Noi/NOTES/2014-12-16

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LMS (MONOD V5A) BSPP capture on WGBS libraries prepared from cfDNA of normal control and cancer patient

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Continued from 2014-12-05

  • Conditions:
    • Probe set: MONOD V5 set A (LMS)
    • Probe:target ratio: 150:1 for LMS probe set. Please note that as I used very high amount of WGBS libraries for BSPP capture, I reduced probe to target ratio from 200:1 to 150:1. The main reason is I do not have enough LMS BSPP to capture 50 sample with 600ng DNA each.
    • Sample: WGBS libraries prepared by KAPA Hyper Prep Kit (2014-12-05) amount 400ng

Probe calculation (Example)

Probe set 	        Probe size	Probe:target ratio
LMS                     73,574	              150:1