title: PCR designer for restriction analysis of various types of sequence mutation.
abstract: Restriction analysis is widely used to detect gene mutations such as insertions, deletions and single nucleotide polymorphisms (SNPs). Although such mutation sites sometimes present some natural restriction sites to differentiate the wild-type and mutant sequences, mismatches are often needed in order to create artificial restriction fragment length polymorphisms (RFLPs). In this report, a computer program is described that screens for suitable restriction enzymes, introducing mismatches where appropriate and when necessary, designs primers using the information of the selected restriction enzymes, their recognition sequence and locations as well as the information about the mismatches if any. The program, supported by a WWW web interface, is intended to be used online.
authors.affiliation: Wellcome Trust Centre For Human Genetics, University of Oxford, Roosevelt Drive, Oxford OX3 7BN, UK. xiayi@well.ox.ac.uk
authors.forename: Xiayi
authors.initials: X
authors.lastname: Ke
authors.forename: Andrew
authors.initials: A
authors.lastname: Collins
authors.forename: Shu
authors.initials: S
authors.lastname: Ye
mesh_terms: D000581:Amidohydrolases / Q000235:genetics; D020137:Base Pair Mismatch; D001483:Base Sequence; D043523:Biotinidase; D017076:Computer-Aided Design; D017931:DNA Primers / Q000737:chemistry / Q000235:genetics; D004262:DNA Restriction Enzymes / Q000737:chemistry / Q000235:genetics; D030562:Databases, Protein; D006801:Humans; D016247:Information Storage and Retrieval / Q000379:methods*; D020407:Internet; D008969:Molecular Sequence Data; D009154:Mutation / Q000235:genetics*; D017354:Point Mutation / Q000235:genetics; D016133:Polymerase Chain Reaction / Q000379:methods*; D015183:Restriction Mapping / Q000379:methods*; D017422:Sequence Analysis, DNA / Q000379:methods*; D012984:Software
chemical_list: D017931:DNA Primers; D004262:DNA Restriction Enzymes; D000581:Amidohydrolases; D043523:Biotinidase