A citation-based method for searching scientific literature

Omri Gottesman, Helena Kuivaniemi, Gerard Tromp, W Andrew Faucett, Rongling Li, Teri A Manolio, Saskia C Sanderson, Joseph Kannry, Randi Zinberg, Melissa A Basford, Murray Brilliant, David J Carey, Rex L Chisholm, Christopher G Chute, John J Connolly, David Crosslin, Joshua C Denny, Carlos J Gallego, Jonathan L Haines, Hakon Hakonarson, John Harley, Gail P Jarvik, Isaac Kohane, Iftikhar J Kullo, Eric B Larson, Catherine McCarty, Marylyn D Ritchie, Dan M Roden, Maureen E Smith, Erwin P Böttinger, Marc S Williams. Genet Med 2013
Times Cited: 393







List of co-cited articles
593 articles co-cited >1



Times Cited
  Times     Co-cited
Similarity


The eMERGE Network: a consortium of biorepositories linked to electronic medical records data for conducting genomic studies.
Catherine A McCarty, Rex L Chisholm, Christopher G Chute, Iftikhar J Kullo, Gail P Jarvik, Eric B Larson, Rongling Li, Daniel R Masys, Marylyn D Ritchie, Dan M Roden,[...]. BMC Med Genomics 2011
445
28

Systematic comparison of phenome-wide association study of electronic medical record data and genome-wide association study data.
Joshua C Denny, Lisa Bastarache, Marylyn D Ritchie, Robert J Carroll, Raquel Zink, Jonathan D Mosley, Julie R Field, Jill M Pulley, Andrea H Ramirez, Erica Bowton,[...]. Nat Biotechnol 2013
441
18

PheKB: a catalog and workflow for creating electronic phenotype algorithms for transportability.
Jacqueline C Kirby, Peter Speltz, Luke V Rasmussen, Melissa Basford, Omri Gottesman, Peggy L Peissig, Jennifer A Pacheco, Gerard Tromp, Jyotishman Pathak, David S Carrell,[...]. J Am Med Inform Assoc 2016
143
18

PheWAS: demonstrating the feasibility of a phenome-wide scan to discover gene-disease associations.
Joshua C Denny, Marylyn D Ritchie, Melissa A Basford, Jill M Pulley, Lisa Bastarache, Kristin Brown-Gentry, Deede Wang, Dan R Masys, Dan M Roden, Dana C Crawford. Bioinformatics 2010
536
16

Development of a large-scale de-identified DNA biobank to enable personalized medicine.
D M Roden, J M Pulley, M A Basford, G R Bernard, E W Clayton, J R Balser, D R Masys. Clin Pharmacol Ther 2008
537
13

Validation of electronic medical record-based phenotyping algorithms: results and lessons learned from the eMERGE network.
Katherine M Newton, Peggy L Peissig, Abel Ngo Kho, Suzette J Bielinski, Richard L Berg, Vidhu Choudhary, Melissa Basford, Christopher G Chute, Iftikhar J Kullo, Rongling Li,[...]. J Am Med Inform Assoc 2013
214
10

PLINK: a tool set for whole-genome association and population-based linkage analyses.
Shaun Purcell, Benjamin Neale, Kathe Todd-Brown, Lori Thomas, Manuel A R Ferreira, David Bender, Julian Maller, Pamela Sklar, Paul I W de Bakker, Mark J Daly,[...]. Am J Hum Genet 2007
10

The IGNITE network: a model for genomic medicine implementation and research.
Kristin Wiisanen Weitzel, Madeline Alexander, Barbara A Bernhardt, Neil Calman, David J Carey, Larisa H Cavallari, Julie R Field, Diane Hauser, Heather A Junkins, Phillip A Levin,[...]. BMC Med Genomics 2016
123
10

Second-generation PLINK: rising to the challenge of larger and richer datasets.
Christopher C Chang, Carson C Chow, Laurent Cam Tellier, Shashaank Vattikuti, Shaun M Purcell, James J Lee. Gigascience 2015
9

Next-generation phenotyping of electronic health records.
George Hripcsak, David J Albers. J Am Med Inform Assoc 2013
294
9

