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Items: 1 to 20 of 100

1.

Spidey: a tool for mRNA-to-genomic alignments.

Wheelan SJ, Church DM, Ostell JM.

Genome Res. 2001 Nov;11(11):1952-7.

3.

PALMA: mRNA to genome alignments using large margin algorithms.

Schulze U, Hepp B, Ong CS, Rätsch G.

Bioinformatics. 2007 Aug 1;23(15):1892-900. Epub 2007 May 30.

PMID:
17537755
4.

GMAP: a genomic mapping and alignment program for mRNA and EST sequences.

Wu TD, Watanabe CK.

Bioinformatics. 2005 May 1;21(9):1859-75. Epub 2005 Feb 22.

PMID:
15728110
5.

Splign: algorithms for computing spliced alignments with identification of paralogs.

Kapustin Y, Souvorov A, Tatusova T, Lipman D.

Biol Direct. 2008 May 21;3:20. doi: 10.1186/1745-6150-3-20.

6.

MGAlignIt: A web service for the alignment of mRNA/EST and genomic sequences.

Lee BT, Tan TW, Ranganathan S.

Nucleic Acids Res. 2003 Jul 1;31(13):3533-6.

7.

A space-efficient and accurate method for mapping and aligning cDNA sequences onto genomic sequence.

Gotoh O.

Nucleic Acids Res. 2008 May;36(8):2630-8. doi: 10.1093/nar/gkn105. Epub 2008 Mar 15.

8.

ASmodeler: gene modeling of alternative splicing from genomic alignment of mRNA, EST and protein sequences.

Kim N, Shin S, Lee S.

Nucleic Acids Res. 2004 Jul 1;32(Web Server issue):W181-6.

9.

EST_GENOME: a program to align spliced DNA sequences to unspliced genomic DNA.

Mott R.

Comput Appl Biosci. 1997 Aug;13(4):477-8. No abstract available.

PMID:
9283765
11.

Improved spliced alignment from an information theoretic approach.

Zhang M, Gish W.

Bioinformatics. 2006 Jan 1;22(1):13-20. Epub 2005 Nov 2.

PMID:
16267086
12.

MapNext: a software tool for spliced and unspliced alignments and SNP detection of short sequence reads.

Bao H, Xiong Y, Guo H, Zhou R, Lu X, Yang Z, Zhong Y, Shi S.

BMC Genomics. 2009 Dec 3;10 Suppl 3:S13. doi: 10.1186/1471-2164-10-S3-S13.

13.

ABC: software for interactive browsing of genomic multiple sequence alignment data.

Cooper GM, Singaravelu SA, Sidow A.

BMC Bioinformatics. 2004 Dec 8;5:192.

14.

Gene structure prediction from consensus spliced alignment of multiple ESTs matching the same genomic locus.

Brendel V, Xing L, Zhu W.

Bioinformatics. 2004 May 1;20(7):1157-69. Epub 2004 Feb 5.

PMID:
14764557
15.

Gene recognition in eukaryotic DNA by comparison of genomic sequences.

Novichkov PS, Gelfand MS, Mironov AA.

Bioinformatics. 2001 Nov;17(11):1011-8.

PMID:
11724729
16.

Exploratory analysis of multiple sequence alignments using phylogenies.

Golding B.

Comput Appl Biosci. 1994 Jun;10(3):243-7.

PMID:
7922679
17.

NcDNAlign: plausible multiple alignments of non-protein-coding genomic sequences.

Rose D, Hertel J, Reiche K, Stadler PF, Hackermüller J.

Genomics. 2008 Jul;92(1):65-74. doi: 10.1016/j.ygeno.2008.04.003. Epub 2008 Jun 3.

18.

Searching for evolutionary distant RNA homologs within genomic sequences using partition function posterior probabilities.

Roshan U, Chikkagoudar S, Livesay DR.

BMC Bioinformatics. 2008 Jan 28;9:61. doi: 10.1186/1471-2105-9-61.

19.
20.

Annotating regulatory DNA based on man-mouse genomic comparison.

Dieterich C, Cusack B, Wang H, Rateitschak K, Krause A, Vingron M.

Bioinformatics. 2002;18 Suppl 2:S84-90.

PMID:
12385988

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