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Nigam Shah, Ph.D. - Publications

Affiliations: 
2005 Pennsylvania State University, State College, PA, United States 
Area:
Molecular Biology, Computer Science
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27 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2020 Joshi RP, Pejaver V, Hammarlund NE, Sung H, Lee SK, Furmanchuk A, Lee HY, Scott G, Gombar S, Shah N, Shen S, Nassiri A, Schneider D, Ahmad FS, Liebovitz D, et al. A predictive tool for identification of SARS-CoV-2 PCR-negative emergency department patients using routine test results. Journal of Clinical Virology : the Official Publication of the Pan American Society For Clinical Virology. 129: 104502. PMID 32544861 DOI: 10.1016/J.Jcv.2020.104502  0.317
2019 Miner AS, Shah N, Bullock KD, Arnow BA, Bailenson J, Hancock J. Key Considerations for Incorporating Conversational AI in Psychotherapy. Frontiers in Psychiatry. 10: 746. PMID 31681047 DOI: 10.3389/Fpsyt.2019.00746  0.31
2016 Verspoor K, Oellrich A, Collier N, Groza T, Rocca-Serra P, Soldatova L, Dumontier M, Shah N. Thematic issue of the Second combined Bio-ontologies and Phenotypes Workshop. Journal of Biomedical Semantics. 7: 66. PMID 27955708 DOI: 10.1186/S13326-016-0108-7  0.397
2016 Mitra M, Shah N, Ghosh A, Chatterjee S, Kaur I, Bhattacharya N, Basu S. Efficacy and Safety of Vi-Tetanus Toxoid conjugated Typhoid vaccine (PedaTyph(TM)) in Indian Children: School Based Cluster Randomized Study. Human Vaccines & Immunotherapeutics. 0. PMID 26901576 DOI: 10.1080/21645515.2015.1117715  0.424
2015 Poole S, Schroeder LF, Shah N. An unsupervised learning method to identify reference intervals from a clinical database. Journal of Biomedical Informatics. PMID 26707631 DOI: 10.1016/J.Jbi.2015.12.010  0.336
2015 Oellrich A, Collier N, Groza T, Rebholz-Schuhmann D, Shah N, Bodenreider O, Boland MR, Georgiev I, Liu H, Livingston K, Luna A, Mallon AM, Manda P, Robinson PN, Rustici G, et al. The digital revolution in phenotyping. Briefings in Bioinformatics. PMID 26420780 DOI: 10.1093/Bib/Bbv083  0.36
2015 Gallego B, Walter SR, Day RO, Dunn AG, Sivaraman V, Shah N, Longhurst CA, Coiera E. Bringing cohort studies to the bedside: framework for a 'green button' to support clinical decision-making. Journal of Comparative Effectiveness Research. 1-7. PMID 25959863 DOI: 10.2217/Cer.15.12  0.317
2014 Harpaz R, Odgers D, Gaskin G, DuMouchel W, Winnenburg R, Bodenreider O, Ripple A, Szarfman A, Sorbello A, Horvitz E, White RW, Shah NH. A time-indexed reference standard of adverse drug reactions. Scientific Data. 1: 140043. PMID 25632348 DOI: 10.1038/Sdata.2014.43  0.338
2012 Neylon C, Aerts J, Brown CT, Coles SJ, Hatton L, Lemire D, Millman KJ, Murray-Rust P, Perez F, Saunders N, Shah N, Smith A, Varoquaux G, Willighagen E. Changing computational research. The challenges ahead. Source Code For Biology and Medicine. 7: 2. PMID 22640749 DOI: 10.1186/1751-0473-7-2  0.343
2012 Demir E, Cary MP, Paley S, Fukuda K, Lemer C, Vastrik I, Wu G, D'Eustachio P, Schaefer C, Luciano J, Schacherer F, Martinez-Flores I, Hu Z, Jimenez-Jacinto V, Joshi-Tope G, ... ... Shah N, et al. The BioPAX community standard for pathway data sharing (Nature Biotechnology (2010) 28, (935-942)) Nature Biotechnology. 30: 365. DOI: 10.1038/Nbt0412-365C  0.303
2011 Callahan A, Dumontier M, Shah NH. HyQue: evaluating hypotheses using Semantic Web technologies. Journal of Biomedical Semantics. 2: S3. PMID 21624158 DOI: 10.1186/2041-1480-2-S2-S3  0.325
