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Amplification Assistant PCR Troubleshooting Program.
http://www.promega.com/amplification/assistant/

BioGuide - PCR
http://bioinformatics.weizmann.ac.il/mb/bioguide/pcr/contents.html

PCR and multiplex PCR: guide and troubleshooting
http://info.med.yale.edu/genetics/ward/tavi/PCR.html

PCR Applications Manual. Roche Molecular Biochemicals-Research
http://biochem.boehringer-mannheim.com/prod_inf/manuals/pcr_man/start.html

PCR-based sequence tagged sites have been used as landmarks for construction of various types of genomic maps. Using NCBI's "electronic PCR" program, these sites can be detected in DNA sequences, potentially allowing their map locations to be determined.
http://www.ncbi.nlm.nih.gov/STS/