StarORF statistics

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Associated diseases

Associated diseases

StarORF specifications

Information


Unique identifier OMICS_29194
Name StarORF
Interface Web user interface
Restrictions to use None
Programming languages Java
License BSD 2-clause “Simplified” License
Computer skills Basic
Stability Stable
Maintained Yes

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Documentation


Additional information


http://star.mit.edu/orf/userguide/usermanual.html

Information


Unique identifier OMICS_29194
Name StarORF
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages Shell (Bash)
License BSD 2-clause “Simplified” License
Computer skills Advanced
Stability Stable
Requirements
JRE
Maintained Yes

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Documentation


Additional information


http://star.mit.edu/orf/userguide/usermanual.html

StarORF in publications

 (4)
PMCID: 4979122
PMID: 27506390
DOI: 10.1186/s12864-016-2928-3

[…] known to be involved in the biosynthesis of aflatoxin [, ] and dothistromin []. contig17 was analysed as a potential gene cluster for additional genes involved in toxin production using the starorf application (html version; massachusetts institute of technology, usa). putative open reading frames (orf) were identified on contig17 and the protein sequences screened against the ncbi nr […]

PMCID: 3699600
PMID: 23843950
DOI: 10.1371/journal.pone.0066157

[…] chrna3, chrna4 isoform 1 and 2, chrna5, chrna7 and chrnb3 (coding for nachr subunits α3, α4, α5, α7 and ß3) were screened for in-frame start and stop codons upstream of the main start codon with the starorf finder (http://star.mit.edu/orf/runapp.html). snps validated by snp gene view of ncbi and located within the uorf sequence or creating/deleting a uorf were considered for investigation ()., […]

PMCID: 3628349
PMID: 23614038
DOI: 10.1371/journal.pone.0062217

[…] between the 3′ ends of e2 and e3, qrt-pcr assay specific for e2/e4 junction was not attainable., prediction of the open reading frame (orf) of specific rest variants was performed by using the starorf program (http://star.mit.edu/orf/runapp.html), and epigenetic information at the rest locus was retrieved from the ucsc genome browser (http://genome.ucsc.edu/cgi-bin/hggateway). comparisons […]

PMCID: 3647537
PMID: 23671843
DOI: 10.1155/2013/614923

[…] and converts them to amino acid codes, declaring their respective positions in the sequence. pairwise alignment also detects mutations, including single-nucleotide polymorphisms between sequences. starorf [] facilitates identification of the protein(s) encoded within a dna sequence. first, the dna sequence is transcribed into rna, and all potential orfs are identified. these orfs are encoded […]


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