Advances in Electronic Phenotyping: From Rule-Based Definitions to Machine Learning Models.
Juan M Banda, Martin Seneviratne, Tina Hernandez-Boussard, Nigam H Shah. Annu Rev Biomed Data Sci 2018
46
19

The UK Biobank resource with deep phenotyping and genomic data.
Clare Bycroft, Colin Freeman, Desislava Petkova, Gavin Band, Lloyd T Elliott, Kevin Sharp, Allan Motyer, Damjan Vukcevic, Olivier Delaneau, Jared O'Connell,[...]. Nature 2018
9

UK biobank: an open access resource for identifying the causes of a wide range of complex diseases of middle and old age.
Cathie Sudlow, John Gallacher, Naomi Allen, Valerie Beral, Paul Burton, John Danesh, Paul Downey, Paul Elliott, Jane Green, Martin Landray,[...]. PLoS Med 2015
8

Genome-wide polygenic scores for common diseases identify individuals with risk equivalent to monogenic mutations.
Amit V Khera, Mark Chaffin, Krishna G Aragam, Mary E Haas, Carolina Roselli, Seung Hoan Choi, Pradeep Natarajan, Eric S Lander, Steven A Lubitz, Patrick T Ellinor,[...]. Nat Genet 2018
773
8

Evaluating phecodes, clinical classification software, and ICD-9-CM codes for phenome-wide association studies in the electronic health record.
Wei-Qi Wei, Lisa A Bastarache, Robert J Carroll, Joy E Marlo, Travis J Osterman, Eric R Gamazon, Nancy J Cox, Dan M Roden, Joshua C Denny. PLoS One 2017
74
10

Standards and guidelines for the interpretation of sequence variants: a joint consensus recommendation of the American College of Medical Genetics and Genomics and the Association for Molecular Pathology.
Sue Richards, Nazneen Aziz, Sherri Bale, David Bick, Soma Das, Julie Gastier-Foster, Wayne W Grody, Madhuri Hegde, Elaine Lyon, Elaine Spector,[...]. Genet Med 2015
8


Electronic health records-driven phenotyping: challenges, recent advances, and perspectives.
Jyotishman Pathak, Abel N Kho, Joshua C Denny. J Am Med Inform Assoc 2013
122
8

Next-generation genotype imputation service and methods.
Sayantan Das, Lukas Forer, Sebastian Schönherr, Carlo Sidore, Adam E Locke, Alan Kwong, Scott I Vrieze, Emily Y Chew, Shawn Levy, Matt McGue,[...]. Nat Genet 2016
931
7

The eMERGE genotype set of 83,717 subjects imputed to ~40 million variants genome wide and association with the herpes zoster medical record phenotype.
Ian B Stanaway, Taryn O Hall, Elisabeth A Rosenthal, Melody Palmer, Vivek Naranbhai, Rachel Knevel, Bahram Namjou-Khales, Robert J Carroll, Krzysztof Kiryluk, Adam S Gordon,[...]. Genet Epidemiol 2019
20
35

Variants near FOXE1 are associated with hypothyroidism and other thyroid conditions: using electronic medical records for genome- and phenome-wide studies.
Joshua C Denny, Dana C Crawford, Marylyn D Ritchie, Suzette J Bielinski, Melissa A Basford, Yuki Bradford, High Seng Chai, Lisa Bastarache, Rebecca Zuvich, Peggy Peissig,[...]. Am J Hum Genet 2011
180
7

Use of diverse electronic medical record systems to identify genetic risk for type 2 diabetes within a genome-wide association study.
Abel N Kho, M Geoffrey Hayes, Laura Rasmussen-Torvik, Jennifer A Pacheco, William K Thompson, Loren L Armstrong, Joshua C Denny, Peggy L Peissig, Aaron W Miller, Wei-Qi Wei,[...]. J Am Med Inform Assoc 2012
186
7

A new initiative on precision medicine.
Francis S Collins, Harold Varmus. N Engl J Med 2015
7

Implementing genomic medicine in the clinic: the future is here.
Teri A Manolio, Rex L Chisholm, Brad Ozenberger, Dan M Roden, Marc S Williams, Richard Wilson, David Bick, Erwin P Bottinger, Murray H Brilliant, Charis Eng,[...]. Genet Med 2013
335
7

