PubMed

Identifying gene and protein mentions in text using conditional random fields.

McDonald R, Pereira F.

BMC Bioinformatics. 2005;6 Suppl 1:S6. Epub 2005 May 24.PMID: 15960840 [PubMed - indexed for MEDLINE]Related articlesFree article

Automated recognition of malignancy mentions in biomedical literature.

Jin Y, McDonald RT, Lerman K, Mandel MA, Carroll S, Liberman MY, Pereira FC, Winters RS, White PS.

BMC Bioinformatics. 2006 Nov 7;7:492.PMID: 17090325 [PubMed - indexed for MEDLINE]Related articlesFree article

Extraction of semantic biomedical relations from text using conditional random fields.

Bundschus M, Dejori M, Stetter M, Tresp V, Kriegel HP.

BMC Bioinformatics. 2008 Apr 23;9:207.PMID: 18433469 [PubMed - indexed for MEDLINE]Related articlesFree article

Text detective: a rule-based system for gene annotation in biomedical texts.

Tamames J.

BMC Bioinformatics. 2005;6 Suppl 1:S10. Epub 2005 May 24.PMID: 15960822 [PubMed - indexed for MEDLINE]Related articlesFree article

Integrating high dimensional bi-directional parsing models for gene mention tagging.

Hsu CN, Chang YM, Kuo CJ, Lin YS, Huang HS, Chung IF.

Bioinformatics. 2008 Jul 1;24(13):i286-94.PMID: 18586726 [PubMed - indexed for MEDLINE]Related articlesFree article

High-recall protein entity recognition using a dictionary.

Kou Z, Cohen WW, Murphy RF.

Bioinformatics. 2005 Jun;21 Suppl 1:i266-73.PMID: 15961466 [PubMed - indexed for MEDLINE]Related articlesFree article

Gene/protein name recognition based on support vector machine using dictionary as features.

Mitsumori T, Fation S, Murata M, Doi K, Doi H.

BMC Bioinformatics. 2005;6 Suppl 1:S8. Epub 2005 May 24.PMID: 15960842 [PubMed - indexed for MEDLINE]Related articlesFree article

Identifying biological concepts from a protein-related corpus with a probabilistic topic model.

Zheng B, McLean DC Jr, Lu X.

BMC Bioinformatics. 2006 Feb 8;7:58.PMID: 16466569 [PubMed - indexed for MEDLINE]Related articlesFree article

Rich features based Conditional Random Fields for biological named entities recognition.

Sun C, Guan Y, Wang X, Lin L.

Comput Biol Med. 2007 Sep;37(9):1327-33. Epub 2007 Jan 19.PMID: 17239841 [PubMed - indexed for MEDLINE]Related articles

Automated recognition of brain region mentions in neuroscience literature.

French L, Lane S, Xu L, Pavlidis P.

Front Neuroinformatics. 2009;3:29. Epub 2009 Sep 1.PMID: 19750194 [PubMed - in process]Related articlesFree article

Protein annotation as term categorization in the gene ontology using word proximity networks.

Verspoor K, Cohn J, Joslyn C, Mniszewski S, Rechtsteiner A, Rocha LM, Simas T.

BMC Bioinformatics. 2005;6 Suppl 1:S20. Epub 2005 May 24.PMID: 15960833 [PubMed - indexed for MEDLINE]Related articlesFree article

Assigning roles to protein mentions: the case of transcription factors.

Yang H, Keane J, Bergman CM, Nenadic G.

J Biomed Inform. 2009 Oct;42(5):887-94. Epub 2009 Apr 11.PMID: 19364541 [PubMed - in process]Related articles

Ensemble attribute profile clustering: discovering and characterizing groups of genes with similar patterns of biological features.

Semeiks JR, Rizki A, Bissell MJ, Mian IS.

BMC Bioinformatics. 2006 Mar 16;7:147.PMID: 16542449 [PubMed - indexed for MEDLINE]Related articlesFree article

Learning flexible features for conditional random fields.

Stewart L, He X, Zemel RS.

IEEE Trans Pattern Anal Mach Intell. 2008 Aug;30(8):1415-26.PMID: 18566495 [PubMed - indexed for MEDLINE]Related articles

NERBio: using selected word conjunctions, term normalization, and global patterns to improve biomedical named entity recognition.

Tsai RT, Sung CL, Dai HJ, Hung HC, Sung TY, Hsu WL.

BMC Bioinformatics. 2006 Dec 18;7 Suppl 5:S11.PMID: 17254295 [PubMed - indexed for MEDLINE]Related articlesFree article

Kernel-imbedded Gaussian processes for disease classification using microarray gene expression data.

Zhao X, Cheung LW.

BMC Bioinformatics. 2007 Feb 28;8:67.PMID: 17328811 [PubMed - indexed for MEDLINE]Related articlesFree article

Gene Ontology density estimation and discourse analysis for automatic GeneRiF extraction.

Gobeill J, Tbahriti I, Ehrler F, Mottaz A, Veuthey AL, Ruch P.

BMC Bioinformatics. 2008 Apr 11;9 Suppl 3:S9.PMID: 18426554 [PubMed - indexed for MEDLINE]Related articlesFree article

A dynamic conditional random field model for foreground and shadow segmentation.

Wang Y, Loe KF, Wu JK.

IEEE Trans Pattern Anal Mach Intell. 2006 Feb;28(2):279-89.PMID: 16468623 [PubMed - indexed for MEDLINE]Related articles

How to decide which are the most pertinent overly-represented features during gene set enrichment analysis.

Barriot R, Sherman DJ, Dutour I.

BMC Bioinformatics. 2007 Sep 11;8:332.PMID: 17848190 [PubMed - indexed for MEDLINE]Related articlesFree article

A simple approach for protein name identification: prospects and limits.

Fundel K, Güttler D, Zimmer R, Apostolakis J.

BMC Bioinformatics. 2005;6 Suppl 1:S15. Epub 2005 May 24.PMID: 15960827 [PubMed - indexed for MEDLINE]Related articlesFree article