NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM1036459 Query DataSets for GSM1036459
Status Public on Sep 07, 2014
Title H2AX_iPSC_4N_negative_Bcell2
Sample type genomic
 
Channel 1
Source name iPS cell (Bcell2) genomic DNA
Organism Mus musculus
Characteristics strain: 129Sv/C57 mixed background
Treatment protocol No treatment
Growth protocol culture on feeder with standard media; just before get DNA, split cells on gelatin coated plates.
Extracted molecule genomic DNA
Extraction protocol Genomic DNA was extracted with Qiagen Dneasy Blood ans Tissue Kit (Cat No. 69504)
Label Cy5
Label protocol DNA samples were labled with Nimblegen's standard protocol
 
Channel 2
Source name ESC (s1b6a) genomic DNA
Organism Mus musculus
Characteristics strain: 129Sv/C57 mixed background
Treatment protocol No treatment
Growth protocol culture on feeder with standard media; just before get DNA, split cells on gelatin coated plates.
Extracted molecule genomic DNA
Extraction protocol Genomic DNA was extracted with Qiagen Dneasy Blood ans Tissue Kit (Cat No. 69504)
Label Cy3
Label protocol DNA samples were labled with Nimblegen's standard protocol
 
 
Hybridization protocol Labeled DNA hybridized to CGH array with Nimblegen's standard protocol
Scan protocol Arrays were scaned with Nimblegen's standard protocol
Description iPSC_Bcell2_vs_ESC CGH
Data processing Arrays were processed with Nimblegen's standard protocol
 
Submission date Nov 13, 2012
Last update date Sep 08, 2014
Contact name Andrew Zhuo Xiao
E-mail(s) andrew.xiao@yale.edu
Phone 203-785-5111
Organization name Yale Stem Cell Center
Department Genetics
Lab Andrew Xiao
Street address 10 Amistad St
City New Haven
State/province CT
ZIP/Postal code 06519
Country USA
 
Platform ID GPL15225
Series (2)
GSE42266 CNV analysis of iPS cell lines and H2A.X knockout ES cell
GSE42309 H2A.X function in mouse ESC and iPSC (ChIPSeq and CNVs)

Data table header descriptions
ID_REF
EXP_TAWU_532922_2012-03-29_Area2_532
REF_TAWU_532922_2012-03-29_Area2_635
RATIO
EXP_SPATIAL
REF_SPATIAL
RATIO_SPATIAL
EXP_NORM
REF_NORM
VALUE scaled, log2 (Sample/Control) ratio

Data table
ID_REF EXP_TAWU_532922_2012-03-29_Area2_532 REF_TAWU_532922_2012-03-29_Area2_635 RATIO EXP_SPATIAL REF_SPATIAL RATIO_SPATIAL EXP_NORM REF_NORM VALUE
CHR10FS003002777 13.585 13.803 -0.218 13.402 13.786 -0.384 13.365 13.729 -0.364
CHR10FS003003474 12.191 12.022 0.169 11.934 11.982 -0.048 11.911 12.023 -0.112
CHR10FS003009179 11.633 11.414 0.219 11.407 11.506 -0.099 11.434 11.510 -0.076
CHR10FS003012029 11.940 11.488 0.452 11.714 11.693 0.021 11.709 11.714 -0.005
CHR10FS003014147 12.615 12.264 0.352 12.296 12.398 -0.102 12.252 12.452 -0.200
CHR10FS003018290 12.666 12.335 0.331 12.526 12.525 0.001 12.474 12.580 -0.106
CHR10FS003022469 13.226 13.060 0.166 12.666 12.729 -0.063 12.610 12.780 -0.169
CHR10FS003026571 11.977 11.609 0.368 11.880 11.856 0.024 11.861 11.889 -0.028
CHR10FS003029938 13.013 12.581 0.432 12.286 12.029 0.257 12.242 12.072 0.171
CHR10FS003034088 12.920 12.294 0.626 12.643 12.347 0.295 12.588 12.401 0.187
CHR10FS003037417 10.583 11.421 -0.838 10.501 11.762 -1.260 10.671 11.788 -1.117
CHR10FS003039460 11.925 11.827 0.098 11.729 11.852 -0.123 11.722 11.885 -0.163
CHR10FS003042397 12.488 12.009 0.479 12.382 12.351 0.031 12.335 12.405 -0.070
CHR10FS003048283 12.009 11.952 0.057 11.910 12.176 -0.266 11.889 12.226 -0.337
CHR10FS003051779 12.626 12.529 0.098 11.790 11.774 0.015 11.778 11.802 -0.024
CHR10FS003056050 12.587 12.404 0.183 12.257 12.268 -0.012 12.215 12.321 -0.106
CHR10FS003056435 11.294 11.334 -0.040 11.009 11.368 -0.359 11.088 11.355 -0.266
CHR10FS003061196 11.643 12.063 -0.421 11.455 12.064 -0.609 11.476 12.108 -0.632
CHR10FS003065272 13.000 12.902 0.098 12.784 12.895 -0.111 12.727 12.941 -0.214
CHR10FS003067612 12.283 11.147 1.136 11.944 11.999 -0.055 11.921 12.040 -0.120

Total number of rows: 713358

Table truncated, full table size 54240 Kbytes.




Supplementary file Size Download File type/resource
GSM1036459_iPSC_Bcell2_vs_ESC.txt.gz 27.7 Mb (ftp)(http) TXT
GSM1036459_iPSC_Bcell2_vs_ESC_532.pair.gz 12.7 Mb (ftp)(http) PAIR
GSM1036459_iPSC_Bcell2_vs_ESC_635.pair.gz 12.6 Mb (ftp)(http) PAIR
Processed data included within Sample table
Processed data provided as supplementary file
| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap