SNPHunter: a bioinformatic software for single nucleotide polymorphism data acquisition and management

BMC Bioinformatics

Table 2 Comparisons between SNPHunter and other publicly available software/tool.

Software/Web tool	Type	Maintenance requirement	SNP search related functions					Primer design
			SNP search	Arbitrary flanking sequence length	Nearby SNP annotation	SNP selection interface	Graphic SNP illustration
NCBI dbSNP^a	Web-Server	None for user; server contains latest updated data	Yes	No	No	No	Yes	No
SNPper	Web-Server	None for user; server needs to update periodically	Yes^b	Yes	Yes	No	No	Yes
SNPHunter	Web-Client (depends on dbSNP for new SNP retrieval)	None for user; rely on dbSNP for data update	Yes^b	Yes	Yes	Yes^c	Yes	No
SNPicker	Web-Client (depends on NEB restriction-enzyme data)	None for user; rely on NEB for data update	No	No	No	No	No	Yes
SNPBox	Web-Server	None	No	No	No	No	No	Yes
viewGene	Software depends on annotated record	Needs to download annotated data	Yes	Yes	Yes	No	Yes	No

^adbSNP's Entrez query.
^bBoth SNPper and SNPHunter can do batch search for a list of genes instead of single gene at a time.
^cSNPHunter offers automatic SNP selection as well as manual selection.

ISSN: 1471-2105