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Results: 14

1.

DNA methylation, genotype and gene expression: who is driving and who is along for the ride?

Jones MJ, Fejes AP, Kobor MS.

Genome Biol. 2013 Jul 29;14(7):126. doi: 10.1186/gb-2013-14-7-126.

PMID:
23899167
[PubMed - in process]
Free PMC Article
2.

Identifying cancer mutation targets across thousands of samples: MuteProc, a high throughput mutation analysis pipeline.

Hadj Khodabakhshi A, Fejes AP, Birol I, Jones SJ.

BMC Bioinformatics. 2013 May 28;14:167. doi: 10.1186/1471-2105-14-167.

PMID:
23714400
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

Recurrent targets of aberrant somatic hypermutation in lymphoma.

Khodabakhshi AH, Morin RD, Fejes AP, Mungall AJ, Mungall KL, Bolger-Munro M, Johnson NA, Connors JM, Gascoyne RD, Marra MA, Birol I, Jones SJ.

Oncotarget. 2012 Nov;3(11):1308-19.

PMID:
23131835
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

GPSM2 mutations cause the brain malformations and hearing loss in Chudley-McCullough syndrome.

Doherty D, Chudley AE, Coghlan G, Ishak GE, Innes AM, Lemire EG, Rogers RC, Mhanni AA, Phelps IG, Jones SJ, Zhan SH, Fejes AP, Shahin H, Kanaan M, Akay H, Tekin M; FORGE Canada Consortium, Triggs-Raine B, Zelinski T.

Am J Hum Genet. 2012 Jun 8;90(6):1088-93. doi: 10.1016/j.ajhg.2012.04.008. Epub 2012 May 10. Erratum in: Am J Hum Genet. 2012 Jul 13;91(1):209.

PMID:
22578326
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Recurrent somatic DICER1 mutations in nonepithelial ovarian cancers.

Heravi-Moussavi A, Anglesio MS, Cheng SW, Senz J, Yang W, Prentice L, Fejes AP, Chow C, Tone A, Kalloger SE, Hamel N, Roth A, Ha G, Wan AN, Maines-Bandiera S, Salamanca C, Pasini B, Clarke BA, Lee AF, Lee CH, Zhao C, Young RH, Aparicio SA, Sorensen PH, Woo MM, Boyd N, Jones SJ, Hirst M, Marra MA, Gilks B, Shah SP, Foulkes WD, Morin GB, Huntsman DG.

N Engl J Med. 2012 Jan 19;366(3):234-42. doi: 10.1056/NEJMoa1102903. Epub 2011 Dec 21.

PMID:
22187960
[PubMed - indexed for MEDLINE]
Free Article
6.

Mutations in EZH2 cause Weaver syndrome.

Gibson WT, Hood RL, Zhan SH, Bulman DE, Fejes AP, Moore R, Mungall AJ, Eydoux P, Babul-Hirji R, An J, Marra MA; FORGE Canada Consortium, Chitayat D, Boycott KM, Weaver DD, Jones SJ.

Am J Hum Genet. 2012 Jan 13;90(1):110-8. doi: 10.1016/j.ajhg.2011.11.018. Epub 2011 Dec 15.

PMID:
22177091
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Human variation database: an open-source database template for genomic discovery.

Fejes AP, Khodabakhshi AH, Birol I, Jones SJ.

Bioinformatics. 2011 Apr 15;27(8):1155-6. doi: 10.1093/bioinformatics/btr100. Epub 2011 Mar 2.

PMID:
21367872
[PubMed - indexed for MEDLINE]
Free Article
8.

Gene expression profiling of oxidative stress response of C. elegans aging defective AMPK mutants using massively parallel transcriptome sequencing.

Shin H, Lee H, Fejes AP, Baillie DL, Koo HS, Jones SJ.

BMC Res Notes. 2011 Feb 8;4:34. doi: 10.1186/1756-0500-4-34.

PMID:
21303547
[PubMed]
Free PMC Article
9.

Evolution of an adenocarcinoma in response to selection by targeted kinase inhibitors.

Jones SJ, Laskin J, Li YY, Griffith OL, An J, Bilenky M, Butterfield YS, Cezard T, Chuah E, Corbett R, Fejes AP, Griffith M, Yee J, Martin M, Mayo M, Melnyk N, Morin RD, Pugh TJ, Severson T, Shah SP, Sutcliffe M, Tam A, Terry J, Thiessen N, Thomson T, Varhol R, Zeng T, Zhao Y, Moore RA, Huntsman DG, Birol I, Hirst M, Holt RA, Marra MA.

Genome Biol. 2010;11(8):R82. doi: 10.1186/gb-2010-11-8-r82. Epub 2010 Aug 9.

PMID:
20696054
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

De novo motif identification improves the accuracy of predicting transcription factor binding sites in ChIP-Seq data analysis.

Boeva V, Surdez D, Guillon N, Tirode F, Fejes AP, Delattre O, Barillot E.

Nucleic Acids Res. 2010 Jun;38(11):e126. doi: 10.1093/nar/gkq217. Epub 2010 Apr 7.

PMID:
20375099
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

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.

Genome Res. 2008 Dec;18(12):1906-17. doi: 10.1101/gr.078519.108. Epub 2008 Sep 11.

PMID:
18787082
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

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.

Bioinformatics. 2008 Aug 1;24(15):1729-30. doi: 10.1093/bioinformatics/btn305. Epub 2008 Jul 3.

PMID:
18599518
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Shotgun proteomic analysis of a chromatophore-enriched preparation from the purple phototrophic bacterium Rhodopseudomonas palustris.

Fejes AP, Yi EC, Goodlett DR, Beatty JT.

Photosynth Res. 2003;78(3):195-203.

PMID:
16245051
[PubMed - as supplied by publisher]
14.

A new algorithm for RNA secondary structure design.

Andronescu M, Fejes AP, Hutter F, Hoos HH, Condon A.

J Mol Biol. 2004 Feb 20;336(3):607-24.

PMID:
15095976
[PubMed - indexed for MEDLINE]

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