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PCR was performed in a final reaction volume of 50μl consisting of 20μl purified DNA, 4μl 2.5 mM dNTP, 5 μl 10X buffer, 0.5 μl JumpStart™ Taq DNA polymerase, 2μl 10uM PCR primers and 37.5 μl water and the following thermal cycling program: 94°C 30 sec, 10 cycles of 94°C 30 sec, 60°C 30 sec, 72°C 30 sec then prolong with 1 min at 72°C.
PCR was carried out in a final reaction volume of 50 μl that included 10 μl eluted bisulfite conversion products, 4 μl 2.5 mM dNTP, 5 μl 10× buffer, 0.5 μl JumpStart™ Taq DNA Polymerase, 2 μl PCR primers and 28.5 μl water.
Donations can be made to his favorite charities: Gilda's Club Worldwide: 322 Eighth Avenue, Suite 1402, New York, NY 10001; Jumpstart MidAtlantic Region: 505 Eighth Avenue, Suite 602, New York, NY 10018; and Princeton University (Class of 1970): P.O.
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Each 25 µL reaction contained 1× JumpStart REDTaq Ready Mix (Sigma-Aldrich, St .Louis, Missouri, USA), 100 nM of each primer, and 1 µL DNA extract (ca. 0.1 ng).
The following DNA polymerases from commercial vendors designed for qPCR were used in the experiments reported here: Amplitaq Gold (ABI, CA; Roche lot # J02913); Platinum Taq (Invitrogen, CA; cat # 10966 026; lot 1169610); Platinum HiFi Taq (Invitrogen, CA; cat# 11304 011; lot# 1267490); HotStar Taq (Qiagen, CA; Mat # 1007837; lot # 124125007); JumpStart Taq (Sigma, MO; cat # D-6558; lot # 71K9029).
PCR conditions for KRAS: 50 ng DNA, 0.5 μg primer, 10 mℳ dNTP, 1 mℳ MgCl2 and 0.4U JumpStart Taq (Sigma, Stockholm, Sweden) in a total volume of 20 μl.
PCR conditions for PIK3CA exon 20: 50 ng DNA, 0.5 μg primer, 10 mℳ dNTP, 3 mℳ MgCl2 and 0.4U JumpStart Taq (Sigma, Stockholm, Sweden) in a total volume of 20 μl.
All PCR reactions had a final volume of 20 μL and contained 10 μL of 2× Jumpstart cyber green reaction mix, 0.2 μL 1 μM flourescein, 2.4 μL 25 mM MgCl2, 0.2 μL 10 μM forward primer, 0.2 μL 10 μM reverse primer, 2 μL template (20 ng/μL) and 5 μL sterile H2O.
To cast the polyacrylamide gels used for the immobilized PCR reaction, a master mix was first made for 12 polony gels (131.0 μL of filter-sterilized doubly deionized water, 25.5 μL of 10X JumpStart Taq Polymerase Reaction Buffer (Sigma, St . Louis MO), 2.55 μL of dNTP (20 mM each), 1.5 μL of 30% BSA (Sigma), 2.55 μL 10% Tween 20, and 56.16 μL of degassed, filter-sterilized acrylamide).
Each PCR reaction (final volume of 20 μl) contained: 5 ng DNA (Qiagen purified DNA kit #69104), 10 μl JumpStart™ REDTaq® ReadyMix (Sigma #0982), 5 μls water, forward and reverse primers at final concentration 0.5 μM.
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