RT Journal
A1 Yang, Qinghong
A1 Lishanski, Alla
A1 Yang, Wendy
A1 Hatcher, Sandra
A1 Seet, Henrietta
A1 Gregg, Jeffrey P.
T1 Allele-Specific Holliday Junction Formation: A New Mechanism of Allelic Discrimination for SNP Scoring
JF Genome Research 
JO Genome Research 
YR 2003 
FD July 01 
VO 13 
IS 7 
SP 1754 
OP 1764 
DO 10.1101/gr.997703 
UL http://genome.cshlp.org/content/13/7/1754.abstract 
AB We report here a new mechanism for allelic
 discrimination—allele-specific Holliday Junction formation. The Holliday
 Junction (HJ) is a unique DNA structure that can be formed in a
 sequence-nonspecific manner by routine PCR. To cause the PCR-based HJ
 formation to occur in an allele-specific manner, the PCR primers are
 manipulated such that an extra mismatch next to a SNP of interest is
 introduced between a target and a reference amplicon and a GC-clamp is added.
 Based on this new mechanism, novel SNP genotyping methods were developed,
 including a homogeneous fluorescence polarization (FP) competition assay that
 requires neither labeled primers/probes nor expensive enzymes/substrates.
 Using this novel genotyping technology, we were able to convert >95% of SNP
 sequences into genotyping assays that work well under a universal set of assay
 conditions and achieved 100% accuracy in clinical samples.