Kun Zhang: Difference between revisions

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*[[Kun:LabNotes/ExonomeSeq|Human exome resequencing]]
*[[Kun:LabNotes/ExonomeSeq|Human exome resequencing]]
*[[Kun:LabNotes/Haplotyping|Human haplotyping]]
*[[Kun:LabNotes/Haplotyping|Human haplotyping]]
*[[Kun:LabNotes/GenomeSeq|Genome sequencing]]
*[[Kun:LabNotes/SingleCellExpr|Single-cell transcriptomics]]
*[[Kun:LabNotes/HiResChrPaint|Hi-resolution chromosome painting]]
*[[Kun:LabNotes/inSituSeq|in situ Sequencing]]
*[[Kun:LabNotes/MONOD|MONOD]]
__NOTOC__
__NOTOC__
===Oligonucleotide libraries===
===Oligonucleotide libraries===
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#Cosmic3760:[[Media:Amplifiable_MIP_design_KZ_v8.doc|CircPlex  V8]];[[Kun:LabNotes/ExonomeSeq/2007-12-21|Design]]
#Cosmic3760:[[Media:Amplifiable_MIP_design_KZ_v8.doc|CircPlex  V8]];[[Kun:LabNotes/ExonomeSeq/2007-12-21|Design]]
#E27kv2:[[Media:CircPlex_design_V10_DpnII.doc|CircPlex  V10 (Dpn II)]];[[Media:CircPlex_design_V10_nicking.doc|CircPlex  V10(Nicking)]]
#E27kv2:[[Media:CircPlex_design_V10_DpnII.doc|CircPlex  V10 (Dpn II)]];[[Media:CircPlex_design_V10_nicking.doc|CircPlex  V10(Nicking)]]
#Dec08:[[Media:CircPlex_design_VDec08.doc|CircPlex  VDec08]];[[Kun:LabNotes/ExonomeSeq|Design]];[[Media:Jan09_probe_allocation.xlsx|Jan09 order allocation.]]
#Dec08:[[Media:CircPlex_design_VDec08.doc|CircPlex  VDec08]];[[Kun:LabNotes/ExonomeSeq|Design]];[[Media:Jan09_probe_allocation.xlsx|Jan09 order allocation]];[http://genome-tech.ucsd.edu/LabNotes/upload/large_files/Exome_Probe_info.txt Detailed probe information]
##[[Media:RefExonJan09-1.xlsx.gz|Jan09 Chip 1]] OLID 0225271
##[[Media:RefExonJan09-1.xlsx.gz|Jan09 Chip 1]] OLID 0225271
##[[Media:RefExonJan09-2.xlsx.gz|Jan09 Chip 2]] OLID 0225281
##[[Media:RefExonJan09-2.xlsx.gz|Jan09 Chip 2]] OLID 0225281
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##[[Media:RefExonJan09-5.xlsx.gz|Jan09 Chip 5]] OLID 0225311
##[[Media:RefExonJan09-5.xlsx.gz|Jan09 Chip 5]] OLID 0225311
#Mar09
#Mar09
##Mar09-55k OLID 0232611
##[http://genome-tech.ucsd.edu/LabNotes/index.php/Kun:LabNotes/ExonomeSeq#March-09_order Mar09-55k] OLID 0232611
#Apr09
#Apr09
##Jan09-6 (binning set) OLID 0237871
##Jan09-6 (binning set) OLID 0237871
##Jan09-7 (binning set) OLID-0237861
##Jan09-7 (binning set) OLID-0237861
#Aug09
##Jan09-8 (binning set) OLID 0248471
##Jan09-9 (binning set) OLID-0253651


====BSPP====
====BSPP====
#Cpg28k:[[Media:Amplifiable_MIP_design_KZ_v8.doc|CircPlex  V8]]; [[Kun:LabNotes/CpgSeq|Design]]
#Cpg28k:[[Media:Amplifiable_MIP_design_KZ_v8.doc|CircPlex  V8]]; [[Kun:LabNotes/CpgSeq|Design]]
#Cpg30k
#[http://genome-tech.ucsd.edu/LabNotes/index.php/Kun:LabNotes/CpgSeq#Agilent_probes.2C_V2_.28April_2008.29 Cpg30k]
#cpgJan09
#[http://genome-tech.ucsd.edu/LabNotes/index.php/Kun:LabNotes/CpgSeq#Agilent_probes.2C_V3_.28Feb._2009.29 cpgJan09]
##CpgJan09A OLID 0231531
##CpgJan09A OLID 0231531
##CpgJan09B OLID 0232541
##CpgJan09B OLID 0232541
#CpgMm9A  OLID 0236741
#[http://genome-tech.ucsd.edu/LabNotes/index.php/Kun:LabNotes/CpgSeq#Mouse_probes_.28Apr._2009.29 CpgMm9A] OLID 0236741
#DMR220k: [[Kun:LabNotes/CpgSeq#Human_DMR_220k_probe_set_.28May_2010.29|Information]]
 
====Mix set====
#[[Media:ZhangSept09.txt|Sept09, 55k, 140mers]]
##[[Kun:LabNotes/ExonomeSeq/Baylor-exon-Sept09|Baylor-exon-Sept09]], Nicking adaptors, 12,370
##[[Kun:LabNotes/ExonomeSeq/Baylor-HybridCapture-FlyDup901|Baylor-HybridCapture-FlyDup901]], Gnirke 15bp adaptors, 2105
##[[Kun:LabNotes/ASE/CES36k18bp|CES36k18bp]], AP1V6s, 36,456
##[[Kun:LabNotes/ExonomeSeq/bisFirstE8k|bisFirstExon]], AP1V4, 4069, [[Media:CircPlex_design_VDec08.doc|Primer Info]]

Latest revision as of 00:23, 19 March 2014

Oligonucleotide libraries[edit]

ASE[edit]

  1. eSNP84k:CircPlex V4
  2. CES22k:CircPlex V6
  3. CES27k:CircPlex V6; Design
  4. CES27k9bp:CircPlex V9; Design
  5. CES18bp:CircPlex V11; Design

Exon capture[edit]

  1. E55kv1:CircPlex V7;Design
  2. Cosmic3760:CircPlex V8;Design
  3. E27kv2:CircPlex V10 (Dpn II);CircPlex V10(Nicking)
  4. Dec08:CircPlex VDec08;Design;Jan09 order allocation;Detailed probe information
    1. Jan09 Chip 1 OLID 0225271
    2. Jan09 Chip 2 OLID 0225281
    3. Jan09 Chip 3 OLID 0225291
    4. Jan09 Chip 4 OLID 0225301
    5. Jan09 Chip 5 OLID 0225311
  5. Mar09
    1. Mar09-55k OLID 0232611
  6. Apr09
    1. Jan09-6 (binning set) OLID 0237871
    2. Jan09-7 (binning set) OLID-0237861
  7. Aug09
    1. Jan09-8 (binning set) OLID 0248471
    2. Jan09-9 (binning set) OLID-0253651

BSPP[edit]

  1. Cpg28k:CircPlex V8; Design
  2. Cpg30k
  3. cpgJan09
    1. CpgJan09A OLID 0231531
    2. CpgJan09B OLID 0232541
  4. CpgMm9A OLID 0236741
  5. DMR220k: Information

Mix set[edit]

  1. Sept09, 55k, 140mers
    1. Baylor-exon-Sept09, Nicking adaptors, 12,370
    2. Baylor-HybridCapture-FlyDup901, Gnirke 15bp adaptors, 2105
    3. CES36k18bp, AP1V6s, 36,456
    4. bisFirstExon, AP1V4, 4069, Primer Info