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Lawrence E. Hunter, Ph.D. - Publications

Affiliations: 
1991-2000 Computational Science and Informatics George Mason University, Washington, DC 
 1995-2000 Krasnow Institute for Advanced Study, Fairfax, VA, United States 
 2000- University of Colorado School of Medicine, Aurora, CO, United States 
Area:
Computational Biology, Artificial Intelligence, Bioinformatics
Website:
http://compbio.ucdenver.edu/Hunter
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53 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 Tripodi IJ, Callahan TJ, Westfall JT, Meitzer NS, Dowell RD, Hunter LE. Applying knowledge-driven mechanistic inference to toxicogenomics. Toxicology in Vitro : An International Journal Published in Association With Bibra. 104877. PMID 32387679 DOI: 10.1016/J.Tiv.2020.104877  0.317
2019 Callahan TJ, Stefanski AL, Baumgartner WA, Fujiwara T, Kim J, Hunter LE. Identifying and annotating uncharacterized preeclampsia-associated genes F1000research. 8. DOI: 10.7490/F1000Research.1116614.1  0.3
2019 Callahan TJ, Stefanski AL, Baumgartner WA, Hunter LE, Fujiwara T, Kim J, Cirincione A, Kann MG. Identifying and annotating uninvestigated preeclampsia-related genes using linked open biomedical data F1000research. 8. DOI: 10.7490/F1000Research.1116612.1  0.323
2017 Bada M, Vasilevsky N, Baumgartner WA, Haendel M, Hunter LE. Gold-standard ontology-based anatomical annotation in the CRAFT Corpus. Database : the Journal of Biological Databases and Curation. 2017. PMID 31725864 DOI: 10.1093/Database/Bax087  0.359
2017 Cohen KB, Lanfranchi A, Choi MJ, Bada M, Baumgartner WA, Panteleyeva N, Verspoor K, Palmer M, Hunter LE. Coreference annotation and resolution in the Colorado Richly Annotated Full Text (CRAFT) corpus of biomedical journal articles. Bmc Bioinformatics. 18: 372. PMID 28818042 DOI: 10.1186/S12859-017-1775-9  0.308
2017 Hooper JE, Feng W, Li H, Leach S, Phang T, Siska C, Jones KL, Spritz RA, Hunter LE, Williams T. Systems biology of facial development: contributions of ectoderm and mesenchyme. Developmental Biology. PMID 28363736 DOI: 10.1016/J.Ydbio.2017.03.025  0.35
2016 Funk CS, Cohen KB, Hunter LE, Verspoor KM. Gene Ontology synonym generation rules lead to increased performance in biomedical concept recognition. Journal of Biomedical Semantics. 7: 52. PMID 27613112 DOI: 10.1186/S13326-016-0096-7  0.366
2016 Bada M, Vasilevsky N, Haendel M, Hunter L. Updating and extending the concept annotations of the CRAFT corpus F1000research. 5. DOI: 10.7490/F1000Research.1111753.1  0.303
2015 Karimpour-Fard A, Epperson LE, Hunter LE. A survey of computational tools for downstream analysis of proteomic and other omic datasets. Human Genomics. 9: 28. PMID 26510531 DOI: 10.1186/S40246-015-0050-2  0.357
2015 Vehlow C, Kao DP, Bristow MR, Hunter LE, Weiskopf D, Görg C. Visual analysis of biological data-knowledge networks. Bmc Bioinformatics. 16: 135. PMID 25925016 DOI: 10.1186/S12859-015-0550-Z  0.313
2015 Livingston KM, Bada M, Baumgartner WA, Hunter LE. KaBOB: ontology-based semantic integration of biomedical databases. Bmc Bioinformatics. 16: 126. PMID 25903923 DOI: 10.1186/S12859-015-0559-3  0.323
