ASSEDA specifications

Information


Unique identifier OMICS_02629
Name ASSEDA
Alternative name Automatic Splice Site and Exon Definition Analysis
Interface Web user interface
Restrictions to use License purchase required
Programming languages Perl
License Commercial
Computer skills Basic
Stability Stable
Registration required Yes
Maintained Yes

Taxon


  • Primates
    • Homo sapiens

Documentation


Maintainer


  • person_outline Peter Rogan <>

Publication for Automatic Splice Site and Exon Definition Analysis

ASSEDA in publications

 (7)
PMCID: 5824380
PMID: 29266775
DOI: 10.1111/jcmm.13425

[…] university of denmark, kongens lyngby, denmark), splice view, human splicing finder 2.4.1 version (aix marseille université, marseille, france) and automated splice site exon definition server‐asseda (university of western ontario, london, canada)., for the c.419delt variant, we amplified the exon and 250 bp of 5′and 3′ intronic junctions from the control and the gd patient dna […]

PMCID: 5553726
PMID: 28800606
DOI: 10.1371/journal.pone.0183081

[…] proteins and other ciliary proteins. when appropriate, the potential effect on splice sites was assessed using several prediction tools: nnsplice [], netgene2 [], human splicing finder [] and asseda [], all with default settings. finally, wes data were used to check if candidate variants localize in runs of homozygosity (roh) regions, what is expected in consanguineous cases. thus, […]

PMCID: 5618670
PMID: 28502102
DOI: 10.1111/jcmm.13147

[…] drosophila genome project (http://www.fruitfly.org/seq_tools/splice.html) , human splicing finder (hsf) 2.4.1 version (http://www.umd.be/hsf/) and automated splice site exon definition server‐asseda (http://splice.uwo.ca/) . finally, ese sequences were predicted with relative enhancer and silencer classification by unanimous enrichment‐rescue ese […]

PMCID: 5105265
PMID: 27835969
DOI: 10.1186/s12881-016-0342-y

[…] correction was applied as post hoc analysis (p < 0.05)., prediction analysis of significant snps were performed using automated splice site and exon definition analysis (http://splice.uwo.ca; asseda). asseda is a web interface, which provides a tool to predict the effects of sequence changes that alter mrna splicing in human disease. this tool is able to evaluate changes in splice site […]

PMCID: 4828881
PMID: 27067391
DOI: 10.1186/s12920-016-0178-5

[…] or greater than the nearest natural site of the same phase []. the effects of flagged variants were further analyzed in detail using the automated splice site and exon definition analysis (asseda) server []., exonic variants and those found within 500 nt of an exon were assessed for their effects, if any, on srfbss []. sequence logos for splicing regulatory factors (srfs) (srsf1, […]


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ASSEDA institution(s)
Department of Biochemistry, Western University, London, ON, Canada; Department of Computer Science, Western University, London, ON, Canada
ASSEDA funding source(s)
Natural Sciences and Engineering Research Council of Canada (371758-2009); Canadian Breast Cancer Foundation; Canada Foundation For Innovation; Canada Research Chairs; Compute Canada; Western University; Cytognomix Inc.

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