Indra Neil Sarkar

Publication Activity (10 Years)

Years Active: 2001-2022
Publications (10 Years): 37

Top Topics

Sequential Patterns

Health Informatics

Medical Literature

Top Venues

J. Am. Medical Informatics Assoc.

J. Biomed. Informatics

Publications

Emily R. Pfaff, Andrew T. Girvin, Davera Gabriel, Kristin Kostka, Michele Morris, Matvey B. Palchuk, Harold P. Lehmann, Benjamin R. C. Amor, Mark Bissell, Katie R. Bradwell, Sigfried Gold, Stephanie S. Hong, Johanna Loomba, Amin Manna, Julie A. McMurry, Emily Niehaus, Nabeel Qureshi, Anita Walden, Xiaohan Tanner Zhang, Richard L. Zhu, Richard A. Moffitt, Christopher G. Chute, William G. Adams, Shaymaa Al-Shukri, Alfred Anzalone, Ahmad Baghal, Tellen D. Bennett, Elmer V. Bernstam, Mark M. Bissell, Brian Bush, Thomas R. Campion Jr., Victor Castro, Jack Chang, Deepa D. Chaudhari, Wenjin Chen, San Chu, James J. Cimino, Keith A. Crandall, Mark Crooks, Sara J. Deakyne Davies, John Dipalazzo, David Dorr, Dan Eckrich, Sarah E. Eltinge, Daniel G. Fort, George Golovko, Snehil Gupta, Melissa A. Haendel, Janos G. Hajagos, David A. Hanauer, Brett M. Harnett, Ronald Horswell, Nancy Huang, Steven G. Johnson, Michael Kahn, Kamil Khanipov, Curtis Kieler, Katherine Ruiz De Luzuriaga, Sarah Maidlow, Ashley Martinez, Jomol Mathew, James C. McClay, Gabriel McMahan, Brian Melancon, Stéphane M. Meystre, Lucio Miele, Hiroki Morizono, Ray Pablo, Lav P. Patel, Jimmy Phuong, Daniel J. Popham, Claudia P. Pulgarin, Carlos Santos, Indra Neil Sarkar, Nancy Sazo, Soko Setoguchi, Selvin Soby, Sirisha Surampalli, Christine Suver, Uma Maheswara Reddy Vangala, Shyam Visweswaran, James von Oehsen, Kellie M. Walters, Laura Wiley, David A. Williams, Adrian H. Zai
Synergies between centralized and federated approaches to data quality: a report from the national COVID cohort collaborative. J. Am. Medical Informatics Assoc. 29 (4) (2022)
Katherine A. Brown, Indra Neil Sarkar, Karen Crowley, Dilum P. Aluthge, Elizabeth S. Chen
An Unsupervised Cluster Analysis of Post-COVID-19 Mental Health Outcomes and Associated Comorbidities. AMIA (2022)
Vivek Ramanan, Shanti Mechery, Indra Neil Sarkar
GenBank as a source to monitor and analyze Host-Microbiome data. Bioinform. 38 (17) (2022)
Aaron S. Eisman, Katherine A. Brown, Elizabeth S. Chen, Indra Neil Sarkar
Clinical Note Section Detection Using a Hidden Markov Model of Unified Medical Language System Semantic Types. AMIA (2021)
Jessica D. Tenenbaum, Theresa Cullen, Indra Neil Sarkar, Philip R. O. Payne, Brian E. Dixon
Public Health Informatics in a Global Pandemic: In the COVID response trenches. AMIA (2021)
Sotiris Karagounis, Indra Neil Sarkar, Elizabeth S. Chen
Coding Free-Text Chief Complaints from a Health Information Exchange: A Preliminary Study. AMIA (2020)
Katherine A. Brown, Indra Neil Sarkar, Elizabeth S. Chen
Mental Health Comorbidity Analysis in Pediatric Patients with Autism Spectrum Disorder Using Rhode Island Medical Claims Data. AMIA (2020)
Jiaying Lai, Indra Neil Sarkar
A Phylogenetic Approach to Analyze the Conservativeness of BRCA1 and BRCA2 Mutations. AMIA (2020)
Aaron S. Eisman, Nishant R. Shah, Carsten Eickhoff, George Zerveas, Elizabeth S. Chen, Wen-Chih Wu, Indra Neil Sarkar
Extracting Angina Symptoms from Clinical Notes Using Pre-Trained Transformer Architectures. AMIA (2020)
Aaron S. Eisman, Nishant R. Shah, Carsten Eickhoff, George Zerveas, Elizabeth S. Chen, Wen-Chih Wu, Indra Neil Sarkar