2015 Albrecht SV, Barreto AMS, Braziunas D, Buckeridge DL, Cuayáhuitl H, Dethlefs N, Endres M, Farahmand A, Fox M, Frommberger L, Ganzfried S, Gil Y, Guillet S, Hunter LE, Jhala A, et al. Reports of the AAAI 2014 Conference Workshops Ai Magazine. 36: 87. DOI: 10.1609/Aimag.V36I1.2575  0.31
2014 Funk C, Baumgartner W, Garcia B, Roeder C, Bada M, Cohen KB, Hunter LE, Verspoor K. Large-scale biomedical concept recognition: an evaluation of current automatic annotators and their parameters. Bmc Bioinformatics. 15: 59. PMID 24571547 DOI: 10.1186/1471-2105-15-59  0.335
2014 Williams LA, Fox LM, Roeder C, Hunter L. Negotiating a Text Mining License for Faculty Researchers Information Technology and Libraries. 33: 5-21. DOI: 10.6017/Ital.V33I3.5485  0.307
2013 Livingston KM, Bada M, Hunter LE, Verspoor K. Representing annotation compositionality and provenance for the Semantic Web. Journal of Biomedical Semantics. 4: 38. PMID 24268021 DOI: 10.1186/2041-1480-4-38  0.311
2013 Hunter LE. Rocky mountain conference on bioinformatics celebrates 10 years. Plos Computational Biology. 9: e1003076. PMID 23737739 DOI: 10.1371/Journal.Pcbi.1003076  0.378
2013 Cohen KB, Hunter LE. Chapter 16: text mining for translational bioinformatics. Plos Computational Biology. 9: e1003044. PMID 23633944 DOI: 10.1371/Journal.Pcbi.1003044  0.331
2013 Liu H, Hunter L, Kešelj V, Verspoor K. Approximate subgraph matching-based literature mining for biomedical events and relations. Plos One. 8: e60954. PMID 23613763 DOI: 10.1371/Journal.Pone.0060954  0.334
2012 Verspoor K, Cohen KB, Lanfranchi A, Warner C, Johnson HL, Roeder C, Choi JD, Funk C, Malenkiy Y, Eckert M, Xue N, Baumgartner WA, Bada M, Palmer M, Hunter LE. A corpus of full-text journal articles is a robust evaluation tool for revealing differences in performance of biomedical natural language processing tools. Bmc Bioinformatics. 13: 207. PMID 22901054 DOI: 10.1186/1471-2105-13-207  0.32
2012 Sarkar SA, Lee CE, Tipney H, Karimpour-Fard A, Dinella JD, Juhl K, Walters JA, Hutton JC, Hunter LE. Synergizing genomic analysis with biological knowledge to identify and validate novel genes in pancreatic development. Pancreas. 41: 962-9. PMID 22450367 DOI: 10.1097/Mpa.0B013E31823D0160  0.315
2011 Scott MC, Sarver AL, Gavin KJ, Thayanithy V, Getzy DM, Newman RA, Cutter GR, Lindblad-Toh K, Kisseberth WC, Hunter LE, Subramanian S, Breen M, Modiano JF. Molecular subtypes of osteosarcoma identified by reducing tumor heterogeneity through an interspecies comparative approach. Bone. 49: 356-67. PMID 21621658 DOI: 10.1016/J.Bone.2011.05.008  0.304
2011 Bada M, Hunter L. Desiderata for ontologies to be used in semantic annotation of biomedical documents. Journal of Biomedical Informatics. 44: 94-101. PMID 20971216 DOI: 10.1016/J.Jbi.2010.10.002  0.357
2011 Kano Y, Miwa M, Cohen KB, Hunter LE, Ananiadou S, Tsujii J. U-Compare: A modular NLP workflow construction and evaluation system Ibm Journal of Research and Development. 55. DOI: 10.1147/Jrd.2011.2105691  0.329
2010 Verspoor K, Roeder C, Johnson HL, Cohen KB, Baumgartner WA, Hunter LE. Exploring species-based strategies for gene normalization. Ieee/Acm Transactions On Computational Biology and Bioinformatics / Ieee, Acm. 7: 462-71. PMID 20671318 DOI: 10.1109/Tcbb.2010.48  0.353
