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Sample GSM171031 Query DataSets for GSM171031
Status Public on Mar 01, 2007
Title H4K20me2 HeLa RenLab ENCODE PCR tiling array replicate 1 ENC1443
Sample type genomic
 
Channel 1
Source name Chromatin immunoprecipitated DNA from HeLa cells using H4K20me2 antibody
Organism Homo sapiens
Characteristics Chromatin immunoprecipitated DNA from HeLa cells using H4K20me2 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 0.546 1.45 2.232e-02 9169.00 6324.39 9510 9298 2550 341 422 379 7831 7807 2415 1550 1575 463 0 0.546
2 0.447 1.35 5.247e-02 8006.00 5911.55 8345 8175 3267 339 423 409 7384 7352 2347 1513 1543 445 0 0.447
3 0.161 1.11 2.797e-01 20805.00 18736.54 21146 21094 5803 341 443 458 20136 19035 5710 1528 1545 459 0 0.161
4 0.442 1.35 5.046e-02 14941.00 11072.96 15263 15157 4191 322 409 390 12501 12492 3684 1504 1521 448 0 0.442
5 0.500 1.41 3.477e-02 13496.00 9605.90 13817 12878 5195 321 426 430 11045 10906 3888 1505 1537 440 0 0.500
6 0.037 1.02 4.580e-01 21426.00 21023.22 21751 20062 7473 325 426 416 22405 20893 5869 1526 1541 454 0 0.037
7 -0.465 0.72 9.651e-01 14870.00 20663.76 15198 14649 4408 328 420 407 22055 21180 4340 1533 1554 449 0 -0.465
8 0.280 1.21 1.471e-01 8893.00 7373.58 9225 9274 2114 332 430 440 8824 8932 1737 1501 1532 450 0 0.280
9 -0.366 0.77 9.250e-01 8955.00 11623.74 9303 9316 2744 348 437 425 13057 12968 3095 1513 1533 502 0 -0.366
10 -0.072 0.94 6.257e-01 8772.00 9287.72 9107 9148 2350 335 462 727 10769 10726 2389 1545 1567 466 0 -0.072
11 -0.233 0.84 8.241e-01 10598.00 12543.05 10918 10272 3553 320 435 525 13986 13710 3782 1529 1564 456 0 -0.233
12 -0.501 0.70 9.742e-01 11718.00 16699.56 12064 12330 3227 346 434 416 18103 17924 3690 1518 1549 477 0 -0.501
13 0.133 1.09 3.177e-01 11715.00 10759.81 12043 11486 3817 328 431 451 12205 11641 2685 1519 1551 459 0 0.133
14 0.078 1.05 3.943e-01 47257.00 45091.34 47608 47406 6870 351 463 473 46326 46785 4532 1544 1576 466 0 0.078
15 0.137 1.09 3.088e-01 12907.00 11816.06 13273 13269 2764 366 467 462 13273 13047 2415 1538 1583 455 0 0.137
16 -0.101 0.93 6.687e-01 15650.00 16900.94 16001 15907 3424 351 445 418 18323 17993 2614 1538 1563 451 0 -0.101
17 -0.315 0.80 8.976e-01 13723.00 17188.92 14094 13849 3165 371 482 468 18634 18436 2108 1563 1581 451 0 -0.315
18 -0.579 0.66 9.874e-01 14381.00 21630.39 14758 14487 4101 377 476 440 23017 22737 3347 1535 1550 443 0 -0.579
19 0.99 5.004e-01 10.00 10.07 357 434 379 368 453 403 1563 1593 473 1596 1615 440 -50 -1.585
20 -0.253 0.83 8.464e-01 47158.00 56589.21 47512 44956 10615 354 436 389 57800 53408 13930 1599 1615 463 0 -0.253

Total number of rows: 25246

Table truncated, full table size 2703 Kbytes.




Supplementary file Size Download File type/resource
GSM171031.gpr.gz 2.4 Mb (ftp)(http) GPR

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