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Items: 25

1.

The mTOR-S6K pathway links growth signalling to DNA damage response by targeting RNF168.

Xie X, Hu H, Tong X, Li L, Liu X, Chen M, Yuan H, Xie X, Li Q, Zhang Y, Ouyang H, Wei M, Huang J, Liu P, Gan W, Liu Y, Xie A, Kuai X, Chirn GW, Zhou H, Zeng R, Hu R, Qin J, Meng FL, Wei W, Ji H, Gao D.

Nat Cell Biol. 2018 Mar;20(3):320-331. doi: 10.1038/s41556-017-0033-8. Epub 2018 Feb 5.

2.

Comprehensive genomic profiling of different subtypes of nasopharyngeal carcinoma reveals similarities and differences to guide targeted therapy.

Ali SM, Yao M, Yao J, Wang J, Cheng Y, Schrock AB, Chirn GW, Chen H, Mu S, Gay L, Elvin JA, Suh J, Miller VA, Stephens PJ, Ross JS, Wang K.

Cancer. 2017 Sep 15;123(18):3628-3637. doi: 10.1002/cncr.30781. Epub 2017 Jun 5.

3.

Xenopus Piwi proteins interact with a broad proportion of the oocyte transcriptome.

Toombs JA, Sytnikova YA, Chirn GW, Ang I, Lau NC, Blower MD.

RNA. 2017 Apr;23(4):504-520. doi: 10.1261/rna.058859.116. Epub 2016 Dec 28.

4.

Conserved piRNA Expression from a Distinct Set of piRNA Cluster Loci in Eutherian Mammals.

Chirn GW, Rahman R, Sytnikova YA, Matts JA, Zeng M, Gerlach D, Yu M, Berger B, Naramura M, Kile BT, Lau NC.

PLoS Genet. 2015 Nov 20;11(11):e1005652. doi: 10.1371/journal.pgen.1005652. eCollection 2015 Nov.

5.

Unique transposon landscapes are pervasive across Drosophila melanogaster genomes.

Rahman R, Chirn GW, Kanodia A, Sytnikova YA, Brembs B, Bergman CM, Lau NC.

Nucleic Acids Res. 2015 Dec 15;43(22):10655-72. doi: 10.1093/nar/gkv1193. Epub 2015 Nov 17.

6.

The capacity of target silencing by Drosophila PIWI and piRNAs.

Post C, Clark JP, Sytnikova YA, Chirn GW, Lau NC.

RNA. 2014 Dec;20(12):1977-86. doi: 10.1261/rna.046300.114. Epub 2014 Oct 21.

7.

Transposable element dynamics and PIWI regulation impacts lncRNA and gene expression diversity in Drosophila ovarian cell cultures.

Sytnikova YA, Rahman R, Chirn GW, Clark JP, Lau NC.

Genome Res. 2014 Dec;24(12):1977-90. doi: 10.1101/gr.178129.114. Epub 2014 Sep 29.

8.

Possible formation of mitochondrial-RNA containing chimeric or trimeric RNA implies a post-transcriptional and post-splicing mechanism for RNA fusion.

Yang W, Wu JM, Bi AD, Ou-Yang YC, Shen HH, Chirn GW, Zhou JH, Weiss E, Holman EP, Liao DJ.

PLoS One. 2013 Oct 24;8(10):e77016. doi: 10.1371/journal.pone.0077016. eCollection 2013.

9.

Small RNA library construction from minute biological samples.

Matts JA, Sytnikova Y, Chirn GW, Igloi GL, Lau NC.

Methods Mol Biol. 2014;1093:123-36. doi: 10.1007/978-1-62703-694-8_10.

10.

Holo-TFIID controls the magnitude of a transcription burst and fine-tuning of transcription.

Pennington KL, Marr SK, Chirn GW, Marr MT 2nd.

Proc Natl Acad Sci U S A. 2013 May 7;110(19):7678-83. doi: 10.1073/pnas.1221712110. Epub 2013 Apr 22.

11.

RNAi pathways contribute to developmental history-dependent phenotypic plasticity in C. elegans.

Hall SE, Chirn GW, Lau NC, Sengupta P.

RNA. 2013 Mar;19(3):306-19. doi: 10.1261/rna.036418.112. Epub 2013 Jan 17.

12.

Single nucleotide in the MTF-1 binding site can determine metal-specific transcription activation.

Sims HI, Chirn GW, Marr MT 2nd.

Proc Natl Acad Sci U S A. 2012 Oct 9;109(41):16516-21. doi: 10.1073/pnas.1207737109. Epub 2012 Sep 24.

13.

Uncovering mechanisms of transcriptional regulations by systematic mining of cis regulatory elements with gene expression profiles.

Ma Q, Chirn GW, Szustakowski JD, Bakhtiarova A, Kosinski PA, Kemp D, Nirmala N.

BioData Min. 2008 Jul 17;1(1):4. doi: 10.1186/1756-0381-1-4.

14.

Integrating high-content screening and ligand-target prediction to identify mechanism of action.

Young DW, Bender A, Hoyt J, McWhinnie E, Chirn GW, Tao CY, Tallarico JA, Labow M, Jenkins JL, Mitchison TJ, Feng Y.