2010 Ramakrishnan C, Baumgartner WA, Blake JA, Burns GA, Cohen KB, Drabkin H, Eppig J, Hovy E, Hsu C, Hunter LE, Ingulfsen T, Onda H, Pokkunuri S, Riloff E, Roeder C, et al. Building the Scientific Knowledge Mine (SciKnowMine): A community-driven framework for text mining tools in direct service to biocuration F1000research. 1. DOI: 10.7490/F1000Research.258.1  0.376
2009 Feng W, Leach SM, Tipney H, Phang T, Geraci M, Spritz RA, Hunter LE, Williams T. Spatial and temporal analysis of gene expression during growth and fusion of the mouse facial prominences Plos One. 4. PMID 20016822 DOI: 10.1371/Journal.Pone.0008066  0.331
2009 Leach SM, Tipney H, Feng W, Baumgartner WA, Kasliwal P, Schuyler RP, Williams T, Spritz RA, Hunter L. Biomedical discovery acceleration, with applications to craniofacial development Plos Computational Biology. 5. PMID 19325874 DOI: 10.1371/Journal.Pcbi.1000215  0.389
2009 Tipney HJ, Leach SM, Feng W, Spritz R, Williams T, Hunter L. Leveraging existing biological knowledge in the identification of candidate genes for facial dysmorphology. Bmc Bioinformatics. 10: S12. PMID 19208187 DOI: 10.1186/1471-2105-10-S2-S12  0.343
2009 Bada M, Hunter L. Using the Gene Ontology to Annotate Biomedical Journal Articles Nature Precedings. 1-1. DOI: 10.1038/Npre.2009.3556.1  0.352
2008 Baumgartner WA, Lu Z, Johnson HL, Caporaso JG, Paquette J, Lindemann A, White EK, Medvedeva O, Cohen KB, Hunter L. Concept recognition for extracting protein interaction relations from biomedical text. Genome Biology. 9: S9. PMID 18834500 DOI: 10.1186/Gb-2008-9-S2-S9  0.351
2008 Leitner F, Krallinger M, Rodriguez-Penagos C, Hakenberg J, Plake C, Kuo CJ, Hsu CN, Tsai RT, Hung HC, Lau WW, Johnson CA, Saetre R, Yoshida K, Chen YH, Kim S, ... ... Hunter L, et al. Introducing meta-services for biomedical information extraction. Genome Biology. 9: S6. PMID 18834497 DOI: 10.1186/Gb-2008-9-S2-S6  0.33
2008 Smith L, Tanabe LK, Ando RJ, Kuo CJ, Chung IF, Hsu CN, Lin YS, Klinger R, Friedrich CM, Ganchev K, Torii M, Liu H, Haddow B, Struble CA, Povinelli RJ, ... ... Hunter L, et al. Overview of BioCreative II gene mention recognition. Genome Biology. 9: S2. PMID 18834493 DOI: 10.1186/Gb-2008-9-S2-S2  0.717
2008 Karimpour-Fard A, Leach SM, Gill RT, Hunter LE. Predicting protein linkages in bacteria: which method is best depends on task. Bmc Bioinformatics. 9: 397. PMID 18816389 DOI: 10.1186/1471-2105-9-397  0.321
2008 Hunter L, Lu Z, Firby J, Baumgartner WA, Johnson HL, Ogren PV, Cohen KB. OpenDMAP: an open source, ontology-driven concept analysis engine, with applications to capturing knowledge regarding protein transport, protein interactions and cell-type-specific gene expression. Bmc Bioinformatics. 9: 78. PMID 18237434 DOI: 10.1186/1471-2105-9-78  0.353
2008 Baumgartner WA, Cohen KB, Hunter L. An open-source framework for large-scale, flexible evaluation of biomedical text mining systems. Journal of Biomedical Discovery and Collaboration. 3: 1. PMID 18230184 DOI: 10.1186/1747-5333-3-1  0.313
2008 Cohen KB, Hunter L. Getting started in text mining. Plos Computational Biology. 4: e20. PMID 18225946 DOI: 10.1371/Journal.Pcbi.0040020  0.39
2007 Caporaso JG, Baumgartner WA, Randolph DA, Cohen KB, Hunter L. Rapid pattern development for concept recognition systems: application to point mutations. Journal of Bioinformatics and Computational Biology. 5: 1233-59. PMID 18172927 DOI: 10.1142/S0219720007003144  0.311
