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Associated diseases

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SpliceMiner specifications

Information


Unique identifier OMICS_18086
Name SpliceMiner
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Taxon


  • Invertebrates
    • Caenorhabditis elegans
    • Drosophila melanogaster
  • Mammals
    • Bos taurus
  • Plants and Fungi
    • Arabidopsis thaliana
    • Oryza sativa
  • Primates
    • Homo sapiens
  • Rodents
    • Mus musculus
    • Rattus norvegicus
  • Vertebrates
    • Danio rerio

Maintainer


  • person_outline Ari Kahn <>

Publication for SpliceMiner

SpliceMiner in publications

 (4)
PMCID: 5931765
PMID: 29732405
DOI: 10.1126/sciadv.aar2824

[…] subgroups (), which were based on the composition in relation to the dub catalytic motif. furthermore, we determined whether individual dub genes encoded isoforms that lack a functional domain using spliceminer (). the analysis reveals that more than half of all dubs (67%) have more than one splice variant (). fifty-two percent of the dubs have splicing variants that lacked a dub catalytic […]

PMCID: 5883543
PMID: 29614978
DOI: 10.1186/s12885-018-4103-5

[…] expression data. the probe sequences of ht hg-u133a downloaded from affymetrix were mapped against a database composed of refseq version 41 and genbank 178 complete coding sequences using spliceminer []. only perfect matches were considered and probes mapping to more than one gene were excluded. the output file from spliceminer and the ht hg-u133a chip definition file (cdf) […]

PMCID: 4981359
PMID: 27513731
DOI: 10.1371/journal.pone.0159454

[…] had exon splicing than ct genotype. due to the lack of samples from tt genotype patients, we were not able to perform cdna sequencing on these patients; however, using the online splicing database spliceminer [] (http://projects.insilico.us/spliceminer/gene.jsp), we did find evidence of stxbp2 exon7 splicing events just 21 bp downstream of the variant site, which is shown in detail in . […]

PMCID: 2715419
PMID: 19589142
DOI: 10.1186/1471-230X-9-51

[…] ptpn11 mrna splicing variants, of which 8 forms have been reported to date (spliceminor homepage developed by the genomics & bioinformatics group (gbg) of nci: http://www.tigerteamconsulting.com/spliceminer/). the ld data between the ptpn11 snps shown in figure is that for caucasians, and no precise information about ld in japanese is available at present. there are also some ptpn11 snps […]


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SpliceMiner institution(s)
Department of Bioinformatics, George Mason University, Fairfax, VA, USA; Laboratory of Molecular Pharmacology, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA; Tiger Team Consulting, Fairfax, VA, USA; Georgetown University, Washington, DC, USA; School of Informatics, Northern Kentucky University, Highland Heights, KY, USA
SpliceMiner funding source(s)
Supported in part by the Intramural Research Program of the NIH, National Cancer Institute, Center for Cancer Research.

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