Kun Zhang: Difference between revisions
Jump to navigation
Jump to search
mNo edit summary |
mNo edit summary |
||
(39 intermediate revisions by the same user not shown) | |||
Line 1: | Line 1: | ||
*[[Kun:LabNotes/ASE|Allele-specific Expression]] | *[[Kun:LabNotes/ASE|Allele-specific Expression]] | ||
*[[Kun:LabNotes/CpgSeq| | *[[Kun:LabNotes/CpgSeq|Targeted bisulfite sequencing]] | ||
*[[Kun:LabNotes/ExonomeSeq|Human | *[[Kun:LabNotes/ExonomeSeq|Human exome resequencing]] | ||
*[[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=== | ||
Line 7: | Line 13: | ||
#eSNP84k:[[Media:Amplifiable_MIP_design_KZ_v4.doc|CircPlex V4]] | #eSNP84k:[[Media:Amplifiable_MIP_design_KZ_v4.doc|CircPlex V4]] | ||
#CES22k:[[Media:Amplifiable_MIP_design_KZ_v6.doc|CircPlex V6]] | #CES22k:[[Media:Amplifiable_MIP_design_KZ_v6.doc|CircPlex V6]] | ||
#CES27k:[[Media:Amplifiable_MIP_design_KZ_v6.doc|CircPlex V6]] | #CES27k:[[Media:Amplifiable_MIP_design_KZ_v6.doc|CircPlex V6]]; [[Kun:LabNotes/ASE|Design]] | ||
#CES27k9bp:[[Media:Amplifiable_MIP_design_KZ_v9.doc|CircPlex V9]]; [[Kun:LabNotes/ASE|Design]] | |||
#CES18bp:[[Media:Amplifiable_MIP_design_KZ_v11.doc|CircPlex V11]]; [[Kun:LabNotes/ASE|Design]] | |||
====Exon capture==== | ====Exon capture==== | ||
#E55kv1:[[Media: | #E55kv1:[[Media:CircPlex_design_V7.doc|CircPlex V7]];[[Kun:LabNotes/ExonomeSeq/2007-11-15|Design]] | ||
#Cosmic3760:[[Media:Amplifiable_MIP_design_KZ_v8.doc|CircPlex V8]] | #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)]] | ||
#Cpg28k:[[Media:Amplifiable_MIP_design_KZ_v8.doc|CircPlex V8]] | #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:RefExonJan09-2.xlsx.gz|Jan09 Chip 2]] OLID 0225281 | |||
##[[Media:RefExonJan09-3.xlsx.gz|Jan09 Chip 3]] OLID 0225291 | |||
##[[Media:RefExonJan09-4.xlsx.gz|Jan09 Chip 4]] OLID 0225301 | |||
##[[Media:RefExonJan09-5.xlsx.gz|Jan09 Chip 5]] OLID 0225311 | |||
#Mar09 | |||
##[http://genome-tech.ucsd.edu/LabNotes/index.php/Kun:LabNotes/ExonomeSeq#March-09_order Mar09-55k] OLID 0232611 | |||
#Apr09 | |||
##Jan09-6 (binning set) OLID 0237871 | |||
##Jan09-7 (binning set) OLID-0237861 | |||
#Aug09 | |||
##Jan09-8 (binning set) OLID 0248471 | |||
##Jan09-9 (binning set) OLID-0253651 | |||
====BSPP==== | |||
#Cpg28k:[[Media:Amplifiable_MIP_design_KZ_v8.doc|CircPlex V8]]; [[Kun:LabNotes/CpgSeq|Design]] | |||
#[http://genome-tech.ucsd.edu/LabNotes/index.php/Kun:LabNotes/CpgSeq#Agilent_probes.2C_V2_.28April_2008.29 Cpg30k] | |||
#[http://genome-tech.ucsd.edu/LabNotes/index.php/Kun:LabNotes/CpgSeq#Agilent_probes.2C_V3_.28Feb._2009.29 cpgJan09] | |||
##CpgJan09A OLID 0231531 | |||
##CpgJan09B OLID 0232541 | |||
#[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
- Allele-specific Expression
- Targeted bisulfite sequencing
- Human exome resequencing
- Human haplotyping
- Genome sequencing
- Single-cell transcriptomics
- Hi-resolution chromosome painting
- in situ Sequencing
- MONOD
Oligonucleotide libraries[edit]
ASE[edit]
- eSNP84k:CircPlex V4
- CES22k:CircPlex V6
- CES27k:CircPlex V6; Design
- CES27k9bp:CircPlex V9; Design
- CES18bp:CircPlex V11; Design
Exon capture[edit]
- E55kv1:CircPlex V7;Design
- Cosmic3760:CircPlex V8;Design
- E27kv2:CircPlex V10 (Dpn II);CircPlex V10(Nicking)
- Dec08:CircPlex VDec08;Design;Jan09 order allocation;Detailed probe information
- Jan09 Chip 1 OLID 0225271
- Jan09 Chip 2 OLID 0225281
- Jan09 Chip 3 OLID 0225291
- Jan09 Chip 4 OLID 0225301
- Jan09 Chip 5 OLID 0225311
- Mar09
- Mar09-55k OLID 0232611
- Apr09
- Jan09-6 (binning set) OLID 0237871
- Jan09-7 (binning set) OLID-0237861
- Aug09
- Jan09-8 (binning set) OLID 0248471
- Jan09-9 (binning set) OLID-0253651
BSPP[edit]
- Cpg28k:CircPlex V8; Design
- Cpg30k
- cpgJan09
- CpgJan09A OLID 0231531
- CpgJan09B OLID 0232541
- CpgMm9A OLID 0236741
- DMR220k: Information
Mix set[edit]
- Sept09, 55k, 140mers
- Baylor-exon-Sept09, Nicking adaptors, 12,370
- Baylor-HybridCapture-FlyDup901, Gnirke 15bp adaptors, 2105
- CES36k18bp, AP1V6s, 36,456
- bisFirstExon, AP1V4, 4069, Primer Info