Arichard:Notebook/AR150908 mycoTest: Difference between revisions

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>Andrew
(Created page with "==Prep== ===Motivation=== High percentage (>50%) unaligned reads in recent C1 with GM12878 (8/17/2015). No visible contamination, but mycoplasma (<0.1 um diameter, antibioti...")
 
>Andrew
 
Line 20: Line 20:
==Results==
==Results==


[[File:AR150908_mycoTest.jpg|600px]]
[[File:AR150908_mycoTest_corrected.png|600px]]


We need to order mycoplasma DNA to use as a positive control; will repeat monthly or quarterly to monitor for mycoplasma contamination
We need to order mycoplasma DNA to use as a positive control; will repeat monthly or quarterly to monitor for mycoplasma contamination

Latest revision as of 18:20, 19 October 2015

Prep[edit]

Motivation[edit]

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[edit]

Test for mycoplasma contamination (not sure which species) using PCR

Protocol[edit]

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[edit]

File:AR150908 mycoTest corrected.png

We need to order mycoplasma DNA to use as a positive control; will repeat monthly or quarterly to monitor for mycoplasma contamination