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Items: 1 to 20 of 74

1.

Genomic location analysis by ChIP-Seq.

Barski A, Zhao K.

J Cell Biochem. 2009 May 1;107(1):11-8. doi: 10.1002/jcb.22077. Review.

2.

Insights from genomic profiling of transcription factors.

Farnham PJ.

Nat Rev Genet. 2009 Sep;10(9):605-16. doi: 10.1038/nrg2636. Epub 2009 Aug 11. Review.

3.

Integrative analysis of ChIP-chip and ChIP-seq dataset.

Zhu LJ.

Methods Mol Biol. 2013;1067:105-24. doi: 10.1007/978-1-62703-607-8_8.

PMID:
23975789
4.

DamID-seq: Genome-wide Mapping of Protein-DNA Interactions by High Throughput Sequencing of Adenine-methylated DNA Fragments.

Wu F, Olson BG, Yao J.

J Vis Exp. 2016 Jan 27;(107):e53620. doi: 10.3791/53620.

PMID:
26862720
5.
6.

Genome-wide occupancy analysis by ChIP-chip and ChIP-Seq.

Hao H.

Adv Exp Med Biol. 2012;723:753-9. doi: 10.1007/978-1-4614-0631-0_96. Review. No abstract available.

PMID:
22183403
7.

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.

8.

Genome-wide mapping of histone H3 lysine 4 trimethylation in Eucalyptus grandis developing xylem.

Hussey SG, Mizrachi E, Groover A, Berger DK, Myburg AA.

BMC Plant Biol. 2015 May 10;15:117. doi: 10.1186/s12870-015-0499-0.

9.

Mapping E. coli RNA polymerase and associated transcription factors and identifying promoters genome-wide.

Davis SE, Mooney RA, Kanin EI, Grass J, Landick R, Ansari AZ.

Methods Enzymol. 2011;498:449-71. doi: 10.1016/B978-0-12-385120-8.00020-6.

PMID:
21601690
10.

Genome-wide profiling of DNA-binding proteins using barcode-based multiplex Solexa sequencing.

Raghav SK, Deplancke B.

Methods Mol Biol. 2012;786:247-62. doi: 10.1007/978-1-61779-292-2_15.

PMID:
21938631
11.

MM-ChIP enables integrative analysis of cross-platform and between-laboratory ChIP-chip or ChIP-seq data.

Chen Y, Meyer CA, Liu T, Li W, Liu JS, Liu XS.

Genome Biol. 2011;12(2):R11. doi: 10.1186/gb-2011-12-2-r11. Epub 2011 Feb 1.

12.

Using ChIP-chip and ChIP-seq to study the regulation of gene expression: genome-wide localization studies reveal widespread regulation of transcription elongation.

Gilchrist DA, Fargo DC, Adelman K.

Methods. 2009 Aug;48(4):398-408. doi: 10.1016/j.ymeth.2009.02.024. Epub 2009 Mar 9. Review.

13.

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.

14.

A widespread distribution of genomic CeMyoD binding sites revealed and cross validated by ChIP-Chip and ChIP-Seq techniques.

Lei H, Fukushige T, Niu W, Sarov M, Reinke V, Krause M.

PLoS One. 2010 Dec 29;5(12):e15898. doi: 10.1371/journal.pone.0015898.

15.

Bayesian hierarchical model for transcriptional module discovery by jointly modeling gene expression and ChIP-chip data.

Liu X, Jessen WJ, Sivaganesan S, Aronow BJ, Medvedovic M.

BMC Bioinformatics. 2007 Aug 3;8:283.

16.

Genome-wide identification of DNA-protein interactions using chromatin immunoprecipitation coupled with flow cell sequencing.

Hoffman BG, Jones SJ.

J Endocrinol. 2009 Apr;201(1):1-13. doi: 10.1677/JOE-08-0526. Epub 2009 Jan 9. Review.

17.

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.

18.

ChIP-chip versus ChIP-seq: lessons for experimental design and data analysis.

Ho JW, Bishop E, Karchenko PV, Nègre N, White KP, Park PJ.

BMC Genomics. 2011 Feb 28;12:134. doi: 10.1186/1471-2164-12-134.

19.

Precise Identification of DNA-Binding Proteins Genomic Location by Exonuclease Coupled Chromatin Immunoprecipitation (ChIP-exo).

Matteau D, Rodrigue S.

Methods Mol Biol. 2015;1334:173-93. doi: 10.1007/978-1-4939-2877-4_11.

PMID:
26404150
20.

Genome-wide in vivo cross-linking of sequence-specific transcription factors.

Li XY, Biggin MD.

Methods Mol Biol. 2012;809:3-26. doi: 10.1007/978-1-61779-376-9_1.

PMID:
22113265

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