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Results: 18

1.

Fast and accurate short read alignment with Burrows-Wheeler transform.

Li H, Durbin R.

Bioinformatics. 2009 Jul 15;25(14):1754-60. doi: 10.1093/bioinformatics/btp324. Epub 2009 May 18.

PMID:
19451168
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

A survey of sequence alignment algorithms for next-generation sequencing.

Li H, Homer N.

Brief Bioinform. 2010 Sep;11(5):473-83. doi: 10.1093/bib/bbq015. Epub 2010 May 11. Review.

PMID:
20460430
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

Sense from sequence reads: methods for alignment and assembly.

Flicek P, Birney E.

Nat Methods. 2009 Nov;6(11 Suppl):S6-S12. doi: 10.1038/nmeth.1376. Review.

PMID:
19844229
[PubMed - indexed for MEDLINE]
4.

De novo assembly of short sequence reads.

Paszkiewicz K, Studholme DJ.

Brief Bioinform. 2010 Sep;11(5):457-72. doi: 10.1093/bib/bbq020. Epub 2010 Aug 19. Review.

PMID:
20724458
[PubMed - indexed for MEDLINE]
Free Article
5.

De novo sequencing of plant genomes using second-generation technologies.

Imelfort M, Edwards D.

Brief Bioinform. 2009 Nov;10(6):609-18. doi: 10.1093/bib/bbp039. Review.

PMID:
19933209
[PubMed - indexed for MEDLINE]
Free Article
6.

Computational methods for discovering structural variation with next-generation sequencing.

Medvedev P, Stanciu M, Brudno M.

Nat Methods. 2009 Nov;6(11 Suppl):S13-20. doi: 10.1038/nmeth.1374. Review.

PMID:
19844226
[PubMed - indexed for MEDLINE]
7.

Paired-end genomic signature tags: a method for the functional analysis of genomes and epigenomes.

Dunn JJ, McCorkle SR, Everett L, Anderson CW.

Genet Eng (N Y). 2007;28:159-73. Review.

PMID:
17153938
[PubMed - indexed for MEDLINE]
8.

Computation for ChIP-seq and RNA-seq studies.

Pepke S, Wold B, Mortazavi A.

Nat Methods. 2009 Nov;6(11 Suppl):S22-32. doi: 10.1038/nmeth.1371. Review.

PMID:
19844228
[PubMed - indexed for MEDLINE]
9.

Next-generation gap.

McPherson JD.

Nat Methods. 2009 Nov;6(11 Suppl):S2-5. doi: 10.1038/nmeth.f.268. Review.

PMID:
19844227
[PubMed - indexed for MEDLINE]
10.

Finding homologs to nucleotide sequences using network BLAST searches.

Ladunga I.

Curr Protoc Bioinformatics. 2002 Aug;Chapter 3:Unit 3.3. doi: 10.1002/0471250953.bi0303s00. Review.

PMID:
18792938
[PubMed - indexed for MEDLINE]
11.

Genome sequence data: management, storage, and visualization.

Batley J, Edwards D.

Biotechniques. 2009 Apr;46(5):333-4, 336. doi: 10.2144/000113134. Review.

PMID:
19480628
[PubMed - indexed for MEDLINE]
Free Article
12.

A space-efficient construction of the Burrows-Wheeler transform for genomic data.

Lippert RA, Mobarry CM, Walenz BP.

J Comput Biol. 2005 Sep;12(7):943-51. Review.

PMID:
16201914
[PubMed - indexed for MEDLINE]
13.

Large scale sequencing.

Stein L.

Curr Protoc Bioinformatics. 2003 Aug;Chapter 11:Unit11.1. doi: 10.1002/0471250953.bi1101s02. Review.

PMID:
18428694
[PubMed - indexed for MEDLINE]
14.

Single-molecule DNA sequencing technologies for future genomics research.

Gupta PK.

Trends Biotechnol. 2008 Nov;26(11):602-11. doi: 10.1016/j.tibtech.2008.07.003. Epub 2008 Aug 21. Review.

PMID:
18722683
[PubMed - indexed for MEDLINE]
15.

The Sanger FASTQ file format for sequences with quality scores, and the Solexa/Illumina FASTQ variants.

Cock PJ, Fields CJ, Goto N, Heuer ML, Rice PM.

Nucleic Acids Res. 2010 Apr;38(6):1767-71. doi: 10.1093/nar/gkp1137. Epub 2009 Dec 16. Review.

PMID:
20015970
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

Space-efficient whole genome comparisons with Burrows-Wheeler transforms.

Lippert RA.

J Comput Biol. 2005 May;12(4):407-15. Review.

PMID:
15882139
[PubMed - indexed for MEDLINE]
17.

Next-generation sequencing: from basic research to diagnostics.

Voelkerding KV, Dames SA, Durtschi JD.

Clin Chem. 2009 Apr;55(4):641-58. doi: 10.1373/clinchem.2008.112789. Epub 2009 Feb 26. Review.

PMID:
19246620
[PubMed - indexed for MEDLINE]
Free Article
18.

An overview of sequence similarity ("homology") searching.

Davison DB.

Curr Protoc Bioinformatics. 2002 Aug;Chapter 3:Unit 3.1. doi: 10.1002/0471250953.bi0301s00. Review.

PMID:
18792936
[PubMed - indexed for MEDLINE]

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