja-Liisa Lokki Stephanie J London Stephanie J Loomis Anu Loukola Yingchang Lu Thomas Lumley Annamari Lundqvist Satu Männistö Pedro Marques-Vidal Corrado Masciullo Angela Matchan Rasika A Mathias Koichi Matsuda James B Meigs Christa Meisinger Thomas Meitinger Cristina Menni Frank D Mentch Evelin Mihailov Lili Milani May E Montasser Grant W Montgomery Alanna Morrison Richard H Myers Rajiv Nadukuru Pau Navarro Mari Nelis Markku S Nieminen Ilja M Nolte George T O'Connor Adesola Ogunniyi Sandosh Padmanabhan Walter R Palmas James S Pankow Inga Patarcic Francesca Pavani Patricia A Peyser Kirsi Pietilainen Neil Poulter Inga Prokopenko Sarju Ralhan Paul Redmond Stephen S Rich Harri Rissanen Antonietta Robino Lynda M Rose Richard Rose Cinzia Sala Babatunde Salako Veikko Salomaa Antti-Pekka Sarin Richa Saxena Helena Schmidt Laura J Scott William R Scott Bengt Sennblad Sudha Seshadri Peter Sever Smeeta Shrestha Blair H Smith Jennifer A Smith Nicole Soranzo Nona Sotoodehnia Lorraine Southam Alice V Stanton Maria G Stathopoulou Konstantin Strauch Rona J Strawbridge Matthew J Suderman Nikhil Tandon Sian-Tsun Tang Kent D Taylor Bamidele O Tayo Anna Maria Töglhofer Maciej Tomaszewski Natalia Tšernikova Jaakko Tuomilehto Andre G Uitterlinden Dhananjay Vaidya Astrid van Hylckama Vlieg Jessica van Setten Tuula Vasankari Sailaja Vedantam Efthymia Vlachopoulou Diego Vozzi Eero Vuoksimaa Melanie Waldenberger Erin B Ware William Wentworth-Shields John B Whitfield Sarah Wild Gonneke Willemsen Chittaranjan S Yajnik Jie Yao Gianluigi Zaza Xiaofeng Zhu The BioBank Japan Project Rany M Salem Mads Melbye Hans Bisgaard Nilesh J Samani Daniele Cusi David A Mackey Richard S Cooper Philippe Froguel Gerard Pasterkamp Struan F A Grant Hakon Hakonarson Luigi Ferrucci Robert A Scott Andrew D Morris Colin N A Palmer George Dedoussis Panos Deloukas Lars Bertram Ulman Lindenberger Sonja I Berndt Cecilia M Lindgren Nicholas J Timpson Anke Tönjes Patricia B Munroe Thorkild I A Sørensen Charles N Rotimi Donna K Arnett Albertine J Oldehinkel Sharon L R Kardia Beverley Balkau Giovanni Gambaro Andrew P Morris Johan G Eriksson Margie J Wright Nicholas G Martin Steven C Hunt John M Starr Ian J Deary Lyn R Griffiths Henning Tiemeier Nicola Pirastu Jaakko Kaprio Nicholas J Wareham Louis Pérusse James G Wilson Giorgia Girotto Mark J Caulfield Olli Raitakari Dorret I Boomsma Christian Gieger Pim van der Harst Andrew A Hicks Peter Kraft Juha Sinisalo Paul Knekt Magnus Johannesson Patrik K E Magnusson Anders Hamsten Reinhold Schmidt Ingrid B 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Nature 2015 Jul 1;523(7561):459-462. Epub 2015 Jul 1.

Usher Institute for Population Health Sciences and Informatics, University of Edinburgh, Teviot Place, Edinburgh, EH8 9AG, Scotland.

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http://dx.doi.org/10.1038/nature14618DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4516141PMC
July 2015

Decreased Bioenergetic Health Index in monocytes isolated from the pericardial fluid and blood of post-operative cardiac surgery patients.

Biosci Rep 2015 Jul 1;35(4). Epub 2015 Jul 1.

Mitochondrial Medicine Laboratory, Department of Pathology, University of Alabama at Birmingham, AL 35294, U.S.A. Center for Free Radical Biology, Department of Pathology, University of Alabama at Birmingham, AL 35294, U.S.A.

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http://dx.doi.org/10.1042/BSR20150161DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4613711PMC
July 2015

On the design and analysis of next-generation sequencing genotyping for a cohort with haplotype-informative reads.

Methods 2015 Jun 30;79-80:41-6. Epub 2015 Jan 30.

