Jones SJM - Search Results

1

RTNduals: an R/Bioconductor package for analysis of co-regulation and inference of dual regulons.

Chagas VS, Groeneveld CS, Oliveira KG, Trefflich S, de Almeida RC, Ponder BAJ, Meyer KB, Jones SJM, Robertson AG, Castro MAA. Chagas VS, et al. Among authors: jones sjm. Bioinformatics. 2019 Dec 15;35(24):5357-5358. doi: 10.1093/bioinformatics/btz534. Bioinformatics. 2019. PMID: 31250887 Free PMC article.

2

AcePrimer: automation of PCR primer design based on gene structure.

McKay SJ, Jones SJ. McKay SJ, et al. Bioinformatics. 2002 Nov;18(11):1538-9. doi: 10.1093/bioinformatics/18.11.1538. Bioinformatics. 2002. PMID: 12424127

3

Sockeye: a 3D environment for comparative genomics.

Montgomery SB, Astakhova T, Bilenky M, Birney E, Fu T, Hassel M, Melsopp C, Rak M, Robertson AG, Sleumer M, Siddiqui AS, Jones SJ. Montgomery SB, et al. Genome Res. 2004 May;14(5):956-62. doi: 10.1101/gr.1890304. Genome Res. 2004. PMID: 15123592 Free PMC article.

4

An interactive tool for visualization of relationships between gene expression profiles.

Ruzanov P, Jones SJ. Ruzanov P, et al. BMC Bioinformatics. 2006 Apr 6;7:193. doi: 10.1186/1471-2105-7-193. BMC Bioinformatics. 2006. PMID: 16600045 Free PMC article.

5

THOR: targeted high-throughput ortholog reconstructor.

Bainbridge MN, Warren RL, He A, Bilenky M, Robertson AG, Jones SJ. Bainbridge MN, et al. Bioinformatics. 2007 Oct 1;23(19):2622-4. doi: 10.1093/bioinformatics/btl513. Epub 2006 Oct 11. Bioinformatics. 2007. PMID: 17038343

6

The ELT-2 GATA-factor and the global regulation of transcription in the C. elegans intestine.

McGhee JD, Sleumer MC, Bilenky M, Wong K, McKay SJ, Goszczynski B, Tian H, Krich ND, Khattra J, Holt RA, Baillie DL, Kohara Y, Marra MA, Jones SJ, Moerman DG, Robertson AG. McGhee JD, et al. Dev Biol. 2007 Feb 15;302(2):627-45. doi: 10.1016/j.ydbio.2006.10.024. Epub 2006 Oct 21. Dev Biol. 2007. PMID: 17113066 Free article.

7

Assembling millions of short DNA sequences using SSAKE.

Warren RL, Sutton GG, Jones SJ, Holt RA. Warren RL, et al. Bioinformatics. 2007 Feb 15;23(4):500-1. doi: 10.1093/bioinformatics/btl629. Epub 2006 Dec 8. Bioinformatics. 2007. PMID: 17158514 Free PMC article.

8

FindPeaks 3.1: a tool for identifying areas of enrichment from massively parallel short-read sequencing technology.

Fejes AP, Robertson G, Bilenky M, Varhol R, Bainbridge M, Jones SJ. Fejes AP, et al. Bioinformatics. 2008 Aug 1;24(15):1729-30. doi: 10.1093/bioinformatics/btn305. Epub 2008 Jul 3. Bioinformatics. 2008. PMID: 18599518 Free PMC article.

9

Genome-wide relationship between histone H3 lysine 4 mono- and tri-methylation and transcription factor binding.

Robertson AG, Bilenky M, Tam A, Zhao Y, Zeng T, Thiessen N, Cezard T, Fejes AP, Wederell ED, Cullum R, Euskirchen G, Krzywinski M, Birol I, Snyder M, Hoodless PA, Hirst M, Marra MA, Jones SJ. Robertson AG, et al. Genome Res. 2008 Dec;18(12):1906-17. doi: 10.1101/gr.078519.108. Epub 2008 Sep 11. Genome Res. 2008. PMID: 18787082 Free PMC article.

10

De novo transcriptome assembly with ABySS.

Birol I, Jackman SD, Nielsen CB, Qian JQ, Varhol R, Stazyk G, Morin RD, Zhao Y, Hirst M, Schein JE, Horsman DE, Connors JM, Gascoyne RD, Marra MA, Jones SJ. Birol I, et al. Bioinformatics. 2009 Nov 1;25(21):2872-7. doi: 10.1093/bioinformatics/btp367. Epub 2009 Jun 15. Bioinformatics. 2009. PMID: 19528083

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