HSF protocols

HSF specifications

Information


Unique identifier OMICS_00176
Name HSF
Alternative name Human Splicing Finder
Interface Web user interface
Restrictions to use Academic or non-commercial use
Input data A single sequence
Computer skills Basic
Version 3.1
Stability Stable
Maintained Yes

Taxon


  • Primates
    • Homo sapiens

Maintainers


Publication for Human Splicing Finder

HSF IN pipelines

 (4)
2017
PMCID: 5525221
PMID: 28738860
DOI: 10.1186/s12885-017-3488-x

[…] block structure and the association of haplotypes with breast/ovarian cancer were analysed using haploview. the functionality of the identified variants was predicted using haploreg, regulomedb, human splicing finder, and pathogenic-or-not-pipeline 2., altogether, 12 germline emsy variants were observed. two alterations were located in the coding region, five alterations were intronic, […]

2015
PMCID: 4450850
PMID: 26031516
DOI: 10.1186/s12967-015-0525-x

[…] lt;10 bp from) a sequence region containing 2 hexamer non-coding elements (also named as intron identity elements or iie), which may act as splicing motifs, according to the algorithms implemented in human splicing finder [12]. these motifs contain the following sequences: atggtg and tggtgg [12, 13].table 3genevariantindividual id and phenotypegenotype macf1 1:39,854,1319 (ss)(ac) macf1/kiaa0754 1 […]

2014
PMCID: 4120243
PMID: 24997988
DOI: 10.1038/ng.3031

[…] except for the insertion of a block trimming step as described in 33. serial sections were aligned using the trakem2 plugin 43 from fiji 44., homozygositymapper, http://www.homozygositymapper.org/, human splicing finder, http://www.umd.be/hsf/, polyphen-2, http://genetics.bwh.harvard.edu/pph2/, nhlbi exome sequencing project (esp) exome variant server, http://evs.gs.washington.edu/evs/, […]

2013
PMCID: 3751836
PMID: 24009725
DOI: 10.1371/journal.pone.0073020

[…] aat cdna was determined by orf finder at ncbi (www.ncbi.nlm.nih.gov/gorf/)., to identify snps with potential impact on splicing of serpina1 gene, mutant and wild sequences were analyzed with the human splicing finder software (http://139.124.156.135:2300/), which includes several matrices to analyze splice sites and splicing silencers and enhancers., to determine the potential deleterious […]

HSF institution(s)
INSERM, U827, Montpellier, France; CHU Montpellier, Hopital Arnaud de Villeneuve, Laboratoire de Genetique Moleculaire, Montpellier, France; Universite Montpellier 1, UFR Medecine, Montpellier, France
HSF funding source(s)
Supported by European Community Seventh Framework Program (FP7/2007-2013) under grant agreement number 200754—the GEN2PHEN project, the European Community Sixth Framework Program (FP6) under grant agreement number 036825 and TREAT-NMD Network of Excellence.

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