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Results: 1 to 20 of 32

1.

Summary of the BioLINK SIG 2013 meeting at ISMB/ECCB 2013.

Verspoor K, Shatkay H, Hirschman L, Blaschke C, Valencia A.

Bioinformatics. 2014 Jul 14. pii: btu412. [Epub ahead of print]

PMID:
25024289
[PubMed - as supplied by publisher]
2.

Mapping biomedical vocabularies: a semi-automated term matching approach.

Ofoghi B, Lopez-Campos GH, Martin Sanchez FJ, Verspoor K.

Stud Health Technol Inform. 2014;202:16-9.

PMID:
25000004
[PubMed - in process]
3.

BioC interoperability track overview.

Comeau DC, Batista-Navarro RT, Dai HJ, Islamaj Doğan R, Jimeno Yepes A, Khare R, Lu Z, Marques H, Mattingly CJ, Neves M, Peng Y, Rak R, Rinaldi F, Tsai RT, Verspoor K, Wiegers TC, Wu CH, Wilbur WJ.

Database (Oxford). 2014 Jun 30;2014. pii: bau053. doi: 10.1093/database/bau053. Print 2014.

PMID:
24980129
[PubMed - in process]
Free PMC Article
4.

Roles for text mining in protein function prediction.

Verspoor KM.

Methods Mol Biol. 2014;1159:95-108. doi: 10.1007/978-1-4939-0709-0_6.

PMID:
24788263
[PubMed - in process]
5.

Large-scale biomedical concept recognition: an evaluation of current automatic annotators and their parameters.

Funk C, Baumgartner W Jr, Garcia B, Roeder C, Bada M, Cohen KB, Hunter LE, Verspoor K.

BMC Bioinformatics. 2014 Feb 26;15:59. doi: 10.1186/1471-2105-15-59.

PMID:
24571547
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Literature mining of genetic variants for curation: quantifying the importance of supplementary material.

Jimeno Yepes A, Verspoor K.

Database (Oxford). 2014 Feb 10;2014:bau003. doi: 10.1093/database/bau003. Print 2014.

PMID:
24520105
[PubMed - in process]
Free PMC Article
7.

Representing annotation compositionality and provenance for the Semantic Web.

Livingston KM, Bada M, Hunter LE, Verspoor K.

J Biomed Semantics. 2013 Nov 22;4(1):38. [Epub ahead of print]

PMID:
24268021
[PubMed - as supplied by publisher]
Free Article
8.

BioC: a minimalist approach to interoperability for biomedical text processing.

Comeau DC, Islamaj Doğan R, Ciccarese P, Cohen KB, Krallinger M, Leitner F, Lu Z, Peng Y, Rinaldi F, Torii M, Valencia A, Verspoor K, Wiegers TC, Wu CH, Wilbur WJ.

Database (Oxford). 2013 Sep 18;2013:bat064. doi: 10.1093/database/bat064. Print 2013.

PMID:
24048470
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Approximate subgraph matching-based literature mining for biomedical events and relations.

Liu H, Hunter L, Kešelj V, Verspoor K.

PLoS One. 2013 Apr 17;8(4):e60954. doi: 10.1371/journal.pone.0060954. Print 2013.

PMID:
23613763
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Annotating the biomedical literature for the human variome.

Verspoor K, Jimeno Yepes A, Cavedon L, McIntosh T, Herten-Crabb A, Thomas Z, Plazzer JP.

Database (Oxford). 2013 Apr 12;2013:bat019. doi: 10.1093/database/bat019. Print 2013.

PMID:
23584833
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

Combining heterogeneous data sources for accurate functional annotation of proteins.

Sokolov A, Funk C, Graim K, Verspoor K, Ben-Hur A.

BMC Bioinformatics. 2013;14 Suppl 3:S10. doi: 10.1186/1471-2105-14-S3-S10. Epub 2013 Feb 28.

PMID:
23514123
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Detection of protein catalytic sites in the biomedical literature.

Verspoor K, Mackinlay A, Cohn JD, Wall ME.

Pac Symp Biocomput. 2013:433-44.

PMID:
23424147
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

A large-scale evaluation of computational protein function prediction.

