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Sample GSM171032 Query DataSets for GSM171032
Status Public on Mar 01, 2007
Title H4K20me3 HeLa RenLab ENCODE PCR tiling array replicate 1 ENC1444
Sample type genomic
 
Channel 1
Source name Chromatin immunoprecipitated DNA from HeLa cells using H4K20me3 antibody
Organism Homo sapiens
Characteristics Chromatin immunoprecipitated DNA from HeLa cells using H4K20me3 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 0.427 1.15 2.613e-01 9402.00 8192.61 9686 9916 3356 284 363 356 8399 8340 2396 1407 1439 454 0 0.427
2 0.483 1.19 2.054e-01 8939.00 7491.92 9207 9275 2874 268 354 333 7798 7663 2099 1404 1408 415 0 0.483
3 0.105 0.92 6.571e-01 23570.00 25679.23 23836 22458 6157 266 370 436 23271 21455 6652 1355 1402 442 0 0.105
4 0.368 1.10 3.259e-01 15939.00 14472.98 16233 15572 5263 294 367 369 13733 13260 3921 1381 1419 439 0 0.368
5 0.320 1.07 3.834e-01 14195.00 13324.70 14464 14061 4384 269 369 483 12764 12479 3892 1392 1437 561 0 0.320
6 -0.039 0.83 8.100e-01 25755.00 30999.97 26049 24943 6301 294 399 484 27861 26871 5135 1404 1431 463 0 -0.039
7 -0.484 0.61 9.872e-01 15886.00 26038.94 16162 15541 5210 276 378 440 23631 22427 5263 1408 1428 433 0 -0.484
8 -0.175 0.76 9.042e-01 7587.00 10036.88 7859 7949 1980 272 356 404 9952 9708 2260 1386 1414 426 0 -0.175
9 -0.467 0.62 9.853e-01 9509.00 15405.66 9784 9696 2891 275 358 343 14570 14848 3692 1422 1437 415 0 -0.467
10 -0.133 0.78 8.766e-01 9438.00 12126.04 9717 9585 3197 279 359 338 11765 10947 3545 1416 1431 440 0 -0.133
11 -0.282 0.70 9.482e-01 11382.00 16215.31 11655 11604 3601 273 366 346 15267 14766 3971 1428 1447 435 0 -0.282
12 -0.640 0.55 9.962e-01 10591.00 19333.24 10850 10978 2934 259 350 354 17912 17581 3757 1412 1436 436 0 -0.640
13 -0.071 0.81 8.344e-01 11487.00 14140.21 11766 11342 3656 279 375 394 13511 12682 3292 1443 1449 439 0 -0.071
14 -0.249 0.72 9.385e-01 38214.00 53206.24 38505 36043 9566 291 377 369 46845 45048 9697 1436 1461 437 0 -0.249
15 -0.027 0.84 8.001e-01 13025.00 15547.44 13317 12918 2919 292 462 1154 14747 14724 1962 1478 1575 1667 0 -0.027
16 -0.200 0.74 9.188e-01 16432.00 22113.71 16709 16628 3301 277 435 1132 20375 20180 3128 1502 1588 1655 0 -0.200
17 -0.576 0.57 9.940e-01 11056.00 19313.32 11335 11303 2643 279 372 443 17965 17830 2473 1482 1504 487 0 -0.576
18 -0.587 0.57 9.944e-01 14413.00 25367.55 14690 14329 3594 277 364 374 23101 22923 3839 1451 1483 457 0 -0.587
19 0.29 6.413e-01 10.00 33.98 266 337 321 281 372 378 1542 1588 437 1513 1542 460 -50 0
20 -0.321 0.68 9.601e-01 43658.00 63893.42 43938 41440 11251 280 373 352 56084 51644 15374 1554 1579 456 0 -0.321

Total number of rows: 25246

Table truncated, full table size 2687 Kbytes.




Supplementary file Size Download File type/resource
GSM171032.gpr.gz 2.4 Mb (ftp)(http) GPR

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