Table 1.

Bioinformatics tools and databases integrated into F-SNP (Release 1.0. August 2007)

Functional category	Tool	URL
Protein coding	PolyPhen (6)	http://genetics.bwh.harvard.edu/pph/data/index.html
	SIFT (7)	http://blocks.fhcrc.org/sift/SIFT.html
	SNPeffect (8)	http://snpeffect.vib.be/index.php
	SNPs3D (9)	http://www.snps3d.org/modules.php?name=SNPtargets
	LS-SNP (10)	http://alto.compbio.ucsf.edu/LS-SNP/Queries.html
	Ensembl (4)	http://www.ensembl.org/index.html
Splicing regulation	ESEfinder (11)	http://rulai.cshl.edu/cgi-bin/tools/ESE3/esefinder.cgi
	RescueESE (12)	http://genes.mit.edu/burgelab/rescue-ese/
	ESRSearch (13)	http://ast.bioinfo.tau.ac.il/
	PESX (14)	http://cubweb.biology.columbia.edu/pesx/
	Ensembl (4)	http://www.ensembl.org/index.html
Transcriptional regulation	TFSearch (15)	http://www.cbrc.jp/research/db/TFSEARCH.html
	Consite (16)	http://asp.ii.uib.no:8090/cgi-bin/CONSITE/consite/
	GoldenPath (17)	http://genome.ucsc.edu/
	Ensembl (4)	http://www.ensembl.org/index.html
Post-translation	KinasePhos (18)	http://kinasephos.mbc.nctu.edu.tw/
	OGPET (19)	http://ogpet.utep.edu/
	Sulfinator (20)	http://www.expasy.ch/tools/sulfinator/
Conserved region	GoldenPath (17)	http://genome.ucsc.edu/

For each possible functional category into which a SNP may be classified, the table provides the tools that examine this function, and the URL from which the respective tool is available (as of August 2007). The category Conserved Region in the last row is not a functional category in-and-of itself, but is informative in determining the effect of SNPs on splicing and transcriptional regulation.