Noi:Labnote tracking

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Labnote tracking

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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

2014-10-03                   Measurement of the size distribution of WGBS libraries generated from cfDNA
                             Using Bioanalyzer
 September 2014
2014-09-14                   Summary of BSPP sequencing libraries and their corresponding index
                             1) HiSeq Rapid run at Illumina (140912_D00171_0588)
                             2) HiSeq Rapid run at Illumina (140912_D00171_0589)

2014-09-10                   MONOD V5 set A + CRC BSPP capture of tumor DNA samples and ctDNA from Illumina
                             Also included some samples of WGBS libraries from normal and cancer cfDNA DNA

2014-09-08                   Preparation of WGBS libraries of ctDNA/cfDNA from Illumina (no DNA fragmentation step)
                             cfDNA, NORM1-02-P1, NORM1-03-P1, COLO2-03

2014-09-05                   MONOD V5 set A + CRC BSPP capture of tumor DNA samples
                             Also included few of WGBS libraries from normal and cancer cfDNA DNA
 August 2014
2014-08-27                   BSPP LMS cluster capture of colon cancer primary tumor DNA 
                             Need to finish labnote May not go to sequencing!

2014-08-25                   Additional cfDNA from Illumina (Nautica cfDNA) 
                             Library prep on 2014-09-08 

2014-08-24                   Summary of RRBS & WGBS libraries generated from plasma DNA

2014-08-21                   Expansion PCR of BSPP from CustomArrays 90K_ologos_04Aug2014 (8-20-14)
                             MONOD V5A or BSPP LMS cluster probes
2014-08-18                   Preparation of WGBS libraries of small fragment DNA in cancer patient plasma samples 
                            (no DNA fragmentation step, REPEAT with dAdGdCdT for end repair)

2014-08-15                  Preparation of WGBS libraries of small fragment DNA in normal control plasma samples 
                            (no DNA fragmentation step, with dAdGdCdT for end repair)  

2014-8-13                   Expansion PCR of new probe set from CustomArrays (90K_ologos_04Aug2014)
                            Should be MONOD V5A or BSPP LMS cluster BSPP
                            Bad oligos. Got re-synthesized of the new oligos by CustomArrays

2014-08-03                  Preparation of WGBS libraries of small fragment DNA in cancer patient plasma samples 
                            (no DNA fragmentation step)
                            I used dA:dC:dG for end repair. The later experiment was performed using all 4 bases for end repair

  July 2014