Extracting Angina Symptoms from Clinical Notes Using Pre-Trained Transformer Architectures. CoRR (2020)
Isaac E. Kim Jr., Indra Neil Sarkar
Racial Representation Disparity of Population-Level Genomic Sequencing Efforts. MedInfo (2019)
Maria I. Restrepo, Mary C. McGrath, Indra Neil Sarkar, Elizabeth S. Chen
Web-Based Visualization of MeSH-Based PubMed/MEDLINE Statistics. MedInfo (2019)
Jessica Schuster, Michael Superdock, Anthony Agudelo, Paul Stey, James Padbury, Indra Neil Sarkar, Alper Uzun
Machine learning approach to literature mining for the genetics of complex diseases. Database J. Biol. Databases Curation 2019 (2019)
Vivekanand Sharma, Maria Isabel Restrepo, Indra Neil Sarkar
Solr-Plant: efficient extraction of plant names from text. BMC Bioinform. 20 (1) (2019)
Indra Neil Sarkar, Wayne Law, Michael J. Balick
Identifying Phytochemicals from Biomedical Literature Utilizing Semantic Knowledge Sources. MedInfo (2019)
Jonathan T. Vu, Dilum P. Aluthge, Ishan Sinha, Elizabeth S. Chen, Indra Neil Sarkar
Predicting the Costs of Medical Liability Using Artificial Neural Networks. AMIA (2018)
Sukrit S. Jain, Indra Neil Sarkar, Paul Stey, Rajsavi S. Anand, Dustin R. Biron, Elizabeth S. Chen
Using Demographic Factors and Comorbidities to Develop a Predictive Model for ICU Mortality in Patients with Acute Exacerbation COPD. AMIA (2018)
Justin E. Kleiner, Michael Cohen, Dilum P. Aluthge, Ishan Sinha, Indra Neil Sarkar, Elizabeth S. Chen, Dario R. Roque
Predicting Thromboembolism after Vaginal and Laparoscopic Hysterectomy in Gynecologic Oncology Patients using Machine Learning. AMIA (2018)
Vivekanand Sharma, Indra Neil Sarkar
Identifying natural health product and dietary supplement information within adverse event reporting systems. PSB (2018)
Aaron S. Eisman, Rory B. Weiner, Elizabeth S. Chen, Paul Stey, Rishi K. Wadhera, Aaron P. Kithcart, Indra Neil Sarkar
An Automated System for Categorizing Transthoracic Echocardiography Indications According to the Echocardiography Appropriate Use Criteria. AMIA (2017)
Vivekanand Sharma, Wayne Law, Michael J. Balick, Indra Neil Sarkar
Harnessing Biomedical Natural Language Processing Tools to Identify Medicinal Plant Knowledge from Historical Texts. AMIA (2017)
Margaret M. Thorsen, Indra Neil Sarkar, Elizabeth S. Chen, Elaine Fontaine, Gregory Walker, Megan L. Ranney
Assessing Data Quality within Health Information Exchanges: A Case Study for Supporting Emergency Department Research. AMIA (2017)
Ashley S. Lee, Indra Neil Sarkar, Genevieve B. Melton, Yuanqing Liu, Vivekanand Sharma, Elizabeth S. Chen
Comorbidity Miner: An Open Source Interactive Tool for Mining Disparate Electronic Health Data Sources. AMIA (2017)
Julia Adler-Milstein, Peter J. Embí, Blackford Middleton, Indra Neil Sarkar, Jeff Smith
Crossing the health IT chasm: considerations and policy recommendations to overcome current challenges and enable value-based care. J. Am. Medical Informatics Assoc. 24 (5) (2017)
Laura K. Wiley, Peter Tarczy-Hornoch, Joshua C. Denny, Robert R. Freimuth, Casey L. Overby, Nigam Shah, Ross D. Martin, Indra Neil Sarkar
Harnessing next-generation informatics for personalizing medicine: a report from AMIA's 2014 Health Policy Invitational Meeting. J. Am. Medical Informatics Assoc. 23 (2) (2016)
Elizabeth S. Chen, Genevieve B. Melton, Mark Howison, Erik Knoll, Ashley S. Lee, Indra Neil Sarkar
Mining and Visualizing Sequential Patterns in the Electronic Health Record: A Case Study for Asthma With and Without Mental Disorders. AMIA (2016)
