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Results: 1 to 20 of 101

1.

ASPic-GeneID: a lightweight pipeline for gene prediction and alternative isoforms detection.

Alioto T, Picardi E, Guigó R, Pesole G.

Biomed Res Int. 2013;2013:502827. doi: 10.1155/2013/502827. Epub 2013 Nov 7.

PMID:
24308000
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

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
3.
4.

Evidence-based gene predictions in plant genomes.

Liang C, Mao L, Ware D, Stein L.

Genome Res. 2009 Oct;19(10):1912-23. doi: 10.1101/gr.088997.108. Epub 2009 Jun 18.

PMID:
19541913
[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.

Gene models from ESTs (GeneModelEST): an application on the Solanum lycopersicum genome.

D'Agostino N, Traini A, Frusciante L, Chiusano ML.

BMC Bioinformatics. 2007 Mar 8;8 Suppl 1:S9.

PMID:
17430576
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

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
8.

ASPIC: a novel method to predict the exon-intron structure of a gene that is optimally compatible to a set of transcript sequences.

Bonizzoni P, Rizzi R, Pesole G.

BMC Bioinformatics. 2005 Oct 5;6:244.

PMID:
16207377
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Ab initio gene finding in Drosophila genomic DNA.

Salamov AA, Solovyev VV.

Genome Res. 2000 Apr;10(4):516-22.

PMID:
10779491
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Genome annotation assessment in Drosophila melanogaster.

Reese MG, Hartzell G, Harris NL, Ohler U, Abril JF, Lewis SE.

Genome Res. 2000 Apr;10(4):483-501.

PMID:
10779488
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

Integrating alternative splicing detection into gene prediction.

Foissac S, Schiex T.

BMC Bioinformatics. 2005 Feb 10;6:25.

PMID:
15705189
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

nGASP--the nematode genome annotation assessment project.

Coghlan A, Fiedler TJ, McKay SJ, Flicek P, Harris TW, Blasiar D; nGASP Consortium, Stein LD.

BMC Bioinformatics. 2008 Dec 19;9:549. doi: 10.1186/1471-2105-9-549.

PMID:
19099578
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

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
14.

VIGOR, an annotation program for small viral genomes.

Wang S, Sundaram JP, Spiro D.

BMC Bioinformatics. 2010 Sep 7;11:451. doi: 10.1186/1471-2105-11-451.

PMID:
20822531
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Gene prediction and verification in a compact genome with numerous small introns.

Tenney AE, Brown RH, Vaske C, Lodge JK, Doering TL, Brent MR.

Genome Res. 2004 Nov;14(11):2330-5. Epub 2004 Oct 12.

PMID:
15479946
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

Efficient plant gene identification based on interspecies mapping of full-length cDNAs.

Amano N, Tanaka T, Numa H, Sakai H, Itoh T.

DNA Res. 2010 Oct;17(5):271-9. doi: 10.1093/dnares/dsq017. Epub 2010 Jul 28.

PMID:
20668003
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

Improving the Caenorhabditis elegans genome annotation using machine learning.

Rätsch G, Sonnenburg S, Srinivasan J, Witte H, Müller KR, Sommer RJ, Schölkopf B.

PLoS Comput Biol. 2007 Feb 23;3(2):e20. Epub 2006 Dec 21.

PMID:
17319737
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

PIntron: a fast method for detecting the gene structure due to alternative splicing via maximal pairings of a pattern and a text.

Pirola Y, Rizzi R, Picardi E, Pesole G, Della Vedova G, Bonizzoni P.

BMC Bioinformatics. 2012 Apr 12;13 Suppl 5:S2. doi: 10.1186/1471-2105-13-S5-S2.

PMID:
22537006
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Gene finding in the chicken genome.

Eyras E, Reymond A, Castelo R, Bye JM, Camara F, Flicek P, Huckle EJ, Parra G, Shteynberg DD, Wyss C, Rogers J, Antonarakis SE, Birney E, Guigo R, Brent MR.

BMC Bioinformatics. 2005 May 30;6:131.

PMID:
15924626
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

cDNA sequences reveal considerable gene prediction inaccuracy in the Plasmodium falciparum genome.

Lu F, Jiang H, Ding J, Mu J, Valenzuela JG, Ribeiro JM, Su XZ.

BMC Genomics. 2007 Jul 27;8:255.

PMID:
17662120
[PubMed - indexed for MEDLINE]
Free PMC Article

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