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Sample GSM1036460 Query DataSets for GSM1036460
Status Public on Sep 07, 2014
Title H2AX_iPSC_4N_negative_Bcell3
Sample type genomic
 
Channel 1
Source name iPS cell (Bcell3) 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_Bcell3_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_Area1_532
REF_TAWU_532922_2012-03-29_Area1_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_Area1_532 REF_TAWU_532922_2012-03-29_Area1_635 RATIO EXP_SPATIAL REF_SPATIAL RATIO_SPATIAL EXP_NORM REF_NORM VALUE
CHR10FS003002777 13.411 13.448 -0.036 13.407 13.678 -0.271 13.378 13.651 -0.273
CHR10FS003003474 12.085 11.818 0.267 11.978 11.933 0.046 11.949 11.974 -0.025
CHR10FS003009179 11.696 11.671 0.025 11.596 11.721 -0.125 11.594 11.751 -0.157
CHR10FS003012029 12.119 11.783 0.336 11.921 11.812 0.108 11.895 11.848 0.047
CHR10FS003014147 12.464 12.034 0.430 12.260 12.247 0.013 12.217 12.297 -0.081
CHR10FS003018290 12.450 12.136 0.313 12.458 12.585 -0.127 12.410 12.633 -0.223
CHR10FS003022469 13.111 12.534 0.576 12.730 12.536 0.193 12.680 12.585 0.094
CHR10FS003026571 11.818 11.308 0.511 11.874 11.800 0.074 11.851 11.835 0.016
CHR10FS003029938 12.805 12.421 0.384 12.289 12.141 0.149 12.245 12.189 0.057
CHR10FS003034088 12.770 12.256 0.514 12.607 12.258 0.348 12.556 12.309 0.247
CHR10FS003037417 10.356 11.618 -1.262 10.392 12.029 -1.637 10.575 12.075 -1.499
CHR10FS003039460 12.041 11.644 0.396 11.985 11.806 0.180 11.956 11.842 0.114
CHR10FS003042397 12.627 12.021 0.606 12.568 12.287 0.281 12.519 12.338 0.181
CHR10FS003048283 11.928 11.793 0.135 11.981 12.247 -0.266 11.951 12.298 -0.346
CHR10FS003051779 12.550 12.471 0.079 11.917 11.876 0.041 11.892 11.915 -0.023
CHR10FS003056050 12.640 12.593 0.047 12.372 12.315 0.058 12.326 12.365 -0.039
CHR10FS003056435 11.301 11.424 -0.123 11.111 11.380 -0.269 11.165 11.378 -0.214
CHR10FS003061196 11.896 11.408 0.489 11.899 11.847 0.052 11.875 11.885 -0.010
CHR10FS003065272 12.923 12.689 0.234 12.849 12.863 -0.014 12.798 12.901 -0.103
CHR10FS003067612 12.303 11.532 0.771 12.068 11.995 0.073 12.033 12.039 -0.007

Total number of rows: 713358

Table truncated, full table size 54257 Kbytes.




Supplementary file Size Download File type/resource
GSM1036460_iPSC_Bcell3_vs_ESC.txt.gz 27.7 Mb (ftp)(http) TXT
GSM1036460_iPSC_Bcell3_vs_ESC_532.pair.gz 12.6 Mb (ftp)(http) PAIR
GSM1036460_iPSC_Bcell3_vs_ESC_635.pair.gz 12.6 Mb (ftp)(http) PAIR
Processed data included within Sample table
Processed data provided as supplementary file
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