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VNTRseek specifications


Unique identifier OMICS_05110
Name VNTRseek
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes


No version available

Publication for VNTRseek

VNTRseek citations


A Census of Tandemly Repeated Polymorphic Loci in Genic Regions Through the Comparative Integration of Human Genome Assemblies

Front Genet
PMCID: 5941971
PMID: 29770143
DOI: 10.3389/fgene.2018.00155

[…] ta (Illumina technology), to determine polymorphism. The method of Gelfand et al. () aims at discovering VNTR by applying TRF to the reference genome to define a list of candidate TR, and by applying VNTRseek to collections of reads [two trios from the 1000 Genomes Project read data (Illumina) and the Watson and Khoisan data (Roche 454 technology)], although a final catalog of VNTR is not produced […]


The association of insertions/deletions (INDELs) and variable number tandem repeats (VNTRs) with obesity and its related traits and complications

PMCID: 5471687
PMID: 28615046
DOI: 10.1186/s40101-017-0142-x

[…] he advent of faster and cheaper next-generation genome and exome sequencing, paired with the rise of the software availability for genome-wide detection of INDELs (like indelMINER []) and VNTRs (like VNTRseek []), it is hoped that association and functional characterization studies between INDELs/VNTRs and obesity should be continued and not neglected. […]


Systematic Profiling of Short Tandem Repeats in the Cattle Genome

Genome Biol Evol
PMCID: 5381564
PMID: 28172841
DOI: 10.1093/gbe/evw256

[…] ase pairs, we limited our analyses to these types of STRs on bovine autosomes. STRs with a motif size more than 6 bp were not covered in this study, which may require other detection programs such as VNTRseek (). […]


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VNTRseek institution(s)
Laboratory for Biocomputing and Informatics, Boston University, Boston, MA, USA; Graduate Program in Bioinformatics, Boston University, Boston, MA; Department of Computer Science, Boston University, Boston, MA, USA

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