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BLiC specifications

Information


Unique identifier OMICS_20543
Name BLiC
Alternative name Bayesian Likelihood 2-Components
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes

Taxon


  • Plants and Fungi
    • Saccharomyces cerevisiae

Versioning


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Maintainer


  • person_outline Nir Friedman <>

Publication for Bayesian Likelihood 2-Components

BLiC in pipeline

2011
PMCID: 3333890
PMID: 22210892
DOI: 10.1093/nar/gkr1290

[…] terature (), and used to build a custom set of 597 models. the yy1 putative binding site identified through de novo motif discovery was added to this set. for some analyses, pwms were clustered using blic (). in this way we could reduce the complexity of our results using a non-redundant set of 229 pwms., in order to identify over-represented pwms in the yy1 putative binding sites proximal (±2.5 k […]


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BLiC in publications

 (3)
PMCID: 4654594
PMID: 26587879
DOI: 10.1371/journal.pbio.1002307

[…] motif search can be found in ., to statistically assess the similarity between motifs, we used position frequency matrices from the six positions downstream of ugua as input to motifcomparison (p-blic, 100 shuffles, no shift permitted between matrices) in the motifsuite []. motifcomparison calculated the p-value of the bayesian likelihood 2-component (blic) score [], and we considered two […]

PMCID: 3333890
PMID: 22210892
DOI: 10.1093/nar/gkr1290

[…] terature (), and used to build a custom set of 597 models. the yy1 putative binding site identified through de novo motif discovery was added to this set. for some analyses, pwms were clustered using blic (). in this way we could reduce the complexity of our results using a non-redundant set of 229 pwms., in order to identify over-represented pwms in the yy1 putative binding sites proximal (±2.5 k […]

PMCID: 3113574
PMID: 21343182
DOI: 10.1093/nar/gkr048

[…] specificity predictions, we used a simple metric that counted the number of positions at which the preferred base in prediction and experiment agree. we also implemented a simplified variant of the blic score, a recently introduced similarity measure for comparison of pfm columns (). the blic score is based on the jensen–shannon divergence, a standard measure of the distance between two […]


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BLiC institution(s)
School of Computer Science and Engineering, The Hebrew University, Jerusalem, Israel; Department of Molecular Genetics and Biotechnology, Faculty of Medicine, The Hebrew University, Jerusalem, Israel
BLiC funding source(s)
Supported by grants from the Israeli Science Foundation administered by the Israeli Academy of Sciences and Humanities, The Israeli Cancer Research Foundation, the Human Frontiers Science Program, and the National Institutes of Health.

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