sORF finder protocols

sORF finder specifications

Information


Unique identifier OMICS_18335
Name sORF finder
Alternative name Small Open Reading Frames
Interface Web user interface
Restrictions to use None
Input data Some nucleotide sequences.
Input format FASTA
Programming languages Perl
Computer skills Basic
Stability No
Maintained No

Maintainer


This tool is not available anymore.

Information


Unique identifier OMICS_18335
Name sORF finder
Alternative name Small Open Reading Frames
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data Some nucleotide sequences.
Input format FASTA
Operating system Unix/Linux
Programming languages Perl
Computer skills Advanced
Stability No
Maintained No

Versioning


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Maintainer


This tool is not available anymore.

Publication for Small Open Reading Frames

sORF finder IN pipeline

2013
PMCID: 3827094
PMID: 24251069
DOI: 10.4161/mge.26219

[…] of the toxin and the antitoxin gene and the sizes of the predicted genes.4,107 also a number of sequence independent search algorithms were established. for instance, in a search for pairs of small open reading frames with sizes of 65 to 135 amino acids each and a spacing of less than 150 bp, 18 pairs of putative ta systems were identified in the genome of e. coli mg1655. subsequent […]

sORF finder institution(s)
Plant Science Center, RIKEN, Yokohama, Japan; Bioinformatics and Systems Engineering Division, RIKEN, Yokohama, Japan; Department of Plant Biology, Michigan State University, East Lansing, MI, USA
sORF finder funding source(s)
RIKEN Plant Science Center, a program for promotion of Basic Research Activities for Innovative Biosciences (PROBRAIN); National Science Foundation grant (MCB-0749634).

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