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Results: 1 to 20 of 40

1.

Construction of a system for single-cell transgene induction in Caenorhabditis elegans using a pulsed infrared laser.

Churgin MA, He L, Murray JI, Fang-Yen C.

Methods. 2014 May 14. pii: S1046-2023(14)00182-0. doi: 10.1016/j.ymeth.2014.05.001. [Epub ahead of print]

PMID:
24835576
[PubMed - as supplied by publisher]
2.

Alternative synthetic tools to phospho-specific antibodies for phosphoproteome analysis: progress and prospects.

Murray JI, Spivey AC, Woscholski R.

J Chem Biol. 2013 Jul 9;6(4):175-84. doi: 10.1007/s12154-013-0100-y. eCollection 2013 Jul 9. Review.

PMID:
24432133
[PubMed]
3.

Efficient single-cell transgene induction in Caenorhabditis elegans using a pulsed infrared laser.

Churgin MA, He L, Murray JI, Fang-Yen C.

G3 (Bethesda). 2013 Oct 3;3(10):1827-32. doi: 10.1534/g3.113.007682.

PMID:
23979939
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

Gene transcription is coordinated with, but not dependent on, cell divisions during C. elegans embryonic fate specification.

Nair G, Walton T, Murray JI, Raj A.

Development. 2013 Aug;140(16):3385-94. doi: 10.1242/dev.098012. Epub 2013 Jul 17.

PMID:
23863485
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Deconvolution of gene expression from cell populations across the C. elegans lineage.

Burdick JT, Murray JI.

BMC Bioinformatics. 2013 Jun 22;14:204. doi: 10.1186/1471-2105-14-204.

PMID:
23800200
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Oncostatin-M promotes phenotypic changes associated with mesenchymal and stem cell-like differentiation in breast cancer.

West NR, Murray JI, Watson PH.

Oncogene. 2014 Mar 20;33(12):1485-94. doi: 10.1038/onc.2013.105. Epub 2013 Apr 15.

PMID:
23584474
[PubMed - indexed for MEDLINE]
7.

A quantitative model of normal Caenorhabditis elegans embryogenesis and its disruption after stress.

Richards JL, Zacharias AL, Walton T, Burdick JT, Murray JI.

Dev Biol. 2013 Feb 1;374(1):12-23. doi: 10.1016/j.ydbio.2012.11.034. Epub 2012 Dec 7.

PMID:
23220655
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

A genome-scale resource for in vivo tag-based protein function exploration in C. elegans.

Sarov M, Murray JI, Schanze K, Pozniakovski A, Niu W, Angermann K, Hasse S, Rupprecht M, Vinis E, Tinney M, Preston E, Zinke A, Enst S, Teichgraber T, Janette J, Reis K, Janosch S, Schloissnig S, Ejsmont RK, Slightam C, Xu X, Kim SK, Reinke V, Stewart AF, Snyder M, Waterston RH, Hyman AA.

Cell. 2012 Aug 17;150(4):855-66. doi: 10.1016/j.cell.2012.08.001.

PMID:
22901814
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Automated lineage and expression profiling in live Caenorhabditis elegans embryos.

Murray JI, Bao Z.

Cold Spring Harb Protoc. 2012 Aug 1;2012(8). pii: pdb.prot070615. doi: 10.1101/pdb.prot070615.

PMID:
22854571
[PubMed - indexed for MEDLINE]
10.

Global analysis of RNA secondary structure in two metazoans.

Li F, Zheng Q, Ryvkin P, Dragomir I, Desai Y, Aiyer S, Valladares O, Yang J, Bambina S, Sabin LR, Murray JI, Lamitina T, Raj A, Cherry S, Wang LS, Gregory BD.

Cell Rep. 2012 Jan 26;1(1):69-82. doi: 10.1016/j.celrep.2011.10.002. Epub 2012 Jan 26.

