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Results: 1 to 20 of 315

1.

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
2.
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.

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
5.

Characterization of 954 bovine full-CDS cDNA sequences.

Harhay GP, Sonstegard TS, Keele JW, Heaton MP, Clawson ML, Snelling WM, Wiedmann RT, Van Tassell CP, Smith TP.

BMC Genomics. 2005 Nov 23;6:166.

PMID:
16305752
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Exogean: a framework for annotating protein-coding genes in eukaryotic genomic DNA.

Djebali S, Delaplace F, Roest Crollius H.

Genome Biol. 2006;7 Suppl 1:S7.1-10. Epub 2006 Aug 7.

PMID:
16925841
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

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
8.

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
9.

Pairagon: a highly accurate, HMM-based cDNA-to-genome aligner.

Lu DV, Brown RH, Arumugam M, Brent MR.

Bioinformatics. 2009 Jul 1;25(13):1587-93. doi: 10.1093/bioinformatics/btp273. Epub 2009 May 4.

PMID:
19414532
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

[Correction of five different types of errors of model REFSEQs appeared in NCBI human gene database only by using two novel human genes C17orf32 and ZNF362].

Zhang DL, Li YD, Ji L.

Yi Chuan Xue Bao. 2004 Apr;31(4):325-34. Chinese.

PMID:
15487498
[PubMed - indexed for MEDLINE]
11.

Analysis of EST-driven gene annotation in human genomic sequence.

Bailey LC Jr, Searls DB, Overton GC.

Genome Res. 1998 Apr;8(4):362-76.

PMID:
9548972
[PubMed - indexed for MEDLINE]
Free Article
12.

Bridging expressed sequence alignments through targeted cDNA sequencing.

Xie H, Diber A, Pollock S, Nemzer S, Safer H, Meloon B, Olson A, Hwang JJ, Endress GA, Savitsky K, Gill-More R.

Genomics. 2004 Apr;83(4):572-6.

PMID:
15028280
[PubMed - indexed for MEDLINE]
13.

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
14.

JUICE: a data management system that facilitates the analysis of large volumes of information in an EST project workflow.

Latorre M, Silva H, Saba J, Guziolowski C, Vizoso P, Martinez V, Maldonado J, Morales A, Caroca R, Cambiazo V, Campos-Vargas R, Gonzalez M, Orellana A, Retamales J, Meisel LA.

BMC Bioinformatics. 2006 Nov 23;7:513.

PMID:
17123449
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Combining transcriptome data with genomic and cDNA sequence alignments to make confident functional assignments for Aspergillus nidulans genes.

Sims AH, Gent ME, Robson GD, Dunn-Coleman NS, Oliver SG.

Mycol Res. 2004 Aug;108(Pt 8):853-7.

PMID:
15449589
[PubMed - indexed for MEDLINE]
16.

OrthoSelect: a protocol for selecting orthologous groups in phylogenomics.

Schreiber F, Pick K, Erpenbeck D, Wörheide G, Morgenstern B.

BMC Bioinformatics. 2009 Jul 16;10:219. doi: 10.1186/1471-2105-10-219.

PMID:
19607672
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

JIGSAW: integration of multiple sources of evidence for gene prediction.

Allen JE, Salzberg SL.

Bioinformatics. 2005 Sep 15;21(18):3596-603. Epub 2005 Aug 2.

PMID:
16076884
[PubMed - indexed for MEDLINE]
Free Article
18.

transAlign: using amino acids to facilitate the multiple alignment of protein-coding DNA sequences.

Bininda-Emonds OR.

BMC Bioinformatics. 2005 Jun 22;6:156.

PMID:
15969769
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Analysis of bovine mammary gland EST and functional annotation of the Bos taurus gene index.

Sonstegard TS, Capuco AV, White J, Van Tassell CP, Connor EE, Cho J, Sultana R, Shade L, Wray JE, Wells KD, Quackenbush J.

Mamm Genome. 2002 Jul;13(7):373-9.

PMID:
12140684
[PubMed - indexed for MEDLINE]
20.

e2g: an interactive web-based server for efficiently mapping large EST and cDNA sets to genomic sequences.

Krüger J, Sczyrba A, Kurtz S, Giegerich R.

Nucleic Acids Res. 2004 Jul 1;32(Web Server issue):W301-4.

PMID:
15215398
[PubMed - indexed for MEDLINE]
Free PMC Article

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