Kaija Saranto, Elizabeth M. Borycki, Indra Neil Sarkar
How to Prepare a Nursing Informatics Conference Submission. Nursing Informatics (2016)
David Boone, John T. Finnell, Kim M. Unertl, Indra Neil Sarkar
New Pathways Into Biomedical Informatics: Educational Outreach Programs for High School Students. AMIA (2016)
Saif S. Khairat, Glynda Doyle, Indra Neil Sarkar, Jeff Williamson
Report from the ED-WG Frontline: Biomedical and Health Informatics Baccalaureate (BHIB) Course. AMIA (2016)
Kim M. Unertl, John T. Finnell, Indra Neil Sarkar
Developing new pathways into the biomedical informatics field: the AMIA High School Scholars Program. J. Am. Medical Informatics Assoc. 23 (4) (2016)
Yan Wang, Elizabeth S. Chen, Ilo Leppik, Serguei V. S. Pakhomov, Indra Neil Sarkar, Genevieve B. Melton
Identifying Family History and Substance Use Associations for Adult Epilepsy from the Electronic Health Record. CRI (2016)
Elizabeth W. Carter, Indra Neil Sarkar, Genevieve B. Melton, Elizabeth S. Chen
Representation of Drug Use in Biomedical Standards, Clinical Text, and Research Measures. AMIA (2015)
Darlene Peterson, Timothy E. Burdick, Joshua Cohen, Indra Neil Sarkar, Julie Lin, Dennis Plante, Elizabeth S. Chen
Surveying Problem List Perceptions and Use in the Electronic Health Record. AMIA (2015)
Joseph D. Romano, William G. Tharp, Indra Neil Sarkar
Adapting simultaneous analysis phylogenomic techniques to study complex disease gene relationships. J. Biomed. Informatics 54 (2015)
Elizabeth S. Chen, Genevieve B. Melton, Richard Wasserman, Paul Rosenau, Diantha B. Howard, Indra Neil Sarkar
Mining and Visualizing Family History Associations in the Electronic Health Record: A Case Study for Pediatric Asthma. AMIA (2015)
Elizabeth S. Chen, Elizabeth W. Carter, Tamara Winden, Indra Neil Sarkar, Yan Wang, Genevieve B. Melton
Multi-source development of an integrated model for family health history. J. Am. Medical Informatics Assoc. 22 (e1) (2015)
Yan Wang, Elizabeth S. Chen, Serguei V. S. Pakhomov, Elliot G. Arsoniadis, Elizabeth W. Carter, Elizabeth Lindemann, Indra Neil Sarkar, Genevieve B. Melton
Automated Extraction of Substance Use Information from Clinical Texts. AMIA (2015)
Yucan Zhang, Indra Neil Sarkar, Elizabeth S. Chen
PubMedMiner: Mining and Visualizing MeSH-based Associations in PubMed. AMIA (2014)
Elizabeth S. Chen, Elizabeth W. Carter, Indra Neil Sarkar, Tamara Winden, Genevieve B. Melton
Examining the Use, Contents, and Quality of Free-Text Tobacco Use Documentation in the Electronic Health Record. AMIA (2014)
Adam Sateriale, Kovi Bessoff, Indra Neil Sarkar, Christopher D. Huston
Drug repurposing: mining protozoan proteomes for targets of known bioactive compounds. J. Am. Medical Informatics Assoc. 21 (2) (2014)
Indra Neil Sarkar, Elizabeth S. Chen, Paul Rosenau, Matthew B. Storer, Beth Anderson, Jeffrey D. Horbar
Using Arden Syntax to Identify Registry-Eligible Very Low Birth Weight Neonates from the Electronic Health Record. AMIA (2014)
Ahmed Ragab Nabhan, Indra Neil Sarkar
Structural network analysis of biological networks for assessment of potential disease model organisms. J. Biomed. Informatics 47 (2014)
Indra Neil Sarkar, Elizabeth S. Chen, Steven J. Kappel
Resolving and Standardizing Providers within Administrative Data. AMIA (2013)
Vivekanand Sharma, Indra Neil Sarkar
