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ORCIDNancy J. Cox
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Journal Articles
- 2023
[j18]Nick Strayer
, Siwei Zhang, Lydia Yao, Tess Vessels, Cosmin Adrian Bejan, Ryan S. Hsi, Jana K. Shirey-Rice, Justin M. Balko, Douglas B. Johnson, Elizabeth J. Phillips, Alex Bick, Todd L. Edwards, Digna R. Velez Edwards, Jill M. Pulley, Quinn Stanton Wells, Michael R. Savona, Nancy J. Cox, Dan M. Roden, Douglas M. Ruderfer, Yaomin Xu:
Interactive network-based clustering and investigation of multimorbidity association matrices with associationSubgraphs. Bioinform. 39(1) (2023)- [j17]Hufeng Zhou, Theodore Arapoglou, Xihao Li, Zilin Li, Xiuwen Zheng, Jill Moore, Abhijith Asok, Sushant Kumar, Elizabeth E. Blue, Steven Buyske, Nancy J. Cox, Adam Felsenfeld, Mark Gerstein, Eimear Kenny, Bingshan Li, Tara Cox Matise, Anthony Philippakis, Heidi L. Rehm, Heidi J. Sofia, Grace Snyder, Zhiping Weng, Benjamin M. Neale, Shamil R. Sunyaev, Xihong Lin:
FAVOR: functional annotation of variants online resource and annotator for variation across the human genome. Nucleic Acids Res. 51(D1): 1300-1311 (2023) - [j16]Gengjie Jia, Yu Li, Xue Zhong, Kanix Wang, Milton Pividori, Rabab Alomairy, Aniello Esposito, Hatem Ltaief, Chikashi Terao, Masato Akiyama, Koichi Matsuda, David E. Keyes, Hae Kyung Im, Takashi Gojobori, Yoichiro Kamatani, Michiaki Kubo, Nancy J. Cox, James A. Evans, Xin Gao, Andrey Rzhetsky:
The high-dimensional space of human diseases built from diagnosis records and mapped to genetic loci. Nat. Comput. Sci. 3(5): 403-417 (2023) - [j15]Gengjie Jia, Yu Li, Xue Zhong, Kanix Wang, Milton Pividori, Rabab Alomairy, Aniello Esposito, Hatem Ltaief, Chikashi Terao, Masato Akiyama, Koichi Matsuda, David E. Keyes, Hae Kyung Im, Takashi Gojobori, Yoichiro Kamatani, Michiaki Kubo, Nancy J. Cox, James A. Evans, Xin Gao, Andrey Rzhetsky:
Author Correction: The high-dimensional space of human diseases built from diagnosis records and mapped to genetic loci. Nat. Comput. Sci. 3(7): 658 (2023) - 2021
- [j14]Patrick Wu, Scott D. Nelson, Juan Zhao, Cosby A. Stone Jr., QiPing Feng, Qingxia Chen, Eric A. Larson, Bingshan Li, Nancy J. Cox, C. Michael Stein, Elizabeth Phillips, Dan M. Roden, Joshua C. Denny, Wei-Qi Wei:
DDIWAS: High-throughput electronic health record-based screening of drug-drug interactions. J. Am. Medical Informatics Assoc. 28(7): 1421-1430 (2021) - [j13]Neil S. Zheng, Jeremy L. Warner, Travis J. Osterman, Quinn Stanton Wells, Xiao-Ou Shu, Stephen A. Deppen, Seth J. Karp, Shon Dwyer, QiPing Feng, Nancy J. Cox, Josh F. Peterson, C. Michael Stein, Dan M. Roden, Kevin B. Johnson, Wei-Qi Wei:
A retrospective approach to evaluating potential adverse outcomes associated with delay of procedures for cardiovascular and cancer-related diagnoses in the context of COVID-19. J. Biomed. Informatics 113: 103657 (2021) - 2020
- [j12]Neil S. Zheng, QiPing Feng, Vern Eric Kerchberger, Juan Zhao, Todd L. Edwards, Nancy J. Cox, C. Michael Stein, Dan M. Roden, Joshua C. Denny, Wei-Qi Wei:
PheMap: a multi-resource knowledge base for high-throughput phenotyping within electronic health records. J. Am. Medical Informatics Assoc. 27(11): 1675-1687 (2020) - 2019
- [j11]Hai Yang, Rui Chen, Quan Wang, Qiang Wei, Ying Ji, Guangze Zheng, Xue Zhong, Nancy J. Cox, Bingshan Li:
De novo pattern discovery enables robust assessment of functional consequences of non-coding variants. Bioinform. 35(9): 1453-1460 (2019) - 2017
