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Results: 1 to 20 of 162

1.

Using several pair-wise informant sequences for de novo prediction of alternatively spliced transcripts.

Flicek P, Brent MR.

Genome Biol. 2006;7 Suppl 1:S8.1-9. Epub 2006 Aug 7.

PMID:
16925842
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

AceView: a comprehensive cDNA-supported gene and transcripts annotation.

Thierry-Mieg D, Thierry-Mieg J.

Genome Biol. 2006;7 Suppl 1:S12.1-14. Epub 2006 Aug 7.

PMID:
16925834
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

AUGUSTUS at EGASP: using EST, protein and genomic alignments for improved gene prediction in the human genome.

Stanke M, Tzvetkova A, Morgenstern B.

Genome Biol. 2006;7 Suppl 1:S11.1-8. Epub 2006 Aug 7.

PMID:
16925833
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

GENCODE: producing a reference annotation for ENCODE.

Harrow J, Denoeud F, Frankish A, Reymond A, Chen CK, Chrast J, Lagarde J, Gilbert JG, Storey R, Swarbreck D, Rossier C, Ucla C, Hubbard T, Antonarakis SE, Guigo R.

Genome Biol. 2006;7 Suppl 1:S4.1-9. Epub 2006 Aug 7.

PMID:
16925838
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Pairagon+N-SCAN_EST: a model-based gene annotation pipeline.

Arumugam M, Wei C, Brown RH, Brent MR.

Genome Biol. 2006;7 Suppl 1:S5.1-10. Epub 2006 Aug 7.

PMID:
16925839
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

RASE: recognition of alternatively spliced exons in C.elegans.

Rätsch G, Sonnenburg S, Schölkopf B.

Bioinformatics. 2005 Jun;21 Suppl 1:i369-77.

PMID:
15961480
[PubMed - indexed for MEDLINE]
Free Article
7.

Improving the specificity of exon prediction using comparative genomics.

Wu J.

BMC Genomics. 2008 Sep 16;9 Suppl 2:S13. doi: 10.1186/1471-2164-9-S2-S13.

PMID:
18831778
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

ECgene: genome annotation for alternative splicing.

Kim P, Kim N, Lee Y, Kim B, Shin Y, Lee S.

Nucleic Acids Res. 2005 Jan 1;33(Database issue):D75-9.

PMID:
15608289
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

EGASP: the human ENCODE Genome Annotation Assessment Project.

Guigó R, Flicek P, Abril JF, Reymond A, Lagarde J, Denoeud F, Antonarakis S, Ashburner M, Bajic VB, Birney E, Castelo R, Eyras E, Ucla C, Gingeras TR, Harrow J, Hubbard T, Lewis SE, Reese MG.

Genome Biol. 2006;7 Suppl 1:S2.1-31. Epub 2006 Aug 7. Review.

PMID:
16925836
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Alternative splicing and differential gene expression in colon cancer detected by a whole genome exon array.

Gardina PJ, Clark TA, Shimada B, Staples MK, Yang Q, Veitch J, Schweitzer A, Awad T, Sugnet C, Dee S, Davies C, Williams A, Turpaz Y.

BMC Genomics. 2006 Dec 27;7:325.

PMID:
17192196
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

Using ESTs to improve the accuracy of de novo gene prediction.

Wei C, Brent MR.

BMC Bioinformatics. 2006 Jul 3;7:327.

PMID:
16817966
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Non-EST-based prediction of novel alternatively spliced cassette exons with cell signaling function in Caenorhabditis elegans and human.

Leparc GG, Mitra RD.

Nucleic Acids Res. 2007;35(10):3192-202. Epub 2007 Apr 22.

PMID:
17452356
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Changes in alternative splicing of human and mouse genes are accompanied by faster evolution of constitutive exons.

Cusack BP, Wolfe KH.

Mol Biol Evol. 2005 Nov;22(11):2198-208. Epub 2005 Jul 27.

PMID:
16049198
[PubMed - indexed for MEDLINE]
Free Article
14.

Automatic annotation of eukaryotic genes, pseudogenes and promoters.

Solovyev V, Kosarev P, Seledsov I, Vorobyev D.

Genome Biol. 2006;7 Suppl 1:S10.1-12. Epub 2006 Aug 7.

PMID:
16925832
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Genome-wide assembly and analysis of alternative transcripts in mouse.

Sharov AA, Dudekula DB, Ko MS.

Genome Res. 2005 May;15(5):748-54.

PMID:
15867436
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

Full-length messenger RNA sequences greatly improve genome annotation.

Haas BJ, Volfovsky N, Town CD, Troukhan M, Alexandrov N, Feldmann KA, Flavell RB, White O, Salzberg SL.

Genome Biol. 2002;3(6):RESEARCH0029. Epub 2002 May 30.

PMID:
12093376
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

Gene and alternative splicing annotation with AIR.

Florea L, Di Francesco V, Miller J, Turner R, Yao A, Harris M, Walenz B, Mobarry C, Merkulov GV, Charlab R, Dew I, Deng Z, Istrail S, Li P, Sutton G.

Genome Res. 2005 Jan;15(1):54-66.

PMID:
15632090
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

Annotation of the Drosophila melanogaster euchromatic genome: a systematic review.

Misra S, Crosby MA, Mungall CJ, Matthews BB, Campbell KS, Hradecky P, Huang Y, Kaminker JS, Millburn GH, Prochnik SE, Smith CD, Tupy JL, Whitfied EJ, Bayraktaroglu L, Berman BP, Bettencourt BR, Celniker SE, de Grey AD, Drysdale RA, Harris NL, Richter J, Russo S, Schroeder AJ, Shu SQ, Stapleton M, Yamada C, Ashburner M, Gelbart WM, Rubin GM, Lewis SE.

Genome Biol. 2002;3(12):RESEARCH0083. Epub 2002 Dec 31. Review.

PMID:
12537572
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Comprehensive splicing graph analysis of alternative splicing patterns in chicken, compared to human and mouse.

Chacko E, Ranganathan S.

BMC Genomics. 2009 Jul 7;10 Suppl 1:S5. doi: 10.1186/1471-2164-10-S1-S5.

PMID:
19594882
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

Genome-wide identification of coding and non-coding conserved sequence tags in human and mouse genomes.

Mignone F, Anselmo A, Donvito G, Maggi GP, Grillo G, Pesole G.

BMC Genomics. 2008 Jun 11;9:277. doi: 10.1186/1471-2164-9-277.

PMID:
18547402
[PubMed - indexed for MEDLINE]
Free PMC Article

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