Leveraging concept-based approaches to identify potential phyto-therapies. J. Biomed. Informatics 46 (4) (2013)
Vivekanand Sharma, Indra Neil Sarkar
Research and applications: Leveraging biodiversity knowledge for potential phyto-therapeutic applications. J. Am. Medical Informatics Assoc. 20 (4) (2013)
Elizabeth S. Chen, Elizabeth W. Carter, Tamara Winden, Indra Neil Sarkar, Genevieve B. Melton
Development of a Comprehensive Family Health History Information Model. AMIA (2013)
Philip R. O. Payne, Taylor R. Pressler, Indra Neil Sarkar, Yves A. Lussier
People, organizational, and leadership factors impacting informatics support for clinical and translational research. BMC Medical Informatics Decis. Mak. 13 (2013)
Vivekanand Sharma, Indra Neil Sarkar
Bioinformatics opportunities for identification and study of medicinal plants. Briefings Bioinform. 14 (2) (2013)
Indra Neil Sarkar, Elizabeth S. Chen
Determining Compound Comorbidities for Heart Failure from Hospital Discharge Data. AMIA (2012)
Genevieve B. Melton, Sharad Manaktala, Indra Neil Sarkar, Elizabeth S. Chen
Social and Behavioral History Information in Public Health Datasets. AMIA (2012)
Ahmed Ragab Nabhan, Indra Neil Sarkar
Mining Disease Fingerprints From Within Genetic Pathways. AMIA (2012)
Ahmed Ragab Nabhan, Indra Neil Sarkar
The impact of taxon sampling on phylogenetic inference: a review of two decades of controversy. Briefings Bioinform. 13 (1) (2012)
Elizabeth S. Chen, Genevieve B. Melton, Indra Neil Sarkar
Translating standards into practice: Experiences and lessons learned in biomedicine and health care. J. Biomed. Informatics 45 (4) (2012)
Indra Neil Sarkar
A vector space model approach to identify genetically related diseases. J. Am. Medical Informatics Assoc. 19 (2) (2012)
Elizabeth S. Chen, Genevieve B. Melton, Timothy E. Burdick, Paul Rosenau, Indra Neil Sarkar
Characterizing the Use and Contents of Free-Text Family History Comments in the Electronic Health Record. AMIA (2012)
Indra Neil Sarkar, Philip R. O. Payne
The joint summits on translational science: Crossing the translational chasm. J. Biomed. Informatics 44 (Supplement-1) (2011)
Indra Neil Sarkar, Atul J. Butte, Yves A. Lussier, Peter Tarczy-Hornoch, Lucila Ohno-Machado
Translational bioinformatics: linking knowledge across biological and clinical realms. J. Am. Medical Informatics Assoc. 18 (4) (2011)
Matthew Scotch, Indra Neil Sarkar, Changjiang Mei, Robert Leaman, Kei-Hoi Cheung, Pierina Ortiz, Ashutosh Singraur, Graciela Gonzalez
Enhancing phylogeography by improving geographical information from GenBank. J. Biomed. Informatics 44 (Supplement-1) (2011)
Indra Neil Sarkar
Selected Papers from the 2011 Summit on Translational Bioinformatics. J. Biomed. Informatics 44 (Supplement-1) (2011)
Genevieve B. Melton, Nandhini Raman, Elizabeth S. Chen, Indra Neil Sarkar, Serguei V. S. Pakhomov, Robert D. Madoff
Evaluation of family history information within clinical documents and adequacy of HL7 clinical statement and clinical genomics family history models for its representation: a case report. J. Am. Medical Informatics Assoc. 17 (3) (2010)
Indra Neil Sarkar
Editorial: Bioinformatics education in the 21st century. Briefings Bioinform. 11 (6) (2010)
Elizabeth S. Chen, Indra Neil Sarkar
MeSHing molecular sequences and clinical trials: A feasibility study. J. Biomed. Informatics 43 (3) (2010)
Indra Neil Sarkar, Ryan Schenk, Holly Miller, Catherine N. Norton
