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Sample GSM144658 Query DataSets for GSM144658
Status Public on Jan 01, 2007
Title H3K4me3 HeLa replicate 3
Sample type genomic
 
Channel 1
Source name Chromatin immunoprecipitated DNA from HeLa cells using H3K4me3 antibody
Organism Homo sapiens
Characteristics Chromatin immunoprecipitated DNA from HeLa cells using H3K4me3 antibody
Extracted molecule genomic DNA
Extraction protocol NimbleGen
Label Cy5
Label protocol Cy3 input Cy5 sample NimbleGen
 
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 sample NimbleGen
 
 
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 Nov 15, 2006
Last update date Nov 17, 2006
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)
GSE6292 Ludwig Institute/UCSD ENCODE project

Data table header descriptions
ID_REF ID_REF
VALUE log ratio (F635/F532) (useful values only)
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 -1.749 0.62 7.988e-01 283.00 459.73 403 436 301 120 179 188 1273 1307 368 322 333 133 0 -1.749
2 -1.873 0.56 8.304e-01 232.00 410.90 357 392 285 125 186 311 1166 1197 326 316 330 143 0 -1.873
3 -2.428 0.38 9.310e-01 381.00 991.49 507 566 338 126 186 229 2368 2303 846 317 323 140 0 -2.428
4 -2.409 0.39 9.347e-01 278.00 713.52 403 481 360 125 184 202 1787 1816 479 311 324 146 0 -2.409
5 -2.289 0.42 9.226e-01 309.00 729.96 444 484 318 135 184 178 1831 1861 513 321 327 115 0 -2.289
6 -1.814 0.59 8.362e-01 881.00 1497.62 1013 1086 593 132 173 162 3418 3300 1026 320 326 113 0 -1.814
7 -1.373 0.80 5.398e-01 122.00 152.76 246 311 298 124 179 176 639 709 1110 323 332 124 0 -1.373
8 -2.826 0.29 9.591e-01 174.00 596.53 309 378 290 135 181 173 1547 1538 463 313 321 117 0 -2.826
9 -2.416 0.39 9.240e-01 303.00 781.68 435 478 344 132 182 174 1927 1962 699 310 320 116 0 -2.416
10 -3.014 0.26 9.749e-01 198.00 773.47 328 392 292 130 188 202 1918 1921 499 318 329 135 0 -3.014
11 -2.758 0.31 9.469e-01 232.00 758.48 354 414 314 122 177 179 1885 2047 731 316 319 107 0 -2.758
12 -2.096 0.48 8.626e-01 405.00 836.79 528 635 484 123 172 173 2048 2327 888 317 321 112 0 -2.096
13 -2.094 0.48 9.089e-01 467.00 963.93 602 642 388 135 187 185 2307 2343 458 313 320 110 0 -2.094
14 -1.815 0.59 8.609e-01 1856.00 3156.22 1991 2060 801 135 188 187 6839 6863 943 310 319 112 0 -1.815
15 -2.370 0.40 9.413e-01 423.00 1056.75 554 606 405 131 177 167 2507 2481 588 321 329 115 0 -2.370
16 -2.527 0.36 9.584e-01 490.00 1365.65 623 681 434 133 180 175 3138 3101 696 313 323 115 0 -2.527
17 -2.792 0.30 9.724e-01 345.00 1155.36 487 557 423 142 187 184 2706 2683 564 316 324 112 0 -2.792
18 -2.766 0.30 9.645e-01 410.00 1348.25 546 636 458 136 186 188 3105 3175 919 316 325 136 0 -2.766
19 0.83 5.155e-01 10.00 12.09 129 182 169 135 185 176 348 343 113 323 333 142 -50 0
20 -0.783 1.20 3.467e-01 4604.00 3829.14 4738 4660 1499 134 180 169 8244 8034 1452 323 333 110 0 -0.783

Total number of rows: 25246

Table truncated, full table size 2492 Kbytes.




Supplementary data files not provided
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