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Items: 1 to 20 of 84

1.

Mapping the chromosomal targets of STAT1 by Sequence Tag Analysis of Genomic Enrichment (STAGE).

Bhinge AA, Kim J, Euskirchen GM, Snyder M, Iyer VR.

Genome Res. 2007 Jun;17(6):910-6.

2.

Global changes in STAT target selection and transcription regulation upon interferon treatments.

Hartman SE, Bertone P, Nath AK, Royce TE, Gerstein M, Weissman S, Snyder M.

Genes Dev. 2005 Dec 15;19(24):2953-68. Epub 2005 Nov 30.

3.

Genome-wide profiles of STAT1 DNA association using chromatin immunoprecipitation and massively parallel sequencing.

Robertson G, Hirst M, Bainbridge M, Bilenky M, Zhao Y, Zeng T, Euskirchen G, Bernier B, Varhol R, Delaney A, Thiessen N, Griffith OL, He A, Marra M, Snyder M, Jones S.

Nat Methods. 2007 Aug;4(8):651-7. Epub 2007 Jun 11.

PMID:
17558387
4.

Proximal genomic localization of STAT1 binding and regulated transcriptional activity.

Wormald S, Hilton DJ, Smyth GK, Speed TP.

BMC Genomics. 2006 Oct 11;7:254.

5.

Signal transducers and activators of transcription-1 (STAT1) regulates microRNA transcription in interferon gamma-stimulated HeLa cells.

Wang G, Wang Y, Teng M, Zhang D, Li L, Liu Y.

PLoS One. 2010 Jul 26;5(7):e11794. doi: 10.1371/journal.pone.0011794.

6.

Genome-wide identification of in vivo protein-DNA binding sites from ChIP-Seq data.

Jothi R, Cuddapah S, Barski A, Cui K, Zhao K.

Nucleic Acids Res. 2008 Sep;36(16):5221-31. doi: 10.1093/nar/gkn488. Epub 2008 Aug 6.

7.

MER41 repeat sequences contain inducible STAT1 binding sites.

Schmid CD, Bucher P.

PLoS One. 2010 Jul 6;5(7):e11425. doi: 10.1371/journal.pone.0011425.

8.

Genome-wide relationship between histone H3 lysine 4 mono- and tri-methylation and transcription factor binding.

Robertson AG, Bilenky M, Tam A, Zhao Y, Zeng T, Thiessen N, Cezard T, Fejes AP, Wederell ED, Cullum R, Euskirchen G, Krzywinski M, Birol I, Snyder M, Hoodless PA, Hirst M, Marra MA, Jones SJ.

Genome Res. 2008 Dec;18(12):1906-17. doi: 10.1101/gr.078519.108. Epub 2008 Sep 11.

9.

Identifying chromosomal targets of DNA-binding proteins by Sequence Tag Analysis of Genomic Enrichment (STAGE).

Kim J, Iyer VR.

Curr Protoc Mol Biol. 2005 Nov;Chapter 21:Unit 21.10. doi: 10.1002/0471142727.mb2110s72.

PMID:
18265357
10.

Pinpointing transcription factor binding sites from ChIP-seq data with SeqSite.

Wang X, Zhang X.

BMC Syst Biol. 2011;5 Suppl 2:S3. doi: 10.1186/1752-0509-5-S2-S3. Epub 2011 Dec 14.

11.

Mapping DNA-protein interactions in large genomes by sequence tag analysis of genomic enrichment.

Kim J, Bhinge AA, Morgan XC, Iyer VR.

Nat Methods. 2005 Jan;2(1):47-53. Epub 2004 Dec 21.

PMID:
15782160
12.

Mapping of transcription factor binding regions in mammalian cells by ChIP: comparison of array- and sequencing-based technologies.

Euskirchen GM, Rozowsky JS, Wei CL, Lee WH, Zhang ZD, Hartman S, Emanuelsson O, Stolc V, Weissman S, Gerstein MB, Ruan Y, Snyder M.

Genome Res. 2007 Jun;17(6):898-909.

13.

An integrated pipeline for the genome-wide analysis of transcription factor binding sites from ChIP-Seq.

Mercier E, Droit A, Li L, Robertson G, Zhang X, Gottardo R.

PLoS One. 2011 Feb 16;6(2):e16432. doi: 10.1371/journal.pone.0016432.

14.

Two glutamic acid residues in the DNA-binding domain are engaged in the release of STAT1 dimers from DNA.

Koch V, Staab J, Ruppert V, Meyer T.

BMC Cell Biol. 2012 Aug 24;13:22. doi: 10.1186/1471-2121-13-22.

15.

Characterization of genome-wide binding of NF-κB in TNFα-stimulated HeLa cells.

Xing Y, Yang Y, Zhou F, Wang J.

Gene. 2013 Sep 10;526(2):142-9. doi: 10.1016/j.gene.2013.05.001. Epub 2013 May 17.

PMID:
23688556
16.
17.

ChromaSig: a probabilistic approach to finding common chromatin signatures in the human genome.

Hon G, Ren B, Wang W.

PLoS Comput Biol. 2008 Oct;4(10):e1000201. doi: 10.1371/journal.pcbi.1000201. Epub 2008 Oct 17.

18.

Chromatin immunoprecipitation for identifying transcription factor targets in keratinocytes.

Ortt K, Sinha S.

Methods Mol Biol. 2010;585:159-70. doi: 10.1007/978-1-60761-380-0_12.

PMID:
19908003
19.

Differential effects of TNF-alpha and IFN-gamma on gene transcription mediated by NF-kappaB-Stat1 interactions.

Ganster RW, Guo Z, Shao L, Geller DA.

J Interferon Cytokine Res. 2005 Nov;25(11):707-19.

PMID:
16318585
20.

A hypothesis-based approach for identifying the binding specificity of regulatory proteins from chromatin immunoprecipitation data.

Macisaac KD, Gordon DB, Nekludova L, Odom DT, Schreiber J, Gifford DK, Young RA, Fraenkel E.

Bioinformatics. 2006 Feb 15;22(4):423-9. Epub 2005 Dec 6.

PMID:
16332710

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