LigerCat: Using "MeSH Clouds" from Journal, Article, or Gene Citations to Facilitate the Identification of Relevant Biomedical Literature. AMIA (2009)
Yves A. Lussier, Indra Neil Sarkar
Selected proceedings of the 2009 Summit on Translational Bioinformatics. BMC Bioinform. 10 (S-9) (2009)
Atul J. Butte, Indra Neil Sarkar, Marco Ramoni, Yves A. Lussier, Olga G. Troyanskaya
Selected proceedings of the First Summit on Translational Bioinformatics 2008. BMC Bioinform. 10 (S-2) (2009)
Indra Neil Sarkar
Biodiversity Informatics: the emergence of a field. BMC Bioinform. 10 (S-14) (2009)
Indra Neil Sarkar, Mary G. Egan, Gloria M. Coruzzi, Ernest K. Lee, Robert DeSalle
Automated simultaneous analysis phylogenetics (ASAP): an enabling tool for phlyogenomics. BMC Bioinform. 9 (2008)
Patrick R. Leary, David P. Remsen, Catherine N. Norton, David J. Patterson, Indra Neil Sarkar
uBioRSS: Tracking taxonomic literature using RSS. Bioinform. 23 (11) (2007)
Indra Neil Sarkar
Session Introduction. Pacific Symposium on Biocomputing (2007)
Indra Neil Sarkar
Biodiversity informatics: organizing and linking information across the spectrum of life. Briefings Bioinform. 8 (5) (2007)
Chif N. Umejei, Indra Neil Sarkar
zMedline: A Medline-Based Content Management System. AMIA (2006)
Indra Neil Sarkar, Abha Agrawal
Literature Based Discovery of Gene Clusters Using Phylogenetic Methods. AMIA (2006)
Indra Neil Sarkar
Phylogenetics in the modern era. J. Biomed. Informatics 39 (1) (2006)
Joanna C. Chiu, Ernest K. Lee, Mary G. Egan, Indra Neil Sarkar, Gloria M. Coruzzi, Robert DeSalle
OrthologID: automation of genome-scale ortholog identification within a parsimony framework. Bioinform. 22 (6) (2006)
Michael N. Cantor, Indra Neil Sarkar, Olivier Bodenreider, Yves A. Lussier
GenesTrace: Phenomic Knowledge Discovery via Structured Terminology. Pacific Symposium on Biocomputing (2005)
Paul J. Planet, Indra Neil Sarkar
mILD: a tool for constructing and analyzing matrices of pairwise phylogenetic character incongruence tests. Bioinform. 21 (24) (2005)
Jeffrey A. Rosenfeld, Indra Neil Sarkar, Paul J. Planet, David H. Figurski, Robert DeSalle
ORFcurator: molecular curation of genes and gene clusters in prokaryotic organisms. Bioinform. 20 (18) (2004)
Indra Neil Sarkar, Michael N. Cantor, R. Gelman, Frank W. Hartel, Yves A. Lussier
Linking Biomedical Language Information and Knowledge Resources in the 21st Century: GO and UMLS. Pacific Symposium on Biocomputing (2003)
Michael N. Cantor, Indra Neil Sarkar, R. Gelman, Frank W. Hartel, Olivier Bodenreider, Yves A. Lussier
$. MIE (2003)
Yves A. Lussier, Indra Neil Sarkar, Michael Cantor
An integrative model for in-silico clinical-genomics discovery science. AMIA (2002)
Indra Neil Sarkar, Michael N. Cantor, Robert DeSalle, Yves A. Lussier
Exploring SNOMED Using Phylogenetic Analysis Tools. AMIA (2002)
Indra Neil Sarkar, Thomas C. Rindflesch
Discovering protein similarity using natural language processing. AMIA (2002)
Indra Neil Sarkar, Justin Starren
Implementation Brief: Desiderata for Personal Electronic Communication in Clinical Systems. J. Am. Medical Informatics Assoc. 9 (3) (2002)
Indra Neil Sarkar, Paul J. Planet, T. E. Bael, S. E. Stanley, Mark Siddall, Robert DeSalle, David H. Figurski
Characteristic attributes in cancer microarrays. J. Biomed. Informatics 35 (2) (2002)
Indra Neil Sarkar, Paul J. Planet, Robert DeSalle, David H. Figurski
Knowledge Aggregation from Organized Sets (KAOS) Applied to Clinical Data. AMIA (2001)