Protocols

ClusterScan specifications

Information


Unique identifier OMICS_30235
Name ClusterScan

Publication for ClusterScan

ClusterScan citations

 (2)
call_split

Assessing Computational Methods of Cis Regulatory Module Prediction

2010
PLoS Comput Biol
PMCID: 2996316
PMID: 21152003
DOI: 10.1371/journal.pcbi.1001020
call_split See protocol

[…] e a number of studies that search for tissue specific or stage specific CRMs based on a set of co-regulated genes. Some studies also include information from microarray expression data, such as LRA , ClusterScan , Composite Module Analyst , and ModuleMiner . Other methods scan only for regions where a small set of user defined transcription factors bind but do not predict novel CRMs, such as STORM […]

library_books

Genome wide prediction of HNF4α functional binding sites by the use of local and global sequence context

2008
Genome Biol
PMCID: 2374721
PMID: 18291023
DOI: 10.1186/gb-2008-9-2-r36

[…] latory sites for yet unknown TFs. Another set of methods has been developed to discover composite modules by utilizing information on potential binding sites for known TFs (stochastic methods such as ClusterScan [] and TOUCAN system [], and probabilistic methods such as reported in []). We combined these two approaches by computing local context as an exhaustive ab initio composite motif discovery […]

ClusterScan institution(s)
BIOBASE GmbH, Wolfenbuettel, Germany; Institute of Cytology & Genetics SB RAN, Novosibirsk, Russia; Research Group Bioinformatics, Gesellschaft für Biotechnologische Forschung mbH, Braunschweig, Germany
ClusterScan funding source(s)
Supported by Siberian Branch of Russian Academy of Sciences, by grant of Volkswagen-Stiftung (I/75941).

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