PupaSNP Finder pipeline

PupaSNP Finder specifications

Information


Unique identifier OMICS_24003
Name PupaSNP Finder
Alternative name PupaSNP
Interface Web user interface
Restrictions to use None
Input data A list of genes.
Output data A list of all the SNPs with possible phenotypic effect.
Computer skills Basic
Maintained No

Maintainer


This tool is not available anymore.

Publication for PupaSNP Finder

PupaSNP Finder IN pipelines

 (2)
2013
PMCID: 3635969
PMID: 23633938
DOI: 10.1371/journal.pcbi.1002902

[…] one (e.g. mutations affecting transcription factor or microrna binding sites). in recent years a number of methods were created for identifying mutations as functionally deleterious. promolign [84], pupasnp finder [85], and raven [86] look for snps affecting transcription, snpper [87] finds and annotates snp locations, conservation, and possible functionalities so that they can be visually […]

2009
PMCID: 2762536
PMID: 19434427
DOI: 10.1007/s00439-009-0677-y

[…] companion tool to the snpper retrieval system and database that locates computationally predicted transcription factor-binding sites (riva and kohane 2002). both polymapr (freimuth et al. 2005) and pupasnp finder (conde et al. 2006) use computational methods to find possible exon splicing enhancer sites that can then be mapped to snp locations to find snps that potentially affect splicing. […]

PupaSNP Finder institution(s)
Bioinformatics Unit, Centro Nacional de Investigaciones Oncologicas (CNIO) Madrid, Spain; Hereditary Endocrine Cancer Group, Centro Nacional de Investigaciones Oncologicas (CNIO) Madrid, Spain
PupaSNP Finder funding source(s)
Supported by grant PI020919 from the Fondo de Investigaciones Sanitarias; by grant BIO2001-0068 from Ministerio de Ciencia y Tecnologia; a grant from Fundacio La Caixa and by the Spanish National Genotyping Centre (CeGen), funded by Genoma Espana, which is using this program for high-throughput SNP selection.

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