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Sample GSM171071 Query DataSets for GSM171071
Status Public on Mar 01, 2007
Title H3K27me3 HeLa RenLab ENCODE PCR tiling array replicate 1 ENC1713
Sample type genomic
 
Channel 1
Source name Chromatin immunoprecipitated DNA from HeLa cells using H3K27me3 antibody
Organism Homo sapiens
Characteristics Chromatin immunoprecipitated DNA from HeLa cells using H3K27me3 antibody
Extracted molecule genomic DNA
Extraction protocol NimbleGen
Label Cy5
Label protocol Cy3 input Cy5 ChIP sample
 
Channel 2
Source name Input DNA from HeLa cells
Organism Homo sapiens
Characteristics Input DNA from HeLa cells
Extracted molecule genomic DNA
Extraction protocol NimbleGen
Label Cy3
Label protocol Cy3 input Cy5 ChIP sample
 
 
Hybridization protocol NimbleGen
Scan protocol NimbleGen
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 Feb 23, 2007
Last update date Feb 26, 2007
Contact name Bing Ren
E-mail(s) biren@ucsd.edu
Organization name Ludwig Institute for Cancer Research
Department Department of Cellular and Molecular Medicine
Lab Laboratory of Gene Regulation
Street address 9500 Gilman Drive
City La Jolla
State/province CA
ZIP/Postal code 92093-0653
Country USA
 
Platform ID GPL1454
Series (1)
GSE7118 Ludwig Institute/UCSD ENCODE project March 2007 Release

Data table header descriptions
ID_REF ID_REF
VALUE same as UNF_VALUE but 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 -0.053 1.06 2.763e-01 4569.00 4298.39 4714 4495 1914 145 195 204 5225 5033 1752 485 506 209 0 -0.053
2 -0.079 1.04 3.353e-01 4207.00 4029.97 4365 4389 1471 158 250 429 4923 4892 1347 479 535 366 0 -0.079
3 -0.075 1.05 3.234e-01 13599.00 12986.76 13757 13077 4303 158 214 239 14814 13828 4118 493 529 302 0 -0.075
4 -0.156 0.99 5.412e-01 9116.00 9210.71 9276 9077 2870 160 204 195 10647 10283 2470 490 514 220 0 -0.156
5 -0.155 0.99 5.401e-01 8815.00 8903.29 8987 8973 2227 172 271 645 10304 10054 1936 486 563 651 0 -0.155
6 -0.021 1.09 1.987e-01 17484.00 16086.32 17664 17579 3354 180 389 1229 18246 17852 2882 507 702 1375 0 -0.021
7 -0.092 1.03 3.633e-01 13436.00 12982.23 13602 13467 2365 166 295 751 14825 14510 2444 509 641 921 0 -0.092
8 -0.163 0.98 5.617e-01 5610.00 5696.73 5771 5756 1340 161 241 401 6767 6680 1186 485 545 427 0 -0.163
9 -0.132 1.01 4.758e-01 6568.00 6527.39 6722 6685 2406 154 194 185 7669 7700 2666 471 486 184 0 -0.132
10 -0.209 0.95 6.781e-01 5283.00 5538.94 5433 5016 2069 150 194 182 6586 6222 2203 478 495 214 0 -0.209
11 -0.172 0.98 5.839e-01 10456.00 10682.50 10608 10225 3761 152 188 165 12272 11584 3618 492 498 183 0 -0.172
12 -0.351 0.86 9.276e-01 10832.00 12527.00 10981 10558 2939 149 196 250 14295 13702 3006 481 496 194 0 -0.351
13 -0.143 1.00 5.063e-01 9221.00 9235.19 9369 9231 1853 148 185 163 10662 10665 1197 478 490 186 0 -0.143
14 -0.153 0.99 5.327e-01 44372.00 44732.28 44530 42281 10115 158 202 187 49819 48527 7202 491 503 192 0 -0.153
15 -0.069 1.05 3.072e-01 8080.00 7685.41 8222 7842 2157 142 182 167 8973 8683 1879 498 513 193 0 -0.069
16 -0.173 0.98 5.879e-01 13802.00 14108.51 13953 13170 3466 151 189 162 16065 15738 2884 507 517 190 0 -0.173
17 -0.274 0.91 8.237e-01 7836.00 8590.43 7985 7691 1906 149 191 181 9978 9761 1668 505 515 191 0 -0.274
18 -0.149 0.99 5.206e-01 20436.00 20542.50 20595 20181 6858 159 198 179 23166 23555 6828 513 523 221 0 -0.149
19 1.10 4.767e-01 10.00 9.07 139 194 184 153 198 186 550 560 208 541 557 211 -50 0
20 -0.194 0.96 6.450e-01 46005.00 47719.39 46158 43285 10659 153 205 223 53165 51698 7107 543 562 210 0 -0.194

Total number of rows: 25246

Table truncated, full table size 2622 Kbytes.




Supplementary file Size Download File type/resource
GSM171071.gpr.gz 2.1 Mb (ftp)(http) GPR

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