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Items: 8

1.

Identification of context-dependent motifs by contrasting ChIP binding data.

Mason MJ, Plath K, Zhou Q.

Bioinformatics. 2010 Nov 15;26(22):2826-32. doi: 10.1093/bioinformatics/btq546. Epub 2010 Sep 23.

2.

Transcription Factor Binding Site Mapping Using ChIP-Seq.

Jaini S, Lyubetskaya A, Gomes A, Peterson M, Park ST, Raman S, Schoolnik G, Galagan J.

Microbiol Spectr. 2014 Apr;2(2). doi: 10.1128/microbiolspec.MGM2-0035-2013. Review.

PMID:
26105820
3.

A survey of DNA motif finding algorithms.

Das MK, Dai HK.

BMC Bioinformatics. 2007 Nov 1;8 Suppl 7:S21. Review.

4.

Analysis of Genomic Sequence Motifs for Deciphering Transcription Factor Binding and Transcriptional Regulation in Eukaryotic Cells.

Boeva V.

Front Genet. 2016 Feb 23;7:24. doi: 10.3389/fgene.2016.00024. eCollection 2016. Review.

5.

Absence of a simple code: how transcription factors read the genome.

Slattery M, Zhou T, Yang L, Dantas Machado AC, Gordân R, Rohs R.

Trends Biochem Sci. 2014 Sep;39(9):381-99. doi: 10.1016/j.tibs.2014.07.002. Epub 2014 Aug 14. Review.

6.

Genomic repertoires of DNA-binding transcription factors across the tree of life.

Charoensawan V, Wilson D, Teichmann SA.

Nucleic Acids Res. 2010 Nov;38(21):7364-77. doi: 10.1093/nar/gkq617. Epub 2010 Jul 30. Review.

7.

Dry and wet approaches for genome-wide functional annotation of conventional and unconventional transcriptional activators.

Levati E, Sartini S, Ottonello S, Montanini B.

Comput Struct Biotechnol J. 2016 Jun 29;14:262-70. doi: 10.1016/j.csbj.2016.06.004. eCollection 2016. Review.

8.

Structural perspective of cooperative transcription factor binding.

Morgunova E, Taipale J.

Curr Opin Struct Biol. 2017 Mar 24;47:1-8. doi: 10.1016/j.sbi.2017.03.006. [Epub ahead of print] Review.

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