Section on Statistical Genetics, Department of Biostatistics, University of Alabama at Birmingham, Birmingham, AL 35294, United States. Electronic address:

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http://dx.doi.org/10.1016/j.ymeth.2015.01.016DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4437872PMC
June 2015

Evaluation of association tests for rare variants using simulated data sets in the Genetic Analysis Workshop 17 data.

BMC Proc 2011 29;5 Suppl 9:S86. Epub 2011 Nov 29.

Department of Biostatistics, Virginia Commonwealth University School of Medicine, 830 East Main Street, One Capitol Square, 7th Floor, Richmond, VA 23298-0032, USA.

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http://dx.doi.org/10.1186/1753-6561-5-S9-S86DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3287927PMC
April 2015

A genome-wide association study in catfish reveals the presence of functional hubs of related genes within QTLs for columnaris disease resistance.

BMC Genomics 2015 Mar 17;16:196. Epub 2015 Mar 17.

Fish Molecular Genetics and Biotechnology Laboratory, Aquatic Genomics Unit, School of Fisheries, Aquaculture and Aquatic Sciences and Program of Cell and Molecular Biosciences, Auburn University, Auburn, AL, 36849, USA.

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http://dx.doi.org/10.1186/s12864-015-1409-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4372039PMC
March 2015

Cyclosporine-mediated allograft fibrosis is associated with micro-RNA-21 through AKT signaling.

Transpl Int 2015 Feb 30;28(2):232-45. Epub 2014 Oct 30.

Division of Nephrology, Department of Medicine, University of Alabama at Birmingham, Birmingham, AL, USA.

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http://dx.doi.org/10.1111/tri.12471DOI Listing
February 2015

Estimating proportions of explained variance: a comparison of whole genome subsets.

BMC Proc 2014 17;8(Suppl 1 Genetic Analysis Workshop 18Vanessa Olmo):S102. Epub 2014 Jun 17.

Department of Biostatistics, University of Alabama at Birmingham, 1665 University Blvd, Birmingham, AL 35205, USA.

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http://dx.doi.org/10.1186/1753-6561-8-S1-S102DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4143698PMC
December 2014

Genome-wide association study identifies multiple susceptibility loci for diffuse large B cell lymphoma.

Authors:
James R Cerhan Sonja I Berndt Joseph Vijai Hervé Ghesquières James McKay Sophia S Wang Zhaoming Wang Meredith Yeager Lucia Conde Paul I W de Bakker Alexandra Nieters David Cox Laurie Burdett Alain Monnereau Christopher R Flowers Anneclaire J De Roos Angela R Brooks-Wilson Qing Lan Gianluca Severi Mads Melbye Jian Gu Rebecca D Jackson Eleanor Kane Lauren R Teras Mark P Purdue Claire M Vajdic John J Spinelli Graham G Giles Demetrius Albanes Rachel S Kelly Mariagrazia Zucca Kimberly A Bertrand Anne Zeleniuch-Jacquotte Charles Lawrence Amy Hutchinson Degui Zhi Thomas M Habermann Brian K Link Anne J Novak Ahmet Dogan Yan W Asmann Mark Liebow Carrie A Thompson Stephen M Ansell Thomas E Witzig George J Weiner Amelie S Veron Diana Zelenika Hervé Tilly Corinne Haioun Thierry Jo Molina Henrik Hjalgrim Bengt Glimelius Hans-Olov Adami Paige M Bracci Jacques Riby Martyn T Smith Elizabeth A Holly Wendy Cozen Patricia Hartge Lindsay M Morton Richard K Severson Lesley F Tinker Kari E North Nikolaus Becker Yolanda Benavente Paolo Boffetta Paul Brennan Lenka Foretova Marc Maynadie Anthony Staines Tracy Lightfoot Simon Crouch Alex Smith Eve Roman W Ryan Diver Kenneth Offit Andrew Zelenetz Robert J Klein Danylo J Villano Tongzhang Zheng Yawei Zhang Theodore R Holford Anne Kricker Jenny Turner Melissa C Southey Jacqueline Clavel Jarmo Virtamo Stephanie Weinstein Elio Riboli Paolo Vineis Rudolph Kaaks Dimitrios Trichopoulos Roel C H Vermeulen Heiner Boeing Anne Tjonneland Emanuele Angelucci Simonetta Di Lollo Marco Rais Brenda M Birmann Francine Laden Edward Giovannucci Peter Kraft Jinyan Huang Baoshan Ma Yuanqing Ye Brian C H Chiu Joshua Sampson Liming Liang Ju-Hyun Park Charles C Chung Dennis D Weisenburger Nilanjan Chatterjee Joseph F Fraumeni Susan L Slager Xifeng Wu Silvia de Sanjose Karin E Smedby Gilles Salles Christine F Skibola Nathaniel Rothman Stephen J Chanock

Nat Genet 2014 Nov 28;46(11):1233-8. Epub 2014 Sep 28.

