R01 HG006102-01/HG/NHGRI NIH HHS/United States[Grant Number] - Search Results

Year	Number of Results
2011	5
2012	4
2022	0

1

Fast gapped-read alignment with Bowtie 2.

Langmead B, Salzberg SL. Langmead B, et al. Nat Methods. 2012 Mar 4;9(4):357-9. doi: 10.1038/nmeth.1923. Nat Methods. 2012. PMID: 22388286 Free PMC article.

2

Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks.

Trapnell C, Roberts A, Goff L, Pertea G, Kim D, Kelley DR, Pimentel H, Salzberg SL, Rinn JL, Pachter L. Trapnell C, et al. Nat Protoc. 2012 Mar 1;7(3):562-78. doi: 10.1038/nprot.2012.016. Nat Protoc. 2012. PMID: 22383036 Free PMC article.

3

Repetitive DNA and next-generation sequencing: computational challenges and solutions.

Treangen TJ, Salzberg SL. Treangen TJ, et al. Nat Rev Genet. 2011 Nov 29;13(1):36-46. doi: 10.1038/nrg3117. Nat Rev Genet. 2011. PMID: 22124482 Free PMC article. Review.

4

TopHat-Fusion: an algorithm for discovery of novel fusion transcripts.

Kim D, Salzberg SL. Kim D, et al. Genome Biol. 2011 Aug 11;12(8):R72. doi: 10.1186/gb-2011-12-8-r72. Genome Biol. 2011. PMID: 21835007 Free PMC article.

5

PhymmBL expanded: confidence scores, custom databases, parallelization and more.

Brady A, Salzberg S. Brady A, et al. Nat Methods. 2011 May;8(5):367. doi: 10.1038/nmeth0511-367. Nat Methods. 2011. PMID: 21527926 Free PMC article. No abstract available.

6

Gene prediction with Glimmer for metagenomic sequences augmented by classification and clustering.

Kelley DR, Liu B, Delcher AL, Pop M, Salzberg SL. Kelley DR, et al. Nucleic Acids Res. 2012 Jan;40(1):e9. doi: 10.1093/nar/gkr1067. Epub 2011 Nov 18. Nucleic Acids Res. 2012. PMID: 22102569 Free PMC article.

7

GAGE: A critical evaluation of genome assemblies and assembly algorithms.

Salzberg SL, Phillippy AM, Zimin A, Puiu D, Magoc T, Koren S, Treangen TJ, Schatz MC, Delcher AL, Roberts M, Marçais G, Pop M, Yorke JA. Salzberg SL, et al. Genome Res. 2012 Mar;22(3):557-67. doi: 10.1101/gr.131383.111. Epub 2012 Jan 6. Genome Res. 2012. PMID: 22147368 Free PMC article.

8

Complete Columbian mammoth mitogenome suggests interbreeding with woolly mammoths.

Enk J, Devault A, Debruyne R, King CE, Treangen T, O'Rourke D, Salzberg SL, Fisher D, MacPhee R, Poinar H. Enk J, et al. Genome Biol. 2011;12(5):R51. doi: 10.1186/gb-2011-12-5-r51. Epub 2011 May 31. Genome Biol. 2011. PMID: 21627792 Free PMC article.

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