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Sample GSM171082 Query DataSets for GSM171082
Status Public on Mar 01, 2007
Title H3K9Ac HeLa RenLab ENCODE PCR tiling array replicate 2 ENC1763
Sample type genomic
 
Channel 1
Source name Chromatin immunoprecipitated DNA from HeLa cells using H3K9Ac antibody
Organism Homo sapiens
Characteristics Chromatin immunoprecipitated DNA from HeLa cells using H3K9Ac 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 -0.693 0.71 9.728e-01 3439.00 4861.69 3676 3655 1733 237 334 340 6060 5978 1671 502 524 229 0 -0.693
2 -0.862 0.63 9.946e-01 2841.00 4517.92 3083 3150 1395 242 339 356 5654 5508 1425 489 524 255 0 -0.862
3 -0.722 0.69 9.808e-01 7109.00 10258.71 7345 7219 2680 236 378 518 12232 11628 3060 504 558 437 0 -0.722
4 -0.690 0.71 9.724e-01 5085.00 7177.07 5326 5312 2050 241 336 346 8705 8714 2864 500 517 210 0 -0.690
5 -0.764 0.67 9.872e-01 5276.00 7836.61 5532 5730 1880 256 384 501 9456 9516 2216 497 569 537 0 -0.764
6 -0.008 1.14 2.260e-01 17186.00 15120.39 17442 17311 4948 256 450 901 17764 17639 2406 478 644 1157 0 -0.008
7 -0.291 0.93 6.547e-01 11591.00 12408.77 11820 11747 3599 229 364 527 14654 14188 3281 468 548 665 0 -0.291
8 -0.830 0.64 9.931e-01 3468.00 5393.52 3697 3874 1545 229 340 361 6628 6713 1392 462 495 291 0 -0.830
9 -0.576 0.77 9.351e-01 6372.00 8306.33 6595 6886 2387 223 323 341 9958 10182 2459 462 478 207 0 -0.576
10 -0.694 0.71 9.755e-01 5138.00 7269.79 5382 5370 2117 244 331 332 8777 8593 1811 466 486 199 0 -0.694
11 -0.642 0.73 9.596e-01 7245.00 9892.20 7490 7467 3406 245 334 355 11786 11316 3319 477 491 195 0 -0.642
12 -0.309 0.92 6.793e-01 9726.00 10540.37 9969 9856 3521 243 335 343 12523 12097 3096 473 490 200 0 -0.309
13 -0.037 1.11 2.611e-01 11261.00 10106.50 11491 11716 2589 230 327 354 12026 11909 1486 472 498 211 0 -0.037
14 0.085 1.21 1.275e-01 49406.00 40740.92 49657 47534 10593 251 362 525 47049 47294 3367 473 494 212 0 0.085
15 0.209 1.32 5.562e-02 11537.00 8727.95 11785 11358 3982 248 339 366 10457 10058 2525 479 493 206 0 0.209
16 -0.002 1.14 2.192e-01 18296.00 16029.23 18538 18067 5145 242 331 329 18805 18406 3388 480 500 204 0 -0.002
17 0.453 1.56 5.745e-03 14777.00 9445.22 15033 14444 4064 256 345 349 11281 10931 1865 483 500 207 0 0.453
18 -0.149 1.03 4.303e-01 17394.00 16875.08 17645 17320 6131 251 342 342 19784 19349 4971 492 504 212 0 -0.149
19 1.14 4.879e-01 10.00 8.75 211 327 350 256 342 342 530 554 236 521 534 217 -50 0
20 0.428 1.54 6.773e-03 65270.00 42450.12 65535 62705 9419 265 359 357 49051 47476 8154 521 535 211 0 0.428

Total number of rows: 25246

Table truncated, full table size 2626 Kbytes.




Supplementary file Size Download File type/resource
GSM171082.gpr.gz 2.2 Mb (ftp)(http) GPR

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