Division of Cancer Epidemiology and Genetics, National Cancer Institute, Bethesda, Maryland, USA.

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http://dx.doi.org/10.1038/ng.3105DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4213349PMC
November 2014

Genome-wide association study identifies five susceptibility loci for follicular lymphoma outside the HLA region.

Authors:
Christine F Skibola Sonja I Berndt Joseph Vijai Lucia Conde Zhaoming Wang Meredith Yeager Paul I W de Bakker Brenda M Birmann Claire M Vajdic Jia-Nee Foo Paige M Bracci Roel C H Vermeulen Susan L Slager Silvia de Sanjose Sophia S Wang Martha S Linet Gilles Salles Qing Lan Gianluca Severi Henrik Hjalgrim Tracy Lightfoot Mads Melbye Jian Gu Hervé Ghesquières Brian K Link Lindsay M Morton Elizabeth A Holly Alex Smith Lesley F Tinker Lauren R Teras Anne Kricker Nikolaus Becker Mark P Purdue John J Spinelli Yawei Zhang Graham G Giles Paolo Vineis Alain Monnereau Kimberly A Bertrand Demetrius Albanes Anne Zeleniuch-Jacquotte Attilio Gabbas Charles C Chung Laurie Burdett Amy Hutchinson Charles Lawrence Rebecca Montalvan Liming Liang Jinyan Huang Baoshan Ma Jianjun Liu Hans-Olov Adami Bengt Glimelius Yuanqing Ye Grzegorz S Nowakowski Ahmet Dogan Carrie A Thompson Thomas M Habermann Anne J Novak Mark Liebow Thomas E Witzig George J Weiner Maryjean Schenk Patricia Hartge Anneclaire J De Roos Wendy Cozen Degui Zhi Nicholas K Akers Jacques Riby Martyn T Smith Mortimer Lacher Danylo J Villano Ann Maria Eve Roman Eleanor Kane Rebecca D Jackson Kari E North W Ryan Diver Jenny Turner Bruce K Armstrong Yolanda Benavente Paolo Boffetta Paul Brennan Lenka Foretova Marc Maynadie Anthony Staines James McKay Angela R Brooks-Wilson Tongzhang Zheng Theodore R Holford Saioa Chamosa Rudolph Kaaks Rachel S Kelly Bodil Ohlsson Ruth C Travis Elisabete Weiderpass Jacqueline Clavel Edward Giovannucci Peter Kraft Jarmo Virtamo Patrizio Mazza Pierluigi Cocco Maria Grazia Ennas Brian C H Chiu Joseph F Fraumeni Alexandra Nieters Kenneth Offit Xifeng Wu James R Cerhan Karin E Smedby Stephen J Chanock Nathaniel Rothman

Am J Hum Genet 2014 Oct;95(4):462-71

Division of Cancer Epidemiology and Genetics, National Cancer Institute, NIH, Bethesda, MD 20892, USA.

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http://dx.doi.org/10.1016/j.ajhg.2014.09.004DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4185120PMC
October 2014

Systematic investigation of predicted effect of nonsynonymous SNPs in human prion protein gene: a molecular modeling and molecular dynamics study.

J Biomol Struct Dyn 2014 25;32(2):289-300. Epub 2013 Mar 25.

a Section on Statistical Genetics, Department of Biostatistics , School of Public Health, University of Alabama at Birmingham , Birmingham , AL , 35294 , USA .

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http://www.tandfonline.com/doi/abs/10.1080/07391102.2012.763
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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3851017PMC
August 2014

Epigenome-wide association study of fasting blood lipids in the Genetics of Lipid-lowering Drugs and Diet Network study.

Circulation 2014 Aug 11;130(7):565-72. Epub 2014 Jun 11.

