Format
Items per page
Sort by

Send to:

Choose Destination

Links from PubMed

Items: 1 to 20 of 200

1.

A fully Bayesian hidden Ising model for ChIP-seq data analysis.

Mo Q.

Biostatistics. 2012 Jan;13(1):113-28. doi: 10.1093/biostatistics/kxr029. Epub 2011 Sep 13.

2.

Bayesian modeling of ChIP-chip data through a high-order Ising model.

Mo Q, Liang F.

Biometrics. 2010 Dec;66(4):1284-94. doi: 10.1111/j.1541-0420.2009.01379.x.

PMID:
20128774
3.

PICS: probabilistic inference for ChIP-seq.

Zhang X, Robertson G, Krzywinski M, Ning K, Droit A, Jones S, Gottardo R.

Biometrics. 2011 Mar;67(1):151-63. doi: 10.1111/j.1541-0420.2010.01441.x.

PMID:
20528864
4.

Genome-wide localization of protein-DNA binding and histone modification by a Bayesian change-point method with ChIP-seq data.

Xing H, Mo Y, Liao W, Zhang MQ.

PLoS Comput Biol. 2012;8(7):e1002613. doi: 10.1371/journal.pcbi.1002613. Epub 2012 Jul 26.

5.

Integrative analyses for omics data: a Bayesian mixture model to assess the concordance of ChIP-chip and ChIP-seq measurements.

Schäfer M, Lkhagvasuren O, Klein HU, Elling C, Wüstefeld T, Müller-Tidow C, Zender L, Koschmieder S, Dugas M, Ickstadt K.

J Toxicol Environ Health A. 2012;75(8-10):461-70. doi: 10.1080/15287394.2012.674914.

PMID:
22686305
6.

BayesPeak: Bayesian analysis of ChIP-seq data.

Spyrou C, Stark R, Lynch AG, Tavaré S.

BMC Bioinformatics. 2009 Sep 21;10:299. doi: 10.1186/1471-2105-10-299.

7.

Chromatin immunoprecipitation (ChIP) of plant transcription factors followed by sequencing (ChIP-SEQ) or hybridization to whole genome arrays (ChIP-CHIP).

Kaufmann K, Muiño JM, Østerås M, Farinelli L, Krajewski P, Angenent GC.

Nat Protoc. 2010 Mar;5(3):457-72. doi: 10.1038/nprot.2009.244. Epub 2010 Feb 18.

PMID:
20203663
8.

The analysis of ChIP-Seq data.

Ma W, Wong WH.

Methods Enzymol. 2011;497:51-73. doi: 10.1016/B978-0-12-385075-1.00003-2.

PMID:
21601082
9.

Extracting transcription factor targets from ChIP-Seq data.

Tuteja G, White P, Schug J, Kaestner KH.

Nucleic Acids Res. 2009 Sep;37(17):e113. doi: 10.1093/nar/gkp536. Epub 2009 Jun 24.

10.

A hidden Ising model for ChIP-chip data analysis.

Mo Q, Liang F.

Bioinformatics. 2010 Mar 15;26(6):777-83. doi: 10.1093/bioinformatics/btq032. Epub 2010 Jan 28.

11.

A Bayesian hidden Markov model for motif discovery through joint modeling of genomic sequence and ChIP-chip data.

Gelfond JA, Gupta M, Ibrahim JG.

Biometrics. 2009 Dec;65(4):1087-95. doi: 10.1111/j.1541-0420.2008.01180.x. Epub .

12.

ChIP-PaM: an algorithm to identify protein-DNA interaction using ChIP-Seq data.

Wu S, Wang J, Zhao W, Pounds S, Cheng C.

Theor Biol Med Model. 2010 Jun 3;7:18. doi: 10.1186/1742-4682-7-18.

13.

Modeling ChIP sequencing in silico with applications.

Zhang ZD, Rozowsky J, Snyder M, Chang J, Gerstein M.

PLoS Comput Biol. 2008 Aug 22;4(8):e1000158. doi: 10.1371/journal.pcbi.1000158.

14.
15.

Normalization, bias correction, and peak calling for ChIP-seq.

Diaz A, Park K, Lim DA, Song JS.

Stat Appl Genet Mol Biol. 2012 Mar 31;11(3):Article 9. doi: 10.1515/1544-6115.1750.

16.

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.

17.

Computational analysis of ChIP-seq data.

Ji H.

Methods Mol Biol. 2010;674:143-59. doi: 10.1007/978-1-60761-854-6_9.

PMID:
20827590
18.

Epigenetic analysis: ChIP-chip and ChIP-seq.

Pellegrini M, Ferrari R.

Methods Mol Biol. 2012;802:377-87. doi: 10.1007/978-1-61779-400-1_25.

PMID:
22130894
19.

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
20.

A practical comparison of methods for detecting transcription factor binding sites in ChIP-seq experiments.

Laajala TD, Raghav S, Tuomela S, Lahesmaa R, Aittokallio T, Elo LL.

BMC Genomics. 2009 Dec 18;10:618. doi: 10.1186/1471-2164-10-618.

Format
Items per page
Sort by

Send to:

Choose Destination

Supplemental Content

Write to the Help Desk