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Results: 1 to 20 of 22

1.

Organ Size Control Is Dominant over Rb Family Inactivation to Restrict Proliferation In Vivo.

Ehmer U, Zmoos AF, Auerbach RK, Vaka D, Butte AJ, Kay MA, Sage J.

Cell Rep. 2014 Jul 9. pii: S2211-1247(14)00494-X. doi: 10.1016/j.celrep.2014.06.025. [Epub ahead of print]

PMID:
25017070
[PubMed - as supplied by publisher]
Free Article
2.

Relating genes to function: identifying enriched transcription factors using the ENCODE ChIP-Seq significance tool.

Auerbach RK, Chen B, Butte AJ.

Bioinformatics. 2013 Aug 1;29(15):1922-4. doi: 10.1093/bioinformatics/btt316. Epub 2013 Jun 3.

PMID:
23732275
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

Centromere-like regions in the budding yeast genome.

Lefrançois P, Auerbach RK, Yellman CM, Roeder GS, Snyder M.

PLoS Genet. 2013;9(1):e1003209. doi: 10.1371/journal.pgen.1003209. Epub 2013 Jan 17.

PMID:
23349633
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

Thriving in multidisciplinary research: advice for new bioinformatics students.

Auerbach RK.

Yale J Biol Med. 2012 Sep;85(3):323-9. Epub 2012 Sep 25.

PMID:
23012580
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

SWI/SNF chromatin-remodeling factors: multiscale analyses and diverse functions.

Euskirchen G, Auerbach RK, Snyder M.

J Biol Chem. 2012 Sep 7;287(37):30897-905. doi: 10.1074/jbc.R111.309302. Epub 2012 Sep 5. Review.

PMID:
22952240
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Extensive promoter-centered chromatin interactions provide a topological basis for transcription regulation.

Li G, Ruan X, Auerbach RK, Sandhu KS, Zheng M, Wang P, Poh HM, Goh Y, Lim J, Zhang J, Sim HS, Peh SQ, Mulawadi FH, Ong CT, Orlov YL, Hong S, Zhang Z, Landt S, Raha D, Euskirchen G, Wei CL, Ge W, Wang H, Davis C, Fisher-Aylor KI, Mortazavi A, Gerstein M, Gingeras T, Wold B, Sun Y, Fullwood MJ, Cheung E, Liu E, Sung WK, Snyder M, Ruan Y.

Cell. 2012 Jan 20;148(1-2):84-98. doi: 10.1016/j.cell.2011.12.014.

PMID:
22265404
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

The real cost of sequencing: higher than you think!

Sboner A, Mu XJ, Greenbaum D, Auerbach RK, Gerstein MB.

Genome Biol. 2011 Aug 25;12(8):125. doi: 10.1186/gb-2011-12-8-125.

PMID:
21867570
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

Diverse roles and interactions of the SWI/SNF chromatin remodeling complex revealed using global approaches.

Euskirchen GM, Auerbach RK, Davidov E, Gianoulis TA, Zhong G, Rozowsky J, Bhardwaj N, Gerstein MB, Snyder M.

PLoS Genet. 2011 Mar;7(3):e1002008. doi: 10.1371/journal.pgen.1002008. Epub 2011 Mar 3.

PMID:
21408204
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Integrative analysis of the Caenorhabditis elegans genome by the modENCODE project.

Gerstein MB, Lu ZJ, Van Nostrand EL, Cheng C, Arshinoff BI, Liu T, Yip KY, Robilotto R, Rechtsteiner A, Ikegami K, Alves P, Chateigner A, Perry M, Morris M, Auerbach RK, Feng X, Leng J, Vielle A, Niu W, Rhrissorrakrai K, Agarwal A, Alexander RP, Barber G, Brdlik CM, Brennan J, Brouillet JJ, Carr A, Cheung MS, Clawson H, Contrino S, Dannenberg LO, Dernburg AF, Desai A, Dick L, Dosé AC, Du J, Egelhofer T, Ercan S, Euskirchen G, Ewing B, Feingold EA, Gassmann R, Good PJ, Green P, Gullier F, Gutwein M, Guyer MS, Habegger L, Han T, Henikoff JG, Henz SR, Hinrichs A, Holster H, Hyman T, Iniguez AL, Janette J, Jensen M, Kato M, Kent WJ, Kephart E, Khivansara V, Khurana E, Kim JK, Kolasinska-Zwierz P, Lai EC, Latorre I, Leahey A, Lewis S, Lloyd P, Lochovsky L, Lowdon RF, Lubling Y, Lyne R, MacCoss M, Mackowiak SD, Mangone M, McKay S, Mecenas D, Merrihew G, Miller DM 3rd, Muroyama A, Murray JI, Ooi SL, Pham H, Phippen T, Preston EA, Rajewsky N, Rätsch G, Rosenbaum H, Rozowsky J, Rutherford K, Ruzanov P, Sarov M, Sasidharan R, Sboner A, Scheid P, Segal E, Shin H, Shou C, Slack FJ, Slightam C, Smith R, Spencer WC, Stinson EO, Taing S, Takasaki T, Vafeados D, Voronina K, Wang G, Washington NL, Whittle CM, Wu B, Yan KK, Zeller G, Zha Z, Zhong M, Zhou X; modENCODE Consortium, Ahringer J, Strome S, Gunsalus KC, Micklem G, Liu XS, Reinke V, Kim SK, Hillier LW, Henikoff S, Piano F, Snyder M, Stein L, Lieb JD, Waterston RH.