PMID:
22832108
[PubMed - indexed for MEDLINE]
Free Article
11.

Structural characterization of S100A15 reveals a novel zinc coordination site among S100 proteins and altered surface chemistry with functional implications for receptor binding.

Murray JI, Tonkin ML, Whiting AL, Peng F, Farnell B, Cullen JT, Hof F, Boulanger MJ.

BMC Struct Biol. 2012 Jul 2;12:16. doi: 10.1186/1472-6807-12-16.

PMID:
22747601
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

The Nkx5/HMX homeodomain protein MLS-2 is required for proper tube cell shape in the C. elegans excretory system.

Abdus-Saboor I, Stone CE, Murray JI, Sundaram MV.

Dev Biol. 2012 Jun 15;366(2):298-307. doi: 10.1016/j.ydbio.2012.03.015. Epub 2012 Apr 17.

PMID:
22537498
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Multidimensional regulation of gene expression in the C. elegans embryo.

Murray JI, Boyle TJ, Preston E, Vafeados D, Mericle B, Weisdepp P, Zhao Z, Bao Z, Boeck M, Waterston RH.

Genome Res. 2012 Jul;22(7):1282-94. doi: 10.1101/gr.131920.111. Epub 2012 Apr 16.

PMID:
22508763
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Mounting Caenorhabditis elegans embryos for live imaging of embryogenesis.

Bao Z, Murray JI.

Cold Spring Harb Protoc. 2011 Sep 1;2011(9). pii: pdb.prot065599. doi: 10.1101/pdb.prot065599.

PMID:
21880814
[PubMed - indexed for MEDLINE]
15.

Notch and Ras promote sequential steps of excretory tube development in C. elegans.

Abdus-Saboor I, Mancuso VP, Murray JI, Palozola K, Norris C, Hall DH, Howell K, Huang K, Sundaram MV.

Development. 2011 Aug;138(16):3545-55. doi: 10.1242/dev.068148. Epub 2011 Jul 19.

PMID:
21771815
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

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
17.

Diverse transcription factor binding features revealed by genome-wide ChIP-seq in C. elegans.

Niu W, Lu ZJ, Zhong M, Sarov M, Murray JI, Brdlik CM, Janette J, Chen C, Alves P, Preston E, Slightham C, Jiang L, Hyman AA, Kim SK, Waterston RH, Gerstein M, Snyder M, Reinke V.

Genome Res. 2011 Feb;21(2):245-54. doi: 10.1101/gr.114587.110. Epub 2010 Dec 22.

PMID:
21177963
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

A negative regulatory loop between microRNA and Hox gene controls posterior identities in Caenorhabditis elegans.

Zhao Z, Boyle TJ, Liu Z, Murray JI, Wood WB, Waterston RH.

PLoS Genet. 2010 Sep 2;6(9):e1001089. doi: 10.1371/journal.pgen.1001089.

PMID:
20824072
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Genome-wide identification of binding sites defines distinct functions for Caenorhabditis elegans PHA-4/FOXA in development and environmental response.

Zhong M, Niu W, Lu ZJ, Sarov M, Murray JI, Janette J, Raha D, Sheaffer KL, Lam HY, Preston E, Slightham C, Hillier LW, Brock T, Agarwal A, Auerbach R, Hyman AA, Gerstein M, Mango SE, Kim SK, Waterston RH, Reinke V, Snyder M.

PLoS Genet. 2010 Feb 19;6(2):e1000848. doi: 10.1371/journal.pgen.1000848.

PMID:
20174564
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

Using machine learning to speed up manual image annotation: application to a 3D imaging protocol for measuring single cell gene expression in the developing C. elegans embryo.

Aydin Z, Murray JI, Waterston RH, Noble WS.

BMC Bioinformatics. 2010 Feb 11;11:84. doi: 10.1186/1471-2105-11-84.

PMID:
20146825
[PubMed - indexed for MEDLINE]
Free PMC Article

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