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==Background== *Previously, we decided on filtering the probes designed on 20140922. This was done by taking the top 2000 probes from either gDNA, gDNA MDA, or C1 single cell capture then removing the very top 20. This is described on <http://genome-tech.ucsd.edu/LabNotes/index.php/Chris:LabNotes/FateMapping/Calendar/2015/2015-5-23>. Theoretically, by cherry picking the top probes and removing the very top, we should get much better probe capture/more even bias compared to the larger probe set. *However, upon probe capture on new BA17 C1 single cell amplicons done on <http://genome-tech.ucsd.edu/LabNotes/index.php/Chris:LabNotes/FateMapping/Calendar/2015/2015-6-15>, we did some analysis on the sequencing data and it looks like bias actually turned out to be worse. *We will be verifying probe design today. One potential concern is that the probes may have been designed/ordered differently than originally done, so we will be looking at the scripts that Dr. Zhang used to design these probes and also the final ordering file sent to CustomArray *As a reminder, the two different probe sets were used on different single cell amplicons from BA17 (2015_02_26 C1 run): Well # Probe Set Capture Link G1 Original http://genome-tech.ucsd.edu/LabNotes/index.php/Chris:LabNotes/FateMapping/Calendar/2015/2015-3-13 (Strip A = Hemo, Strip B = Phusion) H1 "" "" A2 "" "" B2 "" "" C2 "" "" D2 Filtered http://genome-tech.ucsd.edu/LabNotes/index.php/Chris:LabNotes/FateMapping/Calendar/2015/2015-6-15 E2 "" "" F2 "" "" G2 "" "" A3 "" ""
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