Radivojac P, Clark WT, Oron TR, Schnoes AM, Wittkop T, Sokolov A, Graim K, Funk C, Verspoor K, Ben-Hur A, Pandey G, Yunes JM, Talwalkar AS, Repo S, Souza ML, Piovesan D, Casadio R, Wang Z, Cheng J, Fang H, Gough J, Koskinen P, Törönen P, Nokso-Koivisto J, Holm L, Cozzetto D, Buchan DW, Bryson K, Jones DT, Limaye B, Inamdar H, Datta A, Manjari SK, Joshi R, Chitale M, Kihara D, Lisewski AM, Erdin S, Venner E, Lichtarge O, Rentzsch R, Yang H, Romero AE, Bhat P, Paccanaro A, Hamp T, Kaßner R, Seemayer S, Vicedo E, Schaefer C, Achten D, Auer F, Boehm A, Braun T, Hecht M, Heron M, Hönigschmid P, Hopf TA, Kaufmann S, Kiening M, Krompass D, Landerer C, Mahlich Y, Roos M, Björne J, Salakoski T, Wong A, Shatkay H, Gatzmann F, Sommer I, Wass MN, Sternberg MJ, Škunca N, Supek F, Bošnjak M, Panov P, Džeroski S, Šmuc T, Kourmpetis YA, van Dijk AD, ter Braak CJ, Zhou Y, Gong Q, Dong X, Tian W, Falda M, Fontana P, Lavezzo E, Di Camillo B, Toppo S, Lan L, Djuric N, Guo Y, Vucetic S, Bairoch A, Linial M, Babbitt PC, Brenner SE, Orengo C, Rost B, Mooney SD, Friedberg I.

Nat Methods. 2013 Mar;10(3):221-7. doi: 10.1038/nmeth.2340. Epub 2013 Jan 27.

PMID:
23353650
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Acquisition and evaluation of verb subcategorization resources for biomedicine.

Rimell L, Lippincott T, Verspoor K, Johnson HL, Korhonen A.

J Biomed Inform. 2013 Apr;46(2):228-37. doi: 10.1016/j.jbi.2013.01.001. Epub 2013 Jan 22.

PMID:
23347886
[PubMed - indexed for MEDLINE]
Free Article
15.

Approaches to verb subcategorization for biomedicine.

Lippincott T, Rimell L, Verspoor K, Korhonen A.

J Biomed Inform. 2013 Apr;46(2):212-27. doi: 10.1016/j.jbi.2012.12.001. Epub 2012 Dec 28. Review.

PMID:
23276747
[PubMed - indexed for MEDLINE]
Free Article
16.

Literature mining of protein-residue associations with graph rules learned through distant supervision.

Ravikumar K, Liu H, Cohn JD, Wall ME, Verspoor K.

J Biomed Semantics. 2012 Oct 5;3 Suppl 3:S2. doi: 10.1186/2041-1480-3-S3-S2. Epub 2012 Oct 5.

PMID:
23046792
[PubMed]
Free PMC Article
17.

A corpus of full-text journal articles is a robust evaluation tool for revealing differences in performance of biomedical natural language processing tools.

Verspoor K, Cohen KB, Lanfranchi A, Warner C, Johnson HL, Roeder C, Choi JD, Funk C, Malenkiy Y, Eckert M, Xue N, Baumgartner WA Jr, Bada M, Palmer M, Hunter LE.

BMC Bioinformatics. 2012 Aug 17;13:207. doi: 10.1186/1471-2105-13-207.

PMID:
22901054
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

Concept annotation in the CRAFT corpus.

Bada M, Eckert M, Evans D, Garcia K, Shipley K, Sitnikov D, Baumgartner WA Jr, Cohen KB, Verspoor K, Blake JA, Hunter LE.

BMC Bioinformatics. 2012 Jul 9;13:161. doi: 10.1186/1471-2105-13-161.

PMID:
22776079
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

BioLemmatizer: a lemmatization tool for morphological processing of biomedical text.

Liu H, Christiansen T, Baumgartner WA Jr, Verspoor K.

J Biomed Semantics. 2012 Apr 1;3:3. doi: 10.1186/2041-1480-3-3.

PMID:
22464129
[PubMed]
Free PMC Article
20.

Text mining improves prediction of protein functional sites.

Verspoor KM, Cohn JD, Ravikumar KE, Wall ME.

PLoS One. 2012;7(2):e32171. doi: 10.1371/journal.pone.0032171. Epub 2012 Feb 29.

PMID:
22393388
[PubMed - indexed for MEDLINE]
Free PMC Article

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