Noi:Labnote tracking: Difference between revisions
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'''Date Description''' | '''Date Description''' | ||
'''December 2014''' | '''December 2014''' | ||
2014-12-11 RRBS library prep, mouse hippocampus gDNA (Zhou's lab) | |||
2014-12-08 LMS + CRC BSPP capture on WGBS libraries prepared from ctDNA | |||
of CRC patient (Illumina) | of CRC patient (Illumina) | ||
2014-12-05 WGBS library prep and BSPP capture of cfDNA from Illumina (with Li Liu) | |||
ctDNA of colorectal cancer (CRC) patients from Illumina | ctDNA of colorectal cancer (CRC) patients from Illumina | ||
(samples from Kansas University) | (samples from Kansas University) | ||
2014-12-04 SeqCap Epi probe pool (UMR v1) hybridization capture on cancer patient | |||
WGBS libraries (plasma/tumor tissue DNA, ) | WGBS libraries (plasma/tumor tissue DNA, ) | ||
2nd experiment (used 3 tubes of LMS SeqCap probe pool) | 2nd experiment (used 3 tubes of LMS SeqCap probe pool) | ||
'''November 2014''' | '''November 2014''' | ||
2014-11-25 Comparison of the efficiency between TruSeq adaptor and a customized | |||
unmethylated Y-adaptor with UMI | unmethylated Y-adaptor with UMI | ||
[[Noi/NOTES/2014-11-4|14-12-04]] SeqCap Epi probe pool (UMR v1) hybridization capture on normal and cancer | [[Noi/NOTES/2014-11-4|14-12-04]] SeqCap Epi probe pool (UMR v1) hybridization capture | ||
on normal and cancer patient WGBS libraries | |||
1st Experiment (used 2 tubes of LMS SeqCap probe pool) | 1st Experiment (used 2 tubes of LMS SeqCap probe pool) | ||
<u>Also included</u> | <u>Also included</u> | ||
Line 24: | Line 24: | ||
'''October 2014''' | '''October 2014''' | ||
2014-10-31 Repeating of BIS/DNA SMART ChIP-Seq protocol | |||
2014-10-29 Generation of sequencing library of a customized SeqCap EZ Epi Probe Pool | |||
to decode the sequences of LMS SeqCap probe pool | |||
Library generated by DNA SMART ChIP Seq Kit | Library generated by DNA SMART ChIP Seq Kit | ||
2014-10-24 Preparation of WGBS of cfDNA from plasma using KAPA Hyper Prep kit & | |||
NEXTflex Cell Free DNA-Seq kit | |||
To compare the efficiency between the two commercial kits | |||
Repeated experiment of 14-1022 | |||
2014-10-22 Preparation of WGBS of cfDNA from plasma using KAPA Hyper Prep kit | |||
2014-10-15 Expansion PCR of new probe set from CustomArrays (90k_oligos_30Sept2014) | |||
Bad oligos. Got re-synthesized of the new oligos by CustomArrays | |||
The new tube was amplified by [[Rui:LabNotes/Haplotyping/2014-11-12| Rui on 14-11-12]] | |||
2014-10-08 Integration of DNA SMART ChIP-Seq protocol with RRBS for low input DNA methylation assay |
Revision as of 12:41, 24 December 2014
Labnote tracking
Date Description December 2014 2014-12-11 RRBS library prep, mouse hippocampus gDNA (Zhou's lab) 2014-12-08 LMS + CRC BSPP capture on WGBS libraries prepared from ctDNA of CRC patient (Illumina) 2014-12-05 WGBS library prep and BSPP capture of cfDNA from Illumina (with Li Liu) ctDNA of colorectal cancer (CRC) patients from Illumina (samples from Kansas University) 2014-12-04 SeqCap Epi probe pool (UMR v1) hybridization capture on cancer patient WGBS libraries (plasma/tumor tissue DNA, ) 2nd experiment (used 3 tubes of LMS SeqCap probe pool)
November 2014 2014-11-25 Comparison of the efficiency between TruSeq adaptor and a customized unmethylated Y-adaptor with UMI 14-12-04 SeqCap Epi probe pool (UMR v1) hybridization capture on normal and cancer patient WGBS libraries 1st Experiment (used 2 tubes of LMS SeqCap probe pool) Also included Part I: Re-amplification of WGBS libraries of normal plasma samples
October 2014 2014-10-31 Repeating of BIS/DNA SMART ChIP-Seq protocol 2014-10-29 Generation of sequencing library of a customized SeqCap EZ Epi Probe Pool to decode the sequences of LMS SeqCap probe pool Library generated by DNA SMART ChIP Seq Kit 2014-10-24 Preparation of WGBS of cfDNA from plasma using KAPA Hyper Prep kit & NEXTflex Cell Free DNA-Seq kit To compare the efficiency between the two commercial kits Repeated experiment of 14-1022 2014-10-22 Preparation of WGBS of cfDNA from plasma using KAPA Hyper Prep kit 2014-10-15 Expansion PCR of new probe set from CustomArrays (90k_oligos_30Sept2014) Bad oligos. Got re-synthesized of the new oligos by CustomArrays The new tube was amplified by Rui on 14-11-12 2014-10-08 Integration of DNA SMART ChIP-Seq protocol with RRBS for low input DNA methylation assay