CORECLUST specifications

Unique identifier:
Software type:
Restrictions to use:
Input format:
.cnt, .mtf, .fa
Programming languages:
COnservative REgulatory CLUster STructure
Command line interface
Input data:
CORECLUST needs a file with TF matrices, a file with training sequences and a file with search sequences, or only a file with regulatory region structure (model parameters) and a file with searching sequences.
Operating system:
Computer skills:


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CORECLUST distribution




  • Anna A. Nikulova <>


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Faculty of Bioengineering and Bioinformatics, Lomonosov Moscow State University, Moscow, Russia; Research and Training Center ‘‘Bioinformatics’’, Institute for Information Transmission Problems, Russian Academy of Sciences, Moscow, Russia; Department of Oncology, Division of Biostatistics and Bioinformatics, Johns Hopkins University School of Medicine, Baltimore, MD, USA; Laboratory of Bioinformatics, State Research Institute of Genetics and Selection of Industrial Microorganisms, Genetika, Moscow, Russia; Department of Computational Systems Biology, Vavilov Institute of General Genetics, Russian Academy of Sciences, Moscow, Russia; Temporarily at Unite Mixte de Recherche CNRS (UMR 5800), Talence, France

Funding source(s)

Programs 6 and 17, Russian Academy of Sciences; Russian Foundation of Basic Research [grant numbers 09-04-92742, 11-04-02016-a, 10-04-92663-IND_a and 11-04-02051-a]; State Contract of Russian Ministry of Education and Science [grant numbers 07.514.11.4007 and 07.514.11.4005]; Russian Academy of Science Presidium Program on Molecular and Cellular Biology; Johns Hopkins University Framework for the Future; Commonwealth Foundation and the SKCCC Center for Personalized Cancer Medicine

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