Arichard:Notebook/AR150908 mycoTest
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Prep
Motivation
High percentage (>50%) unaligned reads in recent C1 with GM12878 (8/17/2015). No visible contamination, but mycoplasma (<0.1 um diameter, antibiotic resistant) is still a suspect.
Goal
Test for mycoplasma contamination (not sure which species) using PCR
Protocol
Protocol from Alice Li
File:MycoplasmaPCRScreeningProtocol-page-001.jpg File:MycoplasmaPCRScreeningProtocol-page-002.jpg File:MycoplasmaPCRScreeningProtocol-page-003.jpg File:MycoplasmaPCRScreeningProtocol-page-004.jpg
Results
We need to order mycoplasma DNA to use as a positive control; will repeat monthly or quarterly to monitor for mycoplasma contamination