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Consensus Sequence Searches specifications

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Unique identifier OMICS_20059
Name Consensus Sequence Searches
Alternative name Consensus
Software type Application/Script
Interface Command line interface
Restrictions to use None
Input data A sequence.
Input format FASTA
Output data A file containing alignments of the query sequence with consensus sequences.
Output format TXT (ASCII)
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes

Versioning


No version available

Maintainer


  • person_outline Dariusz Przybylski

Publications for Consensus Sequence Searches

Consensus Sequence Searches citations

 (2)
library_books

Genome‐Wide MicroRNA and Gene Analysis of Mesenchymal Stem Cell Chondrogenesis Identifies an Essential Role and Multiple Targets for miR‐140‐5p

2015
PMCID: 4737122
PMID: 26175215
DOI: 10.1002/stem.2093

[…] mir‐455 also has a similar requirement for sox9. the mature mir‐455 mirnas originate from a hairpin encoded within intron 10 of the col27a1 gene . in contrast to the mir‐140 locus consensus sequence searches fail to identify any potential proximal sox9 binding sites around the mir‐455 locus. expression of col27a1 itself is regulated by sox9 responsive elements in intron 1 . […]

library_books

Sequence characteristics of T4 like bacteriophage IME08 benome termini revealed by high throughput sequencing

2011
Virol J
PMCID: 3105952
PMID: 21524290
DOI: 10.1186/1743-422X-8-194

[…] the majority of the genome terminal bases since it is the only 5' terminal base in the hfss with very high frequencies., to characterize hfss, various analysis measures were applied, including consensus sequence searches, homology searches, and local thermal stability (melting temperature) plotting. for consensus sequence analysis, the top 20 hfss together with their upstream sequences […]


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Consensus Sequence Searches institution(s)
Department of Biochemistry and Molecular Biophysics, Columbia University, New York, NY USA; Broad Institute of MIT and Harvard University, Cambridge, MA, USA; Columbia University Center for Computational Biology and Bioinformatics (C2B2), NorthEast Structural Genomics Consortium (NESG), New York Consortium on Membrane Protein Structure (NYCOMPS), NewYork, NY, USA
Consensus Sequence Searches funding source(s)
Supported by the grants R01-LM07329-01 from the National Library of Medicine (NLM) and U54-GM074958- 01 from the Protein Structure Initiative (PSI) of the National Institutes of Health (NIH).

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