- [j10]Xin Li, Yungil Kim, Emily K. Tsang, Joe R. Davis, Farhan N. Damani, Colby Chiang, Gaelen T. Hess, Zachary Zappala, Benjamin J. Strober, Alexandra J. Scott, Amy Li, Andrea Ganna, Michael C. Bassik, Jason D. Merker, François Aguet, Kristin G. Ardlie, Beryl B. Cummings, Ellen T. Gelfand, Gad Getz, Kane Hadley, Robert E. Handsaker, Katherine H. Huang, Seva Kashin, Konrad J. Karczewski, Monkol Lek, Xiao Li, Daniel G. MacArthur, Jared L. Nedzel, Duyen T. Nguyen, Michael S. Noble, Ayellet V. Segrè, Casandra A. Trowbridge, Taru Tukiainen, Nathan S. Abell, Brunilda Balliu, Ruth Barshir, Omer Basha, Alexis J. Battle, Gireesh K. Bogu, Andrew Brown, Christopher D. Brown, Stephane E. Castel, Lin S. Chen, Donald F. Conrad, Nancy J. Cox, Olivier Delaneau, Emmanouil T. Dermitzakis, Barbara E. Engelhardt, Eleazar Eskin, Pedro G. Ferreira, Laure Frésard, Eric R. Gamazon, Diego Garrido-Martín, Ariel D. H. Gewirtz, Genna Gliner, Michael J. Gloudemans, Roderic Guigó, Ira M. Hall, Buhm Han, Yuan He, Farhad Hormozdiari, Cedric Howald, Hae Kyung Im, Brian Jo, Eun Yong Kang, Sarah Kim-Hellmuth, Tuuli Lappalainen, Gen Li, Boxiang Liu, Serghei Mangul, Mark I. McCarthy, Ian C. McDowell, Pejman Mohammadi, Jean Monlong, Stephen B. Montgomery:
The impact of rare variation on gene expression across tissues. Nat. 550(7675): 239-243 (2017) - 2016
- [j9]Sara Hillenmeyer, Lea K. Davis, Eric R. Gamazon, Edwin H. Cook Jr., Nancy J. Cox, Russ B. Altman:
STAMS: STRING-assisted module search for genome wide association studies and application to autism. Bioinform. 32(24): 3815-3822 (2016) - [j8]Paul Geeleher, Eric R. Gamazon, Cathal Seoighe, Nancy J. Cox, Rong Stephanie Huang:
Consistency in large pharmacogenomic studies. Nat. 540(7631): E1-E2 (2016) - 2015
- [j7]Wei Zhang, Eric R. Gamazon, Xu Zhang, Anuar Konkashbaev, Cong Liu, Keely L. Szilágyi, M. Eileen Dolan, Nancy J. Cox:
SCAN database: facilitating integrative analyses of cytosine modification and expression QTL. Database J. Biol. Databases Curation 2015 (2015) - [j6]Vassily Trubetskoy, Alex A. Rodriguez, Uptal J. Dave, Nicholas Campbell, Emily L. Crawford, Edwin H. Cook Jr., James S. Sutcliffe, Ian T. Foster, Ravi K. Madduri, Nancy J. Cox, Lea K. Davis:
Consensus Genotyper for Exome Sequencing (CGES): improving the quality of exome variant genotypes. Bioinform. 31(2): 187-193 (2015) - [j5]Rui Chen, Qiang Wei, Xiaowei Zhan, Xue Zhong, James S. Sutcliffe, Nancy J. Cox, Edwin H. Cook Jr., Chun Li, Wei Chen, Bingshan Li:
A haplotype-based framework for group-wise transmission/disequilibrium tests for rare variant association analysis. Bioinform. 31(9): 1452-1459 (2015) - [j4]Trevor Bedford, Steven Riley, Ian G. Barr, Shobha Broor, Mandeep Chadha, Nancy J. Cox, Rodney S. Daniels, C. Palani Gunasekaran, Aeron C. Hurt, Anne Kelso, Alexander Klimov, Nicola S. Lewis, Xiyan Li, John W. McCauley, Takato Odagiri, Varsha Potdar, Andrew Rambaut, Yuelong Shu, Eugene Skepner, Derek J. Smith, Marc A. Suchard, Masato Tashiro, Dayan Wang, Xiyan Xu, Philippe Lemey, Colin A. Russell:
Global circulation patterns of seasonal influenza viruses vary with antigenic drift. Nat. 523(7559): 217-220 (2015) - 2013
- [j3]Younghee Lee, Haiquan Li, Jianrong Li, Ellen Rebman, Ikbel Achour, Kelly Regan, Eric R. Gamazon, James L. Chen, Xinan Holly Yang, Nancy J. Cox, Yves A. Lussier:
Research and applications: Network models of genome-wide association studies uncover the topological centrality of protein interactions in complex diseases. J. Am. Medical Informatics Assoc. 20(4): 619-629 (2013) - 2010
- [j2]Eric R. Gamazon, Wei Zhang, Anuar Konkashbaev, Shiwei Duan, Emily O. Kistner, Dan L. Nicolae, M. Eileen Dolan, Nancy J. Cox:
SCAN: SNP and copy number annotation. Bioinform. 26(2): 259-262 (2010) - 2006
- [j1]Dan L. Nicolae, Xiaolin Wu, Kazuaki Miyake, Nancy J. Cox:
GEL: a novel genotype calling algorithm using empirical likelihood. Bioinform. 22(16): 1942-1947 (2006)
Conference and Workshop Papers
- 2021
- [c2]Annika B. Faucon, Megan Shuey, Lea K. Davis, Nancy J. Cox:
Implications of Clinical Bias When Building Electronic Algorithms for Medical Record Phenotyping: Lessons from Type 2 Diabetes Mellitus. AMIA 2021 - 2012
- [c1]Marylyn D. Ritchie, Nancy J. Cox, Cheng Cheng, Scott Weiss, Teri E. Klein, Russ B. Altman:
Systems Pharmacogenomics-Bridging the Gap. Pacific Symposium on Biocomputing 2012: 442
Coauthor Index
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