PG4KDS: a model for the clinical implementation of pre-emptive pharmacogenetics.
James M Hoffman, Cyrine E Haidar, Mark R Wilkinson, Kristine R Crews, Donald K Baker, Nancy M Kornegay, Wenjian Yang, Ching-Hon Pui, Ulrike M Reiss, Aditya H Gaur,[...]. Am J Med Genet C Semin Med Genet 2014
149
7


Observational Health Data Sciences and Informatics (OHDSI): Opportunities for Observational Researchers.
George Hripcsak, Jon D Duke, Nigam H Shah, Christian G Reich, Vojtech Huser, Martijn J Schuemie, Marc A Suchard, Rae Woong Park, Ian Chi Kei Wong, Peter R Rijnbeek,[...]. Stud Health Technol Inform 2015
347
7

The "All of Us" Research Program.
Joshua C Denny, Joni L Rutter, David B Goldstein, Anthony Philippakis, Jordan W Smoller, Gwynne Jenkins, Eric Dishman. N Engl J Med 2019
178
7

Ethical Considerations Related to Return of Results from Genomic Medicine Projects: The eMERGE Network (Phase III) Experience.
Robyn Fossey, David Kochan, Erin Winkler, Joel E Pacyna, Janet Olson, Stephen Thibodeau, John J Connolly, Margaret Harr, Meckenzie A Behr, Cynthia A Prows,[...]. J Pers Med 2018
26
23

A reference panel of 64,976 haplotypes for genotype imputation.
Shane McCarthy, Sayantan Das, Warren Kretzschmar, Olivier Delaneau, Andrew R Wood, Alexander Teumer, Hyun Min Kang, Christian Fuchsberger, Petr Danecek, Kevin Sharp,[...]. Nat Genet 2016
6

Pitfalls of merging GWAS data: lessons learned in the eMERGE network and quality control procedures to maintain high data quality.
Rebecca L Zuvich, Loren L Armstrong, Suzette J Bielinski, Yuki Bradford, Christopher S Carlson, Dana C Crawford, Andrew T Crenshaw, Mariza de Andrade, Kimberly F Doheny, Jonathan L Haines,[...]. Genet Epidemiol 2011
51
11

Million Veteran Program: A mega-biobank to study genetic influences on health and disease.
John Michael Gaziano, John Concato, Mary Brophy, Louis Fiore, Saiju Pyarajan, James Breeling, Stacey Whitbourne, Jennifer Deen, Colleen Shannon, Donald Humphries,[...]. J Clin Epidemiol 2016
275
6

Finding the missing heritability of complex diseases.
Teri A Manolio, Francis S Collins, Nancy J Cox, David B Goldstein, Lucia A Hindorff, David J Hunter, Mark I McCarthy, Erin M Ramos, Lon R Cardon, Aravinda Chakravarti,[...]. Nature 2009
6

Electronic medical records for genetic research: results of the eMERGE consortium.
Abel N Kho, Jennifer A Pacheco, Peggy L Peissig, Luke Rasmussen, Katherine M Newton, Noah Weston, Paul K Crane, Jyotishman Pathak, Christopher G Chute, Suzette J Bielinski,[...]. Sci Transl Med 2011
225
6

Phenome-wide association study (PheWAS) for detection of pleiotropy within the Population Architecture using Genomics and Epidemiology (PAGE) Network.
Sarah A Pendergrass, Kristin Brown-Gentry, Scott Dudek, Alex Frase, Eric S Torstenson, Robert Goodloe, Jose Luis Ambite, Christy L Avery, Steve Buyske, Petra Bůžková,[...]. PLoS Genet 2013
109
6

Pharmacogenomics in the clinic.
Mary V Relling, William E Evans. Nature 2015
355
6

Design and anticipated outcomes of the eMERGE-PGx project: a multicenter pilot for preemptive pharmacogenomics in electronic health record systems.
L J Rasmussen-Torvik, S C Stallings, A S Gordon, B Almoguera, M A Basford, S J Bielinski, A Brautbar, M H Brilliant, D S Carrell, J J Connolly,[...]. Clin Pharmacol Ther 2014
144
6

