Table 2.

Algorithms for Computational Prediction of Functional Impact of Sequence Variant/Splice Site Changes

Utility/function	Algorithm/software	Location (web address)
Missense SNV	PolyPhen237	http://genetics.bwh.harvard.edu/pph2
	SIFT38	http://sift.jcvi.org
	MutationAssessor39	http://mutationassessor.org
	MutationTaster41	http://www.mutationtaster.org
	PROVEAN45	http://provean.jcvi.org/index.php
	Condel46	http://bg.upf.edu/blog/2012/12/condel-for-prioritization-of-variants-involved-in-hereditary-diseases-and-transfic-for-cancer
	CoVEC40	https://sourceforge.net/projects/covec/files
	CADD47	http://cadd.gs.washington.edu
	GERP++48	http://mendel.stanford.edu/sidowlab/downloads/gerp/index.html
	PhyloP and PhastCons49	http://compgen.bscb.cornell.edu/phast
Splice site prediction	Human Splicing Finder42	http://www.umd.be/HSF3
	MaxEntScan43	http://genes.mit.edu/burgelab/maxent/Xmaxentscan_scoreseq.html
	NetGene244	http://www.cbs.dtu.dk/services/NetGene2
	NNSplice50	http://www.fruitfly.org/seq_tools/splice.html
	GeneSplicer51	http://www.cbcb.umd.edu/software/GeneSplicer/gene_spl.shtml

These are not comprehensive lists, and inclusion does not represent an organizational endorsement of any individual database or product. All websites last accessed June 7, 2016.

SNV, single-nucleotide variant.