From the Department of Epidemiology, School of Public Health, University of Alabama at Birmingham, Birmingham, AL (M.R.I., S.A., S.A.C., D.K.A.); Department of Biostatistics, Section on Statistical Genetics, University of Alabama at Birmingham, Birmingham, AL (D.Z., H.K.T.); Population Sciences Branch National Heart, Lung, and Blood Institute, National Institutes of Health, Bethesda, MD (R.J., M.M., L.L., B.H.C., C.Y., D.L.); Framingham Heart Study, Framingham, MA (R.J., M.M., L.L., B.H.C., C.Y., D.L.); Department of Cardiology, Boston Children's Hospital, Boston, MA (M.M.); Hudson Alpha Institute for Biotechnology, Huntsville, AL (K.S.T, N.P., K.D., L.W.J., D.A.); Departments of Epidemiology and Biostatistics, School of Public Health, Harvard University, Boston, MA (L.L.); and Nutrition and Genomics Laboratory, Jean Mayer-USDA-Human Nutrition Research Center on Aging at Tufts University, Boston, MA (J.M.O.).

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http://dx.doi.org/10.1161/CIRCULATIONAHA.114.009158DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4209699PMC
August 2014

A hidden Markov model for haplotype inference for present-absent data of clustered genes using identified haplotypes and haplotype patterns.

Front Genet 2014 12;5:267. Epub 2014 Aug 12.

Section on Statistical Genetics, Department of Biostatistics, University of Alabama at Birmingham Birmingham, AL, USA.

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http://dx.doi.org/10.3389/fgene.2014.00267DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4129397PMC
August 2014

Methylation at CPT1A locus is associated with lipoprotein subfraction profiles.

J Lipid Res 2014 07 7;55(7):1324-30. Epub 2014 Apr 7.

Department of Epidemiology, University of Alabama at Birmingham, School of Public Health, Birmingham, AL.

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http://dx.doi.org/10.1194/jlr.M048504DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4076093PMC
July 2014

A unified GMDR method for detecting gene-gene interactions in family and unrelated samples with application to nicotine dependence.

Hum Genet 2014 Feb 21;133(2):139-50. Epub 2013 Sep 21.

Section on Statistical Genetics, Department of Biostatistics, University of Alabama at Birmingham, 1665 University Boulevard, RPHB 327, Birmingham, AL, 35294-0022, USA.

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http://dx.doi.org/10.1007/s00439-013-1361-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3947150PMC
February 2014

Joint haplotype phasing and genotype calling of multiple individuals using haplotype informative reads.

Authors:
Kui Zhang Degui Zhi

Bioinformatics 2013 Oct 13;29(19):2427-34. Epub 2013 Aug 13.

Section on Statistical Genetics, Department of Biostatistics, University of Alabama at Birmingham, Birmingham, AL 35294, USA.

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http://dx.doi.org/10.1093/bioinformatics/btt418DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3777110PMC
October 2013

Haplotype kernel association test as a powerful method to identify chromosomal regions harboring uncommon causal variants.

Genet Epidemiol 2013 Sep 5;37(6):560-70. Epub 2013 Jun 5.

Institute of Epidemiology and Preventive Medicine, College of Public Health, National Taiwan University, Taipei, Taiwan.

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http://dx.doi.org/10.1002/gepi.21740DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4116485PMC
September 2013

SNPs located at CpG sites modulate genome-epigenome interaction.

Epigenetics 2013 Aug 28;8(8):802-6. Epub 2013 Jun 28.

Department of Biostatistics; University of Alabama; Birmingham, AL USA.

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http://dx.doi.org/10.4161/epi.25501DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3883783PMC
August 2013

Pathway-based approaches for sequencing-based genome-wide association studies.

Genet Epidemiol 2013 Jul 5;37(5):478-94. Epub 2013 May 5.

Department of Biostatistics, University of Alabama at Birmingham, Birmingham, Alabama 35294, USA.

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http://dx.doi.org/10.1002/gepi.21728DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3856324PMC
July 2013

Comprehensive comparative analysis and identification of RNA-binding protein domains: multi-class classification and feature selection.

J Theor Biol 2012 Nov 3;312:65-75. Epub 2012 Aug 3.

Section on Statistical Genetics, Department of Biostatistics, University of Alabama at Birmingham, Birmingham, AL, USA. Electronic address:

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http://dx.doi.org/10.1016/j.jtbi.2012.07.013DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3867591PMC
November 2012

Statistics for next generation sequencing - meeting report.

Front Genet 2012 13;3:128. Epub 2012 Jul 13.

Department of Biostatistics and Bioinformatics, Emory University Atlanta, GA, USA.

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http://dx.doi.org/10.3389/fgene.2012.00128DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3395795PMC
October 2012

Haplotype-based methods for detecting uncommon causal variants with common SNPs.

Genet Epidemiol 2012 Sep 15;36(6):572-82. Epub 2012 Jun 15.

Institute of Epidemiology and Preventive Medicine, College of Public Health, National Taiwan University, Taipei, Taiwan.