Science. 2010 Dec 24;330(6012):1775-87. doi: 10.1126/science.1196914. Epub 2010 Dec 22. Erratum in: Science. 2011 Jan 7;331(6013):30.

PMID:
21177976
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Structured digital tables on the Semantic Web: toward a structured digital literature.

Cheung KH, Samwald M, Auerbach RK, Gerstein MB.

Mol Syst Biol. 2010 Aug 24;6:403. doi: 10.1038/msb.2010.45.

PMID:
20739925
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

Francisella tularensis subsp. novicida isolated from a human in Arizona.

Birdsell DN, Stewart T, Vogler AJ, Lawaczeck E, Diggs A, Sylvester TL, Buchhagen JL, Auerbach RK, Keim P, Wagner DM.

BMC Res Notes. 2009 Nov 6;2:223. doi: 10.1186/1756-0500-2-223.

PMID:
19895698
[PubMed]
Free PMC Article
12.

Mapping accessible chromatin regions using Sono-Seq.

Auerbach RK, Euskirchen G, Rozowsky J, Lamarre-Vincent N, Moqtaderi Z, Lefrançois P, Struhl K, Gerstein M, Snyder M.

Proc Natl Acad Sci U S A. 2009 Sep 1;106(35):14926-31. doi: 10.1073/pnas.0905443106. Epub 2009 Aug 18.

PMID:
19706456
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Phylogeography of Francisella tularensis: global expansion of a highly fit clone.

Vogler AJ, Birdsell D, Price LB, Bowers JR, Beckstrom-Sternberg SM, Auerbach RK, Beckstrom-Sternberg JS, Johansson A, Clare A, Buchhagen JL, Petersen JM, Pearson T, Vaissaire J, Dempsey MP, Foxall P, Engelthaler DM, Wagner DM, Keim P.

J Bacteriol. 2009 Apr;191(8):2474-84. doi: 10.1128/JB.01786-08. Epub 2009 Feb 27.

PMID:
19251856
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Efficient yeast ChIP-Seq using multiplex short-read DNA sequencing.

Lefrançois P, Euskirchen GM, Auerbach RK, Rozowsky J, Gibson T, Yellman CM, Gerstein M, Snyder M.

BMC Genomics. 2009 Jan 21;10:37. doi: 10.1186/1471-2164-10-37.

PMID:
19159457
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

PeakSeq enables systematic scoring of ChIP-seq experiments relative to controls.

Rozowsky J, Euskirchen G, Auerbach RK, Zhang ZD, Gibson T, Bjornson R, Carriero N, Snyder M, Gerstein MB.

Nat Biotechnol. 2009 Jan;27(1):66-75. doi: 10.1038/nbt.1518. Epub 2009 Jan 4.

PMID:
19122651
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

Genomic islands from five strains of Burkholderia pseudomallei.

Tuanyok A, Leadem BR, Auerbach RK, Beckstrom-Sternberg SM, Beckstrom-Sternberg JS, Mayo M, Wuthiekanun V, Brettin TS, Nierman WC, Peacock SJ, Currie BJ, Wagner DM, Keim P.

BMC Genomics. 2008 Nov 27;9:566. doi: 10.1186/1471-2164-9-566.

PMID:
19038032
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

Assays for the rapid and specific identification of North American Yersinia pestis and the common laboratory strain CO92.

Vogler AJ, Driebe EM, Lee J, Auerbach RK, Allender CJ, Stanley M, Kubota K, Andersen GL, Radnedge L, Worsham PL, Keim P, Wagner DM.

Biotechniques. 2008 Feb;44(2):201, 203-4, 207.

PMID:
18330347
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

A horizontal gene transfer event defines two distinct groups within Burkholderia pseudomallei that have dissimilar geographic distributions.

Tuanyok A, Auerbach RK, Brettin TS, Bruce DC, Munk AC, Detter JC, Pearson T, Hornstra H, Sermswan RW, Wuthiekanun V, Peacock SJ, Currie BJ, Keim P, Wagner DM.

J Bacteriol. 2007 Dec;189(24):9044-9. Epub 2007 Oct 12.

PMID:
17933898
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Complete genomic characterization of a pathogenic A.II strain of Francisella tularensis subspecies tularensis.

Beckstrom-Sternberg SM, Auerbach RK, Godbole S, Pearson JV, Beckstrom-Sternberg JS, Deng Z, Munk C, Kubota K, Zhou Y, Bruce D, Noronha J, Scheuermann RH, Wang A, Wei X, Wang J, Hao J, Wagner DM, Brettin TS, Brown N, Gilna P, Keim PS.

PLoS One. 2007 Sep 26;2(9):e947.

PMID:
17895988
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

Yersinia pestis evolution on a small timescale: comparison of whole genome sequences from North America.

Auerbach RK, Tuanyok A, Probert WS, Kenefic L, Vogler AJ, Bruce DC, Munk C, Brettin TS, Eppinger M, Ravel J, Wagner DM, Keim P.

PLoS One. 2007 Aug 22;2(8):e770.

PMID:
17712418
[PubMed - indexed for MEDLINE]
Free PMC Article

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