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Results: 1 to 20 of 41

1.

Cpipe: a shared variant detection pipeline designed for diagnostic settings.

Sadedin SP, Dashnow H, James PA, Bahlo M, Bauer DC, Lonie A, Lunke S, Macciocca I, Ross JP, Siemering KR, Stark Z, White SM; Melbourne Genomics Health Alliance, Taylor G, Gaff C, Oshlack A, Thorne NP.

Genome Med. 2015 Jul 10;7(1):68. doi: 10.1186/s13073-015-0191-x. eCollection 2015.

2.

JAFFA: High sensitivity transcriptome-focused fusion gene detection.

Davidson NM, Majewski IJ, Oshlack A.

Genome Med. 2015 May 11;7(1):43. doi: 10.1186/s13073-015-0167-x. eCollection 2015.

3.

Removing unwanted variation in a differential methylation analysis of Illumina HumanMethylation450 array data.

Maksimovic J, Gagnon-Bartsch JA, Speed TP, Oshlack A.

Nucleic Acids Res. 2015 May 18. pii: gkv526. [Epub ahead of print]

4.

Purification and Transcriptomic Analysis of Mouse Fetal Leydig Cells Reveals Candidate Genes for Specification of Gonadal Steroidogenic Cells.

McClelland KS, Bell K, Larney C, Harley VR, Sinclair AH, Oshlack A, Koopman P, Bowles J.

Biol Reprod. 2015 Jun;92(6):145. doi: 10.1095/biolreprod.115.128918. Epub 2015 Apr 8.

PMID:
25855264
5.

Jarid2 regulates hematopoietic stem cell function by acting with polycomb repressive complex 2.

Kinkel SA, Galeev R, Flensburg C, Keniry A, Breslin K, Gilan O, Lee S, Liu J, Chen K, Gearing LJ, Moore DL, Alexander WS, Dawson M, Majewski IJ, Oshlack A, Larsson J, Blewitt ME.

Blood. 2015 Mar 19;125(12):1890-900. doi: 10.1182/blood-2014-10-603969. Epub 2015 Feb 2.

6.

A comparison of control samples for ChIP-seq of histone modifications.

Flensburg C, Kinkel SA, Keniry A, Blewitt ME, Oshlack A.

Front Genet. 2014 Sep 25;5:329. doi: 10.3389/fgene.2014.00329. eCollection 2014.

7.

DiffVar: a new method for detecting differential variability with application to methylation in cancer and aging.

Phipson B, Oshlack A.

Genome Biol. 2014 Sep 23;15(9):465. doi: 10.1186/s13059-014-0465-4.

8.

Corset: enabling differential gene expression analysis for de novo assembled transcriptomes.

Davidson NM, Oshlack A.

Genome Biol. 2014 Jul 26;15(7):410. doi: 10.1186/s13059-014-0410-6.

9.

The polycomb repressive complex 2 governs life and death of peripheral T cells.

Zhang Y, Kinkel S, Maksimovic J, Bandala-Sanchez E, Tanzer MC, Naselli G, Zhang JG, Zhan Y, Lew AM, Silke J, Oshlack A, Blewitt ME, Harrison LC.

Blood. 2014 Jul 31;124(5):737-49. doi: 10.1182/blood-2013-12-544106. Epub 2014 Jun 20.

10.

Identification, expression, and regulation of anti-M├╝llerian hormone type-II receptor in the embryonic chicken gonad.

Cutting AD, Ayers K, Davidson N, Oshlack A, Doran T, Sinclair AH, Tizard M, Smith CA.

Biol Reprod. 2014 May;90(5):106. doi: 10.1095/biolreprod.113.116491. Epub 2014 Mar 12.

11.

Susceptibility to acute rheumatic fever based on differential expression of genes involved in cytotoxicity, chemotaxis, and apoptosis.

Bryant PA, Smyth GK, Gooding T, Oshlack A, Harrington Z, Currie B, Carapetis JR, Robins-Browne R, Curtis N.

Infect Immun. 2014 Feb;82(2):753-61. doi: 10.1128/IAI.01152-13. Epub 2013 Dec 2.

12.

Analysis of epigenetic changes in survivors of preterm birth reveals the effect of gestational age and evidence for a long term legacy.

Cruickshank MN, Oshlack A, Theda C, Davis PG, Martino D, Sheehan P, Dai Y, Saffery R, Doyle LW, Craig JM.

Genome Med. 2013 Oct 18;5(10):96. doi: 10.1186/gm500. eCollection 2013.

13.

Condensin I associates with structural and gene regulatory regions in vertebrate chromosomes.

Kim JH, Zhang T, Wong NC, Davidson N, Maksimovic J, Oshlack A, Earnshaw WC, Kalitsis P, Hudson DF.

Nat Commun. 2013;4:2537. doi: 10.1038/ncomms3537.

14.

Cell-type-specific transcriptional profiles of the dimorphic pathogen Penicillium marneffei reflect distinct reproductive, morphological, and environmental demands.

Pasricha S, Payne M, Canovas D, Pase L, Ngaosuwankul N, Beard S, Oshlack A, Smyth GK, Chaiyaroj SC, Boyce KJ, Andrianopoulos A.

G3 (Bethesda). 2013 Nov 6;3(11):1997-2014. doi: 10.1534/g3.113.006809.

15.

Genome-wide DNA methylation analysis identifies hypomethylated genes regulated by FOXP3 in human regulatory T cells.

Zhang Y, Maksimovic J, Naselli G, Qian J, Chopin M, Blewitt ME, Oshlack A, Harrison LC.

Blood. 2013 Oct 17;122(16):2823-36. doi: 10.1182/blood-2013-02-481788. Epub 2013 Aug 23.

16.

Identification of recurrent FGFR3 fusion genes in lung cancer through kinome-centred RNA sequencing.

Majewski IJ, Mittempergher L, Davidson NM, Bosma A, Willems SM, Horlings HM, de Rink I, Greger L, Hooijer GK, Peters D, Nederlof PM, Hofland I, de Jong J, Wesseling J, Kluin RJ, Brugman W, Kerkhoven R, Nieboer F, Roepman P, Broeks A, Muley TR, Jassem J, Niklinski J, van Zandwijk N, Brazma A, Oshlack A, van den Heuvel M, Bernards R.

J Pathol. 2013 Jul;230(3):270-6. doi: 10.1002/path.4209.

PMID:
23661334
17.

Sixty years of genome biology.

Doolittle WF, Fraser P, Gerstein MB, Graveley BR, Henikoff S, Huttenhower C, Oshlack A, Ponting CP, Rinn JL, Schatz MC, Ule J, Weigel D, Weinstock GM.

Genome Biol. 2013 Apr 25;14(4):113. doi: 10.1186/gb-2013-14-4-113.

18.

miRNA-Seq normalization comparisons need improvement.

Zhou X, Oshlack A, Robinson MD.

RNA. 2013 Jun;19(6):733-4. doi: 10.1261/rna.037895.112. Epub 2013 Apr 24. No abstract available.

19.

RNA sequencing reveals sexually dimorphic gene expression before gonadal differentiation in chicken and allows comprehensive annotation of the W-chromosome.

Ayers KL, Davidson NM, Demiyah D, Roeszler KN, Gr├╝tzner F, Sinclair AH, Oshlack A, Smith CA.

Genome Biol. 2013 Mar 25;14(3):R26. doi: 10.1186/gb-2013-14-3-r26.

20.

A 10-step guide to party conversation for bioinformaticians.

Oshlack A.

Genome Biol. 2013 Jan 29;14(1):104. doi: 10.1186/gb-2013-14-1-104. No abstract available.

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