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Items: 1 to 20 of 33

1.

Transposable elements have rewired the core regulatory network of human embryonic stem cells.

Kunarso G, Chia NY, Jeyakani J, Hwang C, Lu X, Chan YS, Ng HH, Bourque G.

Nat Genet. 2010 Jul;42(7):631-4. doi: 10.1038/ng.600. Epub 2010 Jun 6.

PMID:
20526341
2.

Tethered-hopping model for protein-DNA binding and unbinding based on Sox2-Oct1-Hoxb1 ternary complex simulations.

Lian P, Liu LA, Shi Y, Bu Y, Wei D.

Biophys J. 2010 Apr 7;98(7):1285-93. doi: 10.1016/j.bpj.2009.12.4274.

3.

A rapid high-throughput method for mapping ribonucleoproteins (RNPs) on human pre-mRNA.

Watkins KH, Stewart A, Fairbrother W.

J Vis Exp. 2009 Dec 2;(34). pii: 1622. doi: 10.3791/1622.

4.

FoxOs cooperatively regulate diverse pathways governing neural stem cell homeostasis.

Paik JH, Ding Z, Narurkar R, Ramkissoon S, Muller F, Kamoun WS, Chae SS, Zheng H, Ying H, Mahoney J, Hiller D, Jiang S, Protopopov A, Wong WH, Chin L, Ligon KL, DePinho RA.

Cell Stem Cell. 2009 Nov 6;5(5):540-53. doi: 10.1016/j.stem.2009.09.013.

5.

Next-generation SELEX identifies sequence and structural determinants of splicing factor binding in human pre-mRNA sequence.

Reid DC, Chang BL, Gunderson SI, Alpert L, Thompson WA, Fairbrother WG.

RNA. 2009 Dec;15(12):2385-97. doi: 10.1261/rna.1821809. Epub 2009 Oct 27.

6.

Diversity and complexity in DNA recognition by transcription factors.

Badis G, Berger MF, Philippakis AA, Talukder S, Gehrke AR, Jaeger SA, Chan ET, Metzler G, Vedenko A, Chen X, Kuznetsov H, Wang CF, Coburn D, Newburger DE, Morris Q, Hughes TR, Bulyk ML.

Science. 2009 Jun 26;324(5935):1720-3. doi: 10.1126/science.1162327. Epub 2009 May 14.

7.

A general mechanism for transcription regulation by Oct1 and Oct4 in response to genotoxic and oxidative stress.

Kang J, Gemberling M, Nakamura M, Whitby FG, Handa H, Fairbrother WG, Tantin D.

Genes Dev. 2009 Jan 15;23(2):208-22. doi: 10.1101/gad.1750709.

8.

Different transcription factors regulate nestin gene expression during P19 cell neural differentiation and central nervous system development.

Jin Z, Liu L, Bian W, Chen Y, Xu G, Cheng L, Jing N.

J Biol Chem. 2009 Mar 20;284(12):8160-73. doi: 10.1074/jbc.M805632200. Epub 2009 Jan 15.

9.

FoxO transcription factors in the maintenance of cellular homeostasis during aging.

Salih DA, Brunet A.

Curr Opin Cell Biol. 2008 Apr;20(2):126-36. doi: 10.1016/j.ceb.2008.02.005. Epub 2008 Apr 3. Review.

10.

Identification of DPPA4 and other genes as putative Sox2:Oct-3/4 target genes using a combination of in silico analysis and transcription-based assays.

Chakravarthy H, Boer B, Desler M, Mallanna SK, McKeithan TW, Rizzino A.

J Cell Physiol. 2008 Sep;216(3):651-62. doi: 10.1002/jcp.21440.

PMID:
18366076
11.

High-throughput biochemical analysis of in vivo location data reveals novel distinct classes of POU5F1(Oct4)/DNA complexes.

Tantin D, Gemberling M, Callister C, Fairbrother WG.

Genome Res. 2008 Apr;18(4):631-9. doi: 10.1101/gr.072942.107. Epub 2008 Jan 22. Erratum in: Genome Res. 2009 Apr;19(4):690. Fairbrother, William [corrected to Fairbrother, William G].

12.

Successful co-immunoprecipitation of Oct4 and Nanog using cross-linking.

Zhang L, Rayner S, Katoku-Kikyo N, Romanova L, Kikyo N.

Biochem Biophys Res Commun. 2007 Sep 28;361(3):611-4. Epub 2007 Jul 25.

13.

FoxOs are critical mediators of hematopoietic stem cell resistance to physiologic oxidative stress.

Tothova Z, Kollipara R, Huntly BJ, Lee BH, Castrillon DH, Cullen DE, McDowell EP, Lazo-Kallanian S, Williams IR, Sears C, Armstrong SA, Passegué E, DePinho RA, Gilliland DG.

Cell. 2007 Jan 26;128(2):325-39.

14.

Sox2 and Pou2f1 interact to control lens and olfactory placode development.

Donner AL, Episkopou V, Maas RL.

Dev Biol. 2007 Mar 15;303(2):784-99. Epub 2006 Nov 6.

15.

Analysis of Oct4-dependent transcriptional networks regulating self-renewal and pluripotency in human embryonic stem cells.

Babaie Y, Herwig R, Greber B, Brink TC, Wruck W, Groth D, Lehrach H, Burdon T, Adjaye J.

Stem Cells. 2007 Feb;25(2):500-10. Epub 2006 Oct 26.

16.

Differentiation of mouse embryonic stem cells after RNA interference-mediated silencing of OCT4 and Nanog.

Hough SR, Clements I, Welch PJ, Wiederholt KA.

Stem Cells. 2006 Jun;24(6):1467-75. Epub 2006 Feb 2.

17.

Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles.

Subramanian A, Tamayo P, Mootha VK, Mukherjee S, Ebert BL, Gillette MA, Paulovich A, Pomeroy SL, Golub TR, Lander ES, Mesirov JP.

Proc Natl Acad Sci U S A. 2005 Oct 25;102(43):15545-50. Epub 2005 Sep 30.

18.

Core transcriptional regulatory circuitry in human embryonic stem cells.

Boyer LA, Lee TI, Cole MF, Johnstone SE, Levine SS, Zucker JP, Guenther MG, Kumar RM, Murray HL, Jenner RG, Gifford DK, Melton DA, Jaenisch R, Young RA.

Cell. 2005 Sep 23;122(6):947-56.

19.

Stress-dependent regulation of FOXO transcription factors by the SIRT1 deacetylase.

Brunet A, Sweeney LB, Sturgill JF, Chua KF, Greer PL, Lin Y, Tran H, Ross SE, Mostoslavsky R, Cohen HY, Hu LS, Cheng HL, Jedrychowski MP, Gygi SP, Sinclair DA, Alt FW, Greenberg ME.

Science. 2004 Mar 26;303(5666):2011-5. Epub 2004 Feb 19.

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