Nat Chem Biol. 2008 Jan;4(1):59-68. Epub 2007 Dec 9.

PMID:
18066055
15.

Genome-wide association analysis identifies loci for type 2 diabetes and triglyceride levels.

Diabetes Genetics Initiative of Broad Institute of Harvard and MIT, Lund University, and Novartis Institutes of BioMedical Research, Saxena R, Voight BF, Lyssenko V, Burtt NP, de Bakker PI, Chen H, Roix JJ, Kathiresan S, Hirschhorn JN, Daly MJ, Hughes TE, Groop L, Altshuler D, Almgren P, Florez JC, Meyer J, Ardlie K, Bengtsson Boström K, Isomaa B, Lettre G, Lindblad U, Lyon HN, Melander O, Newton-Cheh C, Nilsson P, Orho-Melander M, Råstam L, Speliotes EK, Taskinen MR, Tuomi T, Guiducci C, Berglund A, Carlson J, Gianniny L, Hackett R, Hall L, Holmkvist J, Laurila E, Sjögren M, Sterner M, Surti A, Svensson M, Svensson M, Tewhey R, Blumenstiel B, Parkin M, Defelice M, Barry R, Brodeur W, Camarata J, Chia N, Fava M, Gibbons J, Handsaker B, Healy C, Nguyen K, Gates C, Sougnez C, Gage D, Nizzari M, Gabriel SB, Chirn GW, Ma Q, Parikh H, Richardson D, Ricke D, Purcell S.

Science. 2007 Jun 1;316(5829):1331-6. Epub 2007 Apr 26.

16.

From proteomics to systems biology of bacterial pathogens: approaches, tools, and applications.

Plikat U, Voshol H, Dangendorf Y, Wiedmann B, Devay P, Müller D, Wirth U, Szustakowski J, Chirn GW, Inverardi B, Puyang X, Brown K, Kamp H, Hoving S, Ruchti A, Brendlen N, Peterson R, Buco J, Oostrum Jv, Peitsch MC.

Proteomics. 2007 Mar;7(6):992-1003.

PMID:
17370256
17.
18.

Development of comprehensive functional genomic screens to identify novel mediators of osteoarthritis.

Daouti S, Latario B, Nagulapalli S, Buxton F, Uziel-Fusi S, Chirn GW, Bodian D, Song C, Labow M, Lotz M, Quintavalla J, Kumar C.

Osteoarthritis Cartilage. 2005 Jun;13(6):508-18.

19.

Multiple retropseudogenes from pluripotent cell-specific gene expression indicates a potential signature for novel gene identification.

Pain D, Chirn GW, Strassel C, Kemp DM.

J Biol Chem. 2005 Feb 25;280(8):6265-8. Epub 2005 Jan 6.

20.

Genome-scale functional profiling of the mammalian AP-1 signaling pathway.

Chanda SK, White S, Orth AP, Reisdorph R, Miraglia L, Thomas RS, DeJesus P, Mason DE, Huang Q, Vega R, Yu DH, Nelson CG, Smith BM, Terry R, Linford AS, Yu Y, Chirn GW, Song C, Labow MA, Cohen D, King FJ, Peters EC, Schultz PG, Vogt PK, Hogenesch JB, Caldwell JS.

Proc Natl Acad Sci U S A. 2003 Oct 14;100(21):12153-8. Epub 2003 Sep 26.

21.

Identification of a family of cAMP response element-binding protein coactivators by genome-scale functional analysis in mammalian cells.

Iourgenko V, Zhang W, Mickanin C, Daly I, Jiang C, Hexham JM, Orth AP, Miraglia L, Meltzer J, Garza D, Chirn GW, McWhinnie E, Cohen D, Skelton J, Terry R, Yu Y, Bodian D, Buxton FP, Zhu J, Song C, Labow MA.

Proc Natl Acad Sci U S A. 2003 Oct 14;100(21):12147-52. Epub 2003 Sep 23.

22.

Rapid expression cloning of receptors using epitope-tagged ligands and high-speed cell sorting.

Robeva AS, Yan-Neale Y, Burfeind P, Bodian DL, Chirn GW, Kolbinger F, Labow M, Vallon RD.

Cytometry A. 2003 Feb;51(2):59-67.

23.

HIV protease genotype and viral sensitivity to HIV protease inhibitors following saquinavir therapy.

Craig C, Race E, Sheldon J, Whittaker L, Gilbert S, Moffatt A, Rose J, Dissanayeke S, Chirn GW, Duncan IB, Cammack N.

AIDS. 1998 Sep 10;12(13):1611-8.

PMID:
9764779
24.

Complementary classification approaches for protein sequences.

Wang JT, Marr TG, Shasha D, Shapiro BA, Chirn GW, Lee TY.

Protein Eng. 1996 May;9(5):381-6.

PMID:
8795038
25.

Discovering active motifs in sets of related protein sequences and using them for classification.

Wang JT, Marr TG, Shasha D, Shapiro BA, Chirn GW.

Nucleic Acids Res. 1994 Jul 25;22(14):2769-75.

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