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SpliceCenter specifications

Information


Unique identifier OMICS_18087
Name SpliceCenter
Interface Web user interface
Restrictions to use None
Output format TXT
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline John Weinstein <>

Publication for SpliceCenter

SpliceCenter in publications

 (9)
PMCID: 5870250
PMID: 29580241
DOI: 10.1186/s12943-018-0826-9

[…] knockdown (mentioned as aplf-kd hereafter). a significant depletion in aplf expression to 90% was observed in mdamb-231 cells (fig. ). in silico analysis for checking shrna specificity using splicecenter [http://projects.insilico.us/splicecenter/sirnacheck], web-based bioinformatics tool, could not detect any off-targets for this aplf shrna (additional file : figure s3a). an additional […]

PMCID: 5677027
PMID: 29116140
DOI: 10.1038/s41598-017-15281-0

[…] constructed primers was corroborated by primerblast and cross-checked using the ucsc genome browser (university of california, ca, usa) (supplementary data ). using ncbi primerblast and primercheck (splicecenter of genomics and bioinformatics group, lmp, ccr, nci), we could confirm that primers also targeted possible splicing and transcript variants (except for rna18s5), whereas no pseudogenes, […]

PMCID: 5269613
PMID: 28128342
DOI: 10.1038/srep41389

[…] similarity of the highly homologous dc-sign and l-sign transcripts, primers were designed in regions common to the splice variants but unique to the respective transcripts with the assistance of splicecenter software (in silico solutions, falls church, va). major bands were found at 707 bp (dc-sign), and 229 bp (l-sign), and 166 bp (l-sign), corresponding to refseqs dc-sign (cd209) […]

PMCID: 3674688
PMID: 23766705
DOI: 10.1155/2013/703568

[…] from affymetrix probe set inputs. astalavista [] provides alternative splicing prediction for transcriptome data from gencode, refseq, and ensembl as well as from custom gene datasets. furthermore, splicecenter [] is a web server for predicting the influence of alternative splicing on rt-pcr, rnai, microarray, and peptide-based data., both polya_db [] and alttrans provide the information […]

PMCID: 3265467
PMID: 22291933
DOI: 10.1371/journal.pone.0030317

[…] (cdna) platforms. also, the data obtained on different platforms needed to be reconciled, and the date of the studies preceded the availability of reliable resources like affyprobeminer and splicecenter . nevertheless, choi was able to detect functional differences between normal growth and cancer in terms of gene coexpression changes in broad areas of physiology: energy metabolism, […]


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SpliceCenter institution(s)
Genomics & Bioinformatics Group, Laboratory of Molecular Pharmacology, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA; Tiger Team Consulting, Fairfax, VA, USA; Gene Silencing Section, Genetics Branch, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA; Department of Biostatistics, Bioinformatics, and Biomathematics, Georgetown University Medical Center, Washington, DC, USA; Department of Bioinformatics and Computational Biology, M. D. Anderson Cancer Center, Houston, TX, USA
SpliceCenter funding source(s)
Supported in part by the Intramural Research Program of the NIH, National Cancer Institute, Center for Cancer Research and in part by Tiger Team Consulting.

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