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Sample GSM171030 Query DataSets for GSM171030
Status Public on Mar 01, 2007
Title H4K20me1 HeLa RenLab ENCODE PCR tiling array replicate 1 ENC1442
Sample type genomic
 
Channel 1
Source name Chromatin immunoprecipitated DNA from HeLa cells using H4K20me1 antibody
Organism Homo sapiens
Characteristics Chromatin immunoprecipitated DNA from HeLa cells using H4K20me1 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 0.273 1.29 6.680e-02 12093.00 9376.67 12379 11978 3312 286 369 363 11744 11174 3390 1738 1753 501 0 0.273
2 0.166 1.20 1.469e-01 9704.00 8105.96 10005 10059 3766 301 382 369 10356 10119 3123 1706 1712 449 0 0.166
3 -0.070 1.02 4.618e-01 29966.00 29478.52 30268 28176 11800 302 391 406 33181 29924 12078 1724 1740 462 0 -0.070
4 0.100 1.14 2.140e-01 19714.00 17242.74 19999 19175 6682 285 388 425 20103 19256 5813 1703 1736 485 0 0.100
5 0.002 1.07 3.473e-01 18314.00 17134.97 18602 18202 6394 288 376 365 19962 19060 6531 1677 1691 481 0 0.002
6 0.202 1.23 1.131e-01 52738.00 42963.46 53044 47493 17138 306 379 334 47516 43393 14123 1669 1687 489 0 0.202
7 -0.042 1.04 4.134e-01 37088.00 35779.61 37405 36550 8524 317 433 612 39813 39413 5276 1632 1682 497 0 -0.042
8 0.035 1.09 2.954e-01 14262.00 13046.38 14571 14534 3187 309 394 383 15570 15349 3528 1648 1681 471 0 0.035
9 -0.207 0.92 6.805e-01 18369.00 19864.76 18668 18569 4352 299 386 357 22855 21944 6486 1657 1692 569 0 -0.207
10 -0.022 1.05 3.849e-01 16553.00 15750.86 16848 15926 5707 295 377 349 18483 16762 6311 1675 1692 469 0 -0.022
11 -0.164 0.95 6.147e-01 21719.00 22801.64 22013 21290 6818 294 389 403 25980 25764 6153 1648 1683 457 0 -0.164
12 -0.303 0.86 8.033e-01 18364.00 21229.18 18671 17714 6677 307 390 377 24310 22870 7527 1656 1676 462 0 -0.303
13 0.126 1.16 1.812e-01 30256.00 25976.56 30571 29026 8013 315 395 402 29355 26777 8214 1635 1663 454 0 0.126
14 0.030 1.09 3.028e-01 65229.00 59863.22 65535 58872 16359 306 432 949 65535 58096 16935 1654 1704 553 0 0.030
15 0.128 1.17 1.754e-01 31788.00 27268.82 32096 31436 5135 308 395 411 30771 30260 4629 1672 1728 733 0 0.128
16 -0.048 1.03 4.226e-01 38119.00 36917.26 38439 37395 6714 320 414 392 41084 39353 7644 1689 1721 648 0 -0.048
17 -0.086 1.01 4.866e-01 26648.00 26502.27 26949 25756 5642 301 480 1030 29970 29808 3023 1689 1819 2227 0 -0.086
18 -0.216 0.92 6.933e-01 25935.00 28219.99 26239 24375 8535 304 446 1198 31800 30238 7414 1686 1883 2836 0 -0.216
19 3.95 3.107e-01 37.00 9.37 346 418 355 309 383 349 1660 1720 464 1705 1725 477 -50 0
20 0.031 1.09 3.000e-01 65210.00 59815.43 65535 59945 16022 325 476 1704 65535 63481 8742 1705 1833 2012 0 0.031

Total number of rows: 25246

Table truncated, full table size 2741 Kbytes.




Supplementary file Size Download File type/resource
GSM171030.gpr.gz 2.4 Mb (ftp)(http) GPR

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