2007 Johnson HL, Baumgartner WA, Krallinger M, Cohen KB, Hunter L. Corpus refactoring: a feasibility study. Journal of Biomedical Discovery and Collaboration. 2: 4. PMID 17854502 DOI: 10.1186/1747-5333-2-4  0.314
2007 Bhave SV, Hornbaker C, Phang TL, Saba L, Lapadat R, Kechris K, Gaydos J, McGoldrick D, Dolbey A, Leach S, Soriano B, Ellington A, Ellington E, Jones K, Mangion J, ... ... Hunter LE, et al. The PhenoGen informatics website: tools for analyses of complex traits. Bmc Genetics. 8: 59. PMID 17760997 DOI: 10.1186/1471-2156-8-59  0.32
2007 Bada M, Hunter L. Enrichment of OBO ontologies. Journal of Biomedical Informatics. 40: 300-15. PMID 17011833 DOI: 10.1016/J.Jbi.2006.07.003  0.312
2005 Coors ME, Hunter L. Evaluation of genetic enhancement: will human wisdom properly acknowledge the value of evolution? American Journal of Bioethics. 5: 21-22. PMID 16006358 DOI: 10.1080/15265160591002683  0.306
2005 Kinoshita S, Cohen KB, Ogren PV, Hunter L. BioCreAtIvE task1A: entity identification with a stochastic tagger. Bmc Bioinformatics. 6: S4. PMID 15960838 DOI: 10.1186/1471-2105-6-S1-S4  0.31
2004 Hong M, Karimpour-Fard A, Russell S, Hunter L. Integrated term weighting, visualization, and user interface development for bioinformation retrieval Ai & Society. 673-682. DOI: 10.1007/11382393_71  0.313
2002 Edgerton ME, Taylor R, Powell JI, Hunter L, Simon R, Liu ET. A bioinformatics tool to select sequences for microarray studies of mouse models of oncogenesis Bioinformatics. 18: 774-775. PMID 12050079 DOI: 10.1093/Bioinformatics/18.5.774  0.577
2001 Hunter L, Taylor RC, Leach SM, Simon R. GEST: a gene expression search tool based on a novel Bayesian similarity metric. Bioinformatics (Oxford, England). 17: S115-22. PMID 11473000 DOI: 10.1093/Bioinformatics/17.Suppl_1.S115  0.591
1999 Tanabe L, Scherf U, Smith LH, Lee JK, Hunter L, Weinstein JN. MedMiner: an Internet text-mining tool for biomedical information, with application to gene expression profiling. Biotechniques. 27: 1210-1217. PMID 10631500 DOI: 10.2144/99276Bc03  0.342
1999 Hunter L. Progress in computational molecular biology Acm Sigbio Newsletter. 19: 9-12. DOI: 10.1145/340358.340374  0.305
1992 Hunter L. Knowledge acquisition planning: Using multiple sources of knowledge to answer questions in biomedicine Mathematical and Computer Modelling. 16: 79-91. DOI: 10.1016/0895-7177(92)90153-C  0.328
1992 Ram A, Hunter L. The use of explicit goals for knowledge to guide inference and learning Applied Intelligence. 2: 47-73. DOI: 10.1007/Bf00058575  0.516
1991 Ram A, Hunter L. A Goal-Based Approach to Intelligent Information Retrieval Machine Learning. 265-269. DOI: 10.1016/B978-1-55860-200-7.50056-8  0.54
1986 Schank RC, Collins GC, Hunter LE. The learning of function and the function of learning Behavioral and Brain Sciences. 9: 672-686. DOI: 10.1017/S0140525X00051827  0.586
1986 Schank RC, Collins GC, Hunter LE. Transcending inductive category formation in learning Behavioral and Brain Sciences. 9: 639-651. DOI: 10.1017/S0140525X00051578  0.615
1985 Schank R, Hunter L. Encapsulation and expectation Behavioral and Brain Sciences. 8: 29-30. DOI: 10.1017/S0140525X00019439  0.569
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