Using Electronic Health Records for Population Health Research: A Review of Methods and Applications.
Joan A Casey, Brian S Schwartz, Walter F Stewart, Nancy E Adler. Annu Rev Public Health 2016
164
6

A review of approaches to identifying patient phenotype cohorts using electronic health records.
Chaitanya Shivade, Preethi Raghavan, Eric Fosler-Lussier, Peter J Embi, Noemie Elhadad, Stephen B Johnson, Albert M Lai. J Am Med Inform Assoc 2014
208
6

R PheWAS: data analysis and plotting tools for phenome-wide association studies in the R environment.
Robert J Carroll, Lisa Bastarache, Joshua C Denny. Bioinformatics 2014
113
6


Development of phenotype algorithms using electronic medical records and incorporating natural language processing.
Katherine P Liao, Tianxi Cai, Guergana K Savova, Shawn N Murphy, Elizabeth W Karlson, Ashwin N Ananthakrishnan, Vivian S Gainer, Stanley Y Shaw, Zongqi Xia, Peter Szolovits,[...]. BMJ 2015
121
6

Clinical use of current polygenic risk scores may exacerbate health disparities.
Alicia R Martin, Masahiro Kanai, Yoichiro Kamatani, Yukinori Okada, Benjamin M Neale, Mark J Daly. Nat Genet 2019
418
6

Mapping ICD-10 and ICD-10-CM Codes to Phecodes: Workflow Development and Initial Evaluation.
Patrick Wu, Aliya Gifford, Xiangrui Meng, Xue Li, Harry Campbell, Tim Varley, Juan Zhao, Robert Carroll, Lisa Bastarache, Joshua C Denny,[...]. JMIR Med Inform 2019
54
11

10 Years of GWAS Discovery: Biology, Function, and Translation.
Peter M Visscher, Naomi R Wray, Qian Zhang, Pamela Sklar, Mark I McCarthy, Matthew A Brown, Jian Yang. Am J Hum Genet 2017
6

eMERGE Phenome-Wide Association Study (PheWAS) identifies clinical associations and pleiotropy for stop-gain variants.
Anurag Verma, Shefali S Verma, Sarah A Pendergrass, Dana C Crawford, David R Crosslin, Helena Kuivaniemi, William S Bush, Yuki Bradford, Iftikhar Kullo, Suzette J Bielinski,[...]. BMC Med Genomics 2016
20
25

Imputation and quality control steps for combining multiple genome-wide datasets.
Shefali S Verma, Mariza de Andrade, Gerard Tromp, Helena Kuivaniemi, Elizabeth Pugh, Bahram Namjou-Khales, Shubhabrata Mukherjee, Gail P Jarvik, Leah C Kottyan, Amber Burt,[...]. Front Genet 2014
76
6

Modeling Linkage Disequilibrium Increases Accuracy of Polygenic Risk Scores.
Bjarni J Vilhjálmsson, Jian Yang, Hilary K Finucane, Alexander Gusev, Sara Lindström, Stephan Ripke, Giulio Genovese, Po-Ru Loh, Gaurav Bhatia, Ron Do,[...]. Am J Hum Genet 2015
430
5

The CLIPMERGE PGx Program: clinical implementation of personalized medicine through electronic health records and genomics-pharmacogenomics.
O Gottesman, S A Scott, S B Ellis, C L Overby, A Ludtke, J-S Hulot, J Hall, K Chatani, K Myers, J L Kannry,[...]. Clin Pharmacol Ther 2013
95
5

Preemptive clinical pharmacogenetics implementation: current programs in five US medical centers.
Henry M Dunnenberger, Kristine R Crews, James M Hoffman, Kelly E Caudle, Ulrich Broeckel, Scott C Howard, Robert J Hunkler, Teri E Klein, William E Evans, Mary V Relling. Annu Rev Pharmacol Toxicol 2015
256
5


Co-cited is the co-citation frequency, indicating how many articles cite the article together with the query article. Similarity is the co-citation as percentage of the times cited of the query article or the article in the search results, whichever is the lowest. These numbers are calculated for the last 100 citations when articles are cited more than 100 times.