2010 Field D, Sansone S, Delong EF, Sterk P, Friedberg I, Gaudet P, Lewis S, Kottmann R, Hirschman L, Garrity G, Cochrane G, Wooley J, Meyer F, Hunter S, White O, ... ... Shah N, et al. Meeting Report: BioSharing at ISMB 2010. Standards in Genomic Sciences. 3: 254-8. PMID 21304729 DOI: 10.4056/Sigs/1403501  0.347
2010 Demir E, Cary MP, Paley S, Fukuda K, Lemer C, Vastrik I, Wu G, D'Eustachio P, Schaefer C, Luciano J, Schacherer F, Martinez-Flores I, Hu Z, Jimenez-Jacinto V, Joshi-Tope G, ... ... Shah N, et al. The BioPAX community standard for pathway data sharing. Nature Biotechnology. 28: 935-42. PMID 20829833 DOI: 10.1038/Nbt.1666  0.404
2009 Jonquet C, Shah NH, Musen MA. The open biomedical annotator. Summit On Translational Bioinformatics. 2009: 56-60. PMID 21347171  0.31
2009 Noy NF, Shah NH, Whetzel PL, Dai B, Dorf M, Griffith N, Jonquet C, Rubin DL, Storey MA, Chute CG, Musen MA. BioPortal: ontologies and integrated data resources at the click of a mouse. Nucleic Acids Research. 37: W170-3. PMID 19483092 DOI: 10.1093/nar/gkp440  0.358
2009 Shah NH, Jonquet C, Chiang AP, Butte AJ, Chen R, Musen MA. Ontology-driven indexing of public datasets for translational bioinformatics. Bmc Bioinformatics. 10: S1. PMID 19208184 DOI: 10.1186/1471-2105-10-S2-S1  0.302
2008 Lee WN, Shah N, Sundlass K, Musen M. Comparison of ontology-based semantic-similarity measures. Amia ... Annual Symposium Proceedings / Amia Symposium. Amia Symposium. 384-8. PMID 18999312  0.307
2008 Rubin DL, Shah NH, Noy NF. Biomedical ontologies: a functional perspective. Briefings in Bioinformatics. 9: 75-90. PMID 18077472 DOI: 10.1093/Bib/Bbm059  0.369
2008 Kotecha N, Bruck K, Lu W, Shah N. Pathway knowledge base: An integrated pathway resource using BioPAX Applied Ontology. 3: 235-245. DOI: 10.3233/Ao-2008-0054  0.4
2007 Smith B, Ashburner M, Rosse C, Bard J, Bug W, Ceusters W, Goldberg LJ, Eilbeck K, Ireland A, Mungall CJ, Leontis N, Rocca-Serra P, Ruttenberg A, Sansone SA, ... ... Shah N, et al. The OBO Foundry: coordinated evolution of ontologies to support biomedical data integration. Nature Biotechnology. 25: 1251-5. PMID 17989687 DOI: 10.1038/Nbt1346  0.442
2006 Racunas SA, Shah NH, Fedoroff NV. A case study in pathway knowledgebase verification. Bmc Bioinformatics. 7: 196. PMID 16603083 DOI: 10.1186/1471-2105-7-196  0.642
2005 Mahalingam R, Shah N, Scrymgeour A, Fedoroff N. Temporal evolution of the Arabidopsis oxidative stress response. Plant Molecular Biology. 57: 709-30. PMID 15988565 DOI: 10.1007/S11103-005-2860-4  0.543
2004 Racunas SA, Shah NH, Albert I, Fedoroff NV. HyBrow: a prototype system for computer-aided hypothesis evaluation. Bioinformatics (Oxford, England). 20: i257-64. PMID 15262807 DOI: 10.1093/bioinformatics/bth905  0.644
2004 Shah NH, Fedoroff NV. CLENCH: a program for calculating Cluster ENriCHment using the Gene Ontology. Bioinformatics (Oxford, England). 20: 1196-7. PMID 14764555 DOI: 10.1093/bioinformatics/bth056  0.524
2003 Shah NH, King DC, Shah PN, Fedoroff NV. A tool-kit for cDNA microarray and promoter analysis. Bioinformatics (Oxford, England). 19: 1846-8. PMID 14512358 DOI: 10.1093/bioinformatics/btg253  0.56
2003 Mahalingam R, Gomez-Buitrago A, Eckardt N, Shah N, Guevara-Garcia A, Day P, Raina R, Fedoroff NV. Characterizing the stress/defense transcriptome of Arabidopsis. Genome Biology. 4: R20. PMID 12620105 DOI: 10.1186/Gb-2003-4-3-R20  0.524
2002 Mitra M, Shah N, Mueller L, Pin S, Fedoroff N. StressDB: a locally installable web-based relational microarray database designed for small user communities. Comparative and Functional Genomics. 3: 91-6. PMID 18628845 DOI: 10.1002/Cfg.153  0.676
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