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Items: 1 to 20 of 69

1.

BeeSpace Navigator: exploratory analysis of gene function using semantic indexing of biological literature.

Sen Sarma M, Arcoleo D, Khetani RS, Chee B, Ling X, He X, Jiang J, Mei Q, Zhai C, Schatz B.

Nucleic Acids Res. 2011 Jul;39(Web Server issue):W462-9. doi: 10.1093/nar/gkr285. Epub 2011 May 9.

2.

Gene name identification and normalization using a model organism database.

Morgan AA, Hirschman L, Colosimo M, Yeh AS, Colombe JB.

J Biomed Inform. 2004 Dec;37(6):396-410.

3.
4.

Identifying overrepresented concepts in gene lists from literature: a statistical approach based on Poisson mixture model.

He X, Sarma MS, Ling X, Chee B, Zhai C, Schatz B.

BMC Bioinformatics. 2010 May 20;11:272. doi: 10.1186/1471-2105-11-272.

5.

GOstat: find statistically overrepresented Gene Ontologies within a group of genes.

Beissbarth T, Speed TP.

Bioinformatics. 2004 Jun 12;20(9):1464-5. Epub 2004 Feb 12.

PMID:
14962934
6.

BSQA: integrated text mining using entity relation semantics extracted from biological literature of insects.

He X, Li Y, Khetani R, Sanders B, Lu Y, Ling X, Zhai C, Schatz B.

Nucleic Acids Res. 2010 Jul;38(Web Server issue):W175-81. doi: 10.1093/nar/gkq544.

7.
8.

TSGDB: a database system for tumor suppressor genes.

Yang Y, Fu LM.

Bioinformatics. 2003 Nov 22;19(17):2311-2.

PMID:
14630661
9.

Gene clustering by latent semantic indexing of MEDLINE abstracts.

Homayouni R, Heinrich K, Wei L, Berry MW.

Bioinformatics. 2005 Jan 1;21(1):104-15. Epub 2004 Aug 12.

PMID:
15308538
10.

MedlineR: an open source library in R for Medline literature data mining.

Lin SM, McConnell P, Johnson KF, Shoemaker J.

Bioinformatics. 2004 Dec 12;20(18):3659-61. Epub 2004 Jul 29.

PMID:
15284107
11.

The Pathway Tools software.

Karp PD, Paley S, Romero P.

Bioinformatics. 2002;18 Suppl 1:S225-32.

PMID:
12169551
12.

CLENCH: a program for calculating Cluster ENriCHment using the Gene Ontology.

Shah NH, Fedoroff NV.

Bioinformatics. 2004 May 1;20(7):1196-7. Epub 2004 Feb 5.

PMID:
14764555
13.

Automatic term list generation for entity tagging.

Sandler T, Schein AI, Ungar LH.

Bioinformatics. 2006 Mar 15;22(6):651-7. Epub 2005 Oct 25.

PMID:
16249261
14.
15.

Automatically identifying gene/protein terms in MEDLINE abstracts.

Yu H, Hatzivassiloglou V, Rzhetsky A, Wilbur WJ.

J Biomed Inform. 2002 Oct-Dec;35(5-6):322-30.

PMID:
12968781
16.
17.

FACTA: a text search engine for finding associated biomedical concepts.

Tsuruoka Y, Tsujii J, Ananiadou S.

Bioinformatics. 2008 Nov 1;24(21):2559-60. doi: 10.1093/bioinformatics/btn469. Epub 2008 Sep 4.

18.

Using the biological taxonomy to access biological literature with PathBinderH.

Ding J, Viswanathan K, Berleant D, Hughes L, Wurtele ES, Ashlock D, Dickerson JA, Fulmer A, Schnable PS.

Bioinformatics. 2005 May 15;21(10):2560-2. Epub 2005 Mar 15.

PMID:
15769838
20.

A protocol for the update of references to scientific literature in biological databases.

Perez-Iratxeta C, Astola N, Ciccarelli FD, Sha PK, Bork P, Andrade MA.

Appl Bioinformatics. 2003;2(3):189-91.

PMID:
15130808

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