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http://dx.doi.org/10.1002/gepi.21650DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3513398PMC
September 2012

Detecting transcription of ribosomal protein pseudogenes in diverse human tissues from RNA-seq data.

BMC Genomics 2012 Aug 21;13:412. Epub 2012 Aug 21.

Department of Electrical Engineering and Computer Science, University of Central Florida, Orlando, FL 32816, USA.

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http://dx.doi.org/10.1186/1471-2164-13-412DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3478165PMC
August 2012

Statistical guidance for experimental design and data analysis of mutation detection in rare monogenic mendelian diseases by exome sequencing.

Authors:
Degui Zhi Rui Chen

PLoS One 2012 10;7(2):e31358. Epub 2012 Feb 10.

Section on Statistical Genetics, Department of Biostatistics, University of Alabama at Birmingham, Birmingham, Alabama, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0031358PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3277495PMC
July 2012

Vitronectin inhibits neutrophil apoptosis through activation of integrin-associated signaling pathways.

Am J Respir Cell Mol Biol 2012 Jun 26;46(6):790-6. Epub 2012 Jan 26.

Department of Medicine, University of Alabama at Birmingham Division of Pulmonary, Allergy & Critical Care Medicine, 901 19th Street South, Birmingham, AL 35294, USA.

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http://dx.doi.org/10.1165/rcmb.2011-0187OCDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3380283PMC
June 2012

Genotype calling from next-generation sequencing data using haplotype information of reads.

Bioinformatics 2012 Apr 27;28(7):938-46. Epub 2012 Jan 27.

Section on Statistical Genetics, Department of Biostatistics, University of Alabama at Birmingham, Birmingham, AL 35294, USA.

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http://dx.doi.org/10.1093/bioinformatics/bts047DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3493122PMC
April 2012

Hierarchical generalized linear models for multiple groups of rare and common variants: jointly estimating group and individual-variant effects.

PLoS Genet 2011 Dec 1;7(12):e1002382. Epub 2011 Dec 1.

Department of Biostatistics, Section on Statistical Genetics, University of Alabama at Birmingham, Birmingham, Alabama, USA.

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http://dx.plos.org/10.1371/journal.pgen.1002382
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http://dx.doi.org/10.1371/journal.pgen.1002382DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3228815PMC
December 2011

Statistical quantification of methylation levels by next-generation sequencing.

PLoS One 2011 15;6(6):e21034. Epub 2011 Jun 15.

Department of Biostatistics, University of Alabama at Birmingham, Birmingham, Alabama, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0021034PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3115964PMC
November 2011

Length bias correction for RNA-seq data in gene set analyses.

Bioinformatics 2011 Mar 19;27(5):662-9. Epub 2011 Jan 19.

Department of Biostatistics, University of Alabama at Birmingham, Birmingham, AL 35294, USA.

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http://dx.doi.org/10.1093/bioinformatics/btr005DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3042188PMC
March 2011

Bayesian analysis of rare variants in genetic association studies.

Genet Epidemiol 2011 Jan;35(1):57-69

Department of Biostatistics, Section on Statistical Genetics, University of Alabama at Birmingham, Birmingham, Alabama 35294-0022, USA.

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http://doi.wiley.com/10.1002/gepi.20554
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http://dx.doi.org/10.1002/gepi.20554DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3200544PMC
January 2011

Practical Consideration of Genotype Imputation: Sample Size, Window Size, Reference Choice, and Untyped Rate.

Stat Interface 2011 ;4(3):339-352

Department of Biostatistics, School of Public Health, University of Alabama at Birmingham, Birmingham, AL 35294.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3269888PMC
January 2011

Recombination-associated sequence homogenization of neighboring Alu elements: signature of nonallelic gene conversion.

Mol Biol Evol 2010 Oct 7;27(10):2300-11. Epub 2010 May 7.

Department of Medicine, Division of Hematology, Oncology, David Geffen School of Medicine, University of California, Los Angeles, USA.

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https://academic.oup.com/mbe/article-lookup/doi/10.1093/molb
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http://dx.doi.org/10.1093/molbev/msq116DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2950799PMC
October 2010

Alignment-free local structural search by writhe decomposition.

Bioinformatics 2010 May 5;26(9):1176-84. Epub 2010 Apr 5.

Department of Plant and Microbial Biology, UC Berkeley and Physical Biosciences Division, LBNL, Berkeley, CA 94720, USA.

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http://dx.doi.org/10.1093/bioinformatics/btq127DOI Listing
May 2010