Analyzing multiple data sets by interconnecting RSAT programs via SOAP Web services—an example with ChIP-chip data-Reference-Cited by-同舟云学术

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Analyzing multiple data sets by interconnecting RSAT programs via SOAP Web services—an example with ChIP-chip data

Published:2008-09-18 Issue:10 Volume:3 Page:1604-1615
ISSN:1754-2189
Container-title:Nature Protocols
language:en
Short-container-title:Nat Protoc

Author:

Sand Olivier,Thomas-Chollier Morgane,Vervisch Eric,van Helden Jacques

Publisher

Springer Science and Business Media LLC

Subject

General Biochemistry, Genetics and Molecular Biology

Link

http://www.nature.com/articles/nprot.2008.99.pdf

Reference20 articles.

1. Thomas-Chollier, M. et al. RSAT: regulatory sequence analysis tools. Nucleic Acids Res. 36, W119–W127 (2008).

2. Brohée, S. et al. NeAT: network analysis tools. Nucleic Acids Res. 36, Suppl_2 W444–W451 (2008).

3. Turatsinze, J.-V., Thomas-Chollier, M., Defrance, M. & van Helden, J. Using RSAT to scan genome sequences for transcription factor binding sites and cis-regulatory modules. Nat. Protoc. doi:10.1038/nprot.2008.97 (2008).

4. Defrance, M., Janky, R., Sand, O. & van Helden, J. Using RSAT oligo-analysis and dyad-analysis tools to discover regulatory signals in nucleic sequences. Nat. Protoc. doi:10.1038/nprot.2008.98 (2008).

5. Brohée, S., Faust, K., Lima-Mendez, G., Vanderstocken, G. & van Helden, J. Network Analysis Tools: from biological networks to clusters and pathways. Nat. Protoc. doi:10.1038/nprot.2008.100 (2008).

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2. RSAT 2015: Regulatory Sequence Analysis Tools;NUCLEIC ACIDS RES;2015

3. A complete workflow for the analysis of full-size ChIP-seq (and similar) data sets using peak-motifs;Nature Protocols;2012-07-26

4. RSAT 2011: regulatory sequence analysis tools;Nucleic Acids Research;2011-06-29

5. A Quick Guide to Large-Scale Genomic Data Mining;PLoS Computational Biology;2010-05-27

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