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Vocabulon specifications

Information


Unique identifier OMICS_09395
Name Vocabulon
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
License Academic Free License version 3.0
Computer skills Advanced
Stability Stable
Maintained No

Versioning


No version available

Publication for Vocabulon

Vocabulon citations

 (2)
library_books

Using Temporal Correlation in Factor Analysis for Reconstructing Transcription Factor Activities

2008
EURASIP J Bioinform Syst Biol
PMCID: 3171388
PMID: 18604288
DOI: 10.1155/2008/172840

[…] networks, limit our ability to assign factors to known tfs. sabatti and james. [] constrain the factors to known tfs by assigning a priori loadings matrix with a large number of zeros based on the vocabulon algorithm []. here, we aim to see if the fa algorithm is also able to reconstruct the activity profiles without any prior information. to assess how well profiles are reconstructed, […]

library_books

Factor analysis for gene regulatory networks and transcription factor activity profiles

2007
BMC Bioinformatics
PMCID: 1821042
PMID: 17319944
DOI: 10.1186/1471-2105-8-61

[…] the factor loadings matrix at each step of the gibbs sampler and to facilitate the reconstruction process, they set a large number of entries to zero based on information obtained from the vocabulon algorithm []. this algorithm scans dna sequences for multiple motifs and associates with each transcription factor a probability of binding to a specific site. this approach resembles […]


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Vocabulon institution(s)
Departments of Human Genetics and Statistics, UCLA Los Angeles, CA, USA; Department of Chemical Engineering, UCLA Los Angeles, CA, USA; Department of Biomathematics, UCLA Los Angeles, CA, USA

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