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Sample GSM359309 Query DataSets for GSM359309
Status Public on Dec 01, 2009
Title H3K9me3 Yaswen2A RenLab ENCODE PCR tiling array replicate 1 llee_enc_H3K9me3_Yaswen2A_031608.gpr
Sample type genomic
 
Channel 1
Source name Chromatin immunoprecipitated DNA from Yaswen2A cells using H3K9me3 antibody
Organism Homo sapiens
Characteristics Chromatin immunoprecipitated DNA from Yaswen2A cells using H3K9me3 antibody
Extracted molecule genomic DNA
Extraction protocol GenePix
Label Cy5
Label protocol Cy3 input Cy5 ChIP sample
 
Channel 2
Source name Input DNA from Yaswen2A cells
Organism Homo sapiens
Characteristics Input DNA from Yaswen2A cells
Extracted molecule genomic DNA
Extraction protocol GenePix
Label Cy3
Label protocol Cy3 input Cy5 ChIP sample
 
 
Hybridization protocol GenePix
Scan protocol GenePix
Description ChIP-chip analyses were performed for various transcription factors and chromatin modifications in various cell types. Details to be described in publications.
Data processing raw data
 
Submission date Jan 09, 2009
Last update date Feb 19, 2009
Contact name Bing Ren
E-mail(s) biren@ucsd.edu
Organization name University of California, San Diego
Street address 9500 Gilman Drive
City La Jolla
State/province CA
ZIP/Postal code 92093
Country USA
 
Platform ID GPL1454
Series (1)
GSE14436 P16INK4a mediated supperssion of telomerase in normal and malignant human breast cells

Data table header descriptions
ID_REF ID_REF
VALUE log2 ratio (F635/F532) with flagged values removed
STATISTICS statistics
PVAL p-value
F635_INT F635 intensity with background intensity subtracted (normalized)
F532_INT F532 intensity with background intensity subtracted (normalized)
F635_MEDIAN F635 mdian intensity
F635_MEAN F635 mean intensity
F635_SD F635 standard deviation
B635_MEDIAN B635 median intensity
B635_MEAN B635 mean intensity
B635_SD B635 standard deviation
F532_MEDIAN F532 median intensity
F532_MEAN F532 mean intensity
F532_SD F532standard deviation
B532_MEDIAN B532 median intensity
B532_MEAN B532 mean intensity
B532_SD B532 standard deviation
FLAG flag from GenePro, 0 is useful
UNF_VALUE log ratio (F635/F532)

Data table
ID_REF VALUE STATISTICS PVAL F635_INT F532_INT F635_MEDIAN F635_MEAN F635_SD B635_MEDIAN B635_MEAN B635_SD F532_MEDIAN F532_MEAN F532_SD B532_MEDIAN B532_MEAN B532_SD FLAG UNF_VALUE
1 -0.457 0.94 5.973e-01 505.00 535.03 558 567 273 53 57 41 849 884 383 156 161 71 0 -0.457
2 -0.348 1.02 4.697e-01 462.00 453.96 517 559 263 55 59 44 747 775 286 159 163 73 0 -0.348
3 1.30 4.175e-01 10.00 7.72 55 61 47 57 61 45 156 165 75 159 164 72 -50 -0.585
4 1.30 4.121e-01 10.00 7.72 56 58 41 55 57 41 162 167 72 160 164 71 -50 -1.000
5 -0.574 0.87 7.264e-01 577.00 663.18 631 623 287 54 58 44 1012 992 430 153 159 67 0 -0.574
6 -0.339 1.02 4.566e-01 1204.00 1175.82 1260 1282 454 56 59 43 1676 1637 470 153 158 71 0 -0.339
7 -0.426 0.96 5.644e-01 935.00 969.69 991 990 486 56 59 43 1412 1377 486 156 162 72 0 -0.426
8 -0.391 0.99 5.226e-01 854.00 864.69 909 927 333 55 59 44 1277 1242 393 157 163 73 0 -0.391
9 -0.505 0.91 6.624e-01 837.00 917.19 892 911 301 55 59 44 1348 1435 396 160 164 72 0 -0.505
10 -0.062 1.24 1.614e-01 1280.00 1031.45 1337 1274 437 57 60 44 1488 1479 415 152 159 70 0 -0.062
11 -0.478 0.93 6.237e-01 446.00 479.44 501 530 218 55 57 43 779 793 304 158 164 74 0 -0.478
12 -1.168 0.58 9.870e-01 276.00 478.67 331 353 177 55 58 44 778 817 295 158 165 73 0 -1.168
13 -0.230 1.10 3.258e-01 776.00 702.56 834 814 294 58 61 44 1069 1029 343 159 165 74 0 -0.230
14 -0.722 0.79 8.640e-01 687.00 874.72 742 746 251 55 58 43 1293 1250 350 160 165 72 0 -0.722
15 -0.339 1.02 4.571e-01 631.00 616.09 687 671 257 56 59 44 959 930 326 161 167 74 0 -0.339
16 -0.169 1.15 2.555e-01 1083.00 940.35 1139 1135 323 56 60 44 1381 1395 326 163 168 71 0 -0.169
17 -0.425 0.96 5.657e-01 590.00 611.46 645 666 201 55 58 42 959 968 231 167 171 73 0 -0.425
18 -0.827 0.73 9.245e-01 823.00 1127.18 877 885 292 54 59 45 1624 1639 364 164 169 72 0 -0.827
19 1.30 4.163e-01 10.00 7.72 56 57 41 54 59 44 171 176 77 166 170 73 -50 -1.322
20 -1.054 0.62 9.779e-01 302.00 484.07 357 381 144 55 58 44 799 825 248 172 176 74 0 -1.054

Total number of rows: 25246

Table truncated, full table size 2327 Kbytes.




Supplementary file Size Download File type/resource
GSM359309.gpr.gz 2.4 Mb (ftp)(http) GPR
Processed data included within Sample table
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