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Sample GSM144644 Query DataSets for GSM144644
Status Public on Jan 01, 2007
Title CTCF GM06990 replicate 3
Sample type genomic
 
Channel 1
Source name Chromatin immunoprecipitated DNA from GM06990 cells using CTCF antibody
Organism Homo sapiens
Characteristics Chromatin immunoprecipitated DNA from GM06990 cells using CTCF antibody
Biomaterial provider Coriell Cell Repositories http://ccr.coriell.org/Sections/Search/Search.aspx?PgId=165&q=GM06990
Extracted molecule genomic DNA
Extraction protocol NimbleGen
Label Cy5
Label protocol Cy3 input Cy5 sample NimbleGen
 
Channel 2
Source name Input DNA from GM06990 cells
Organism Homo sapiens
Characteristics Input DNA from GM06990 cells
Biomaterial provider Coriell Cell Repositories http://ccr.coriell.org/Sections/Search/Search.aspx?PgId=165&q=GM06990
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 Aug 28, 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)
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 -2.761 0.48 9.290e-01 132.00 275.57 385 508 496 253 364 394 986 957 235 91 92 37 0 -2.761
2 -1.634 1.05 4.621e-01 212.00 202.60 456 532 529 244 361 411 748 714 207 90 89 36 0 -1.634
3 -2.594 0.54 9.648e-01 445.00 827.01 688 812 659 243 372 395 2778 2712 574 92 96 51 0 -2.594
4 3.25 4.532e-01 10.00 3.08 263 373 396 262 392 431 90 91 36 89 90 38 -50 0.000
5 -2.175 0.72 7.908e-01 300.00 417.20 567 687 614 267 381 403 1443 1455 446 88 88 36 0 -2.175
6 -1.936 0.85 6.966e-01 572.00 673.99 842 976 722 270 383 398 2277 2196 380 88 88 36 0 -1.936
7 -2.702 0.50 9.656e-01 248.00 496.95 523 662 567 275 390 400 1703 1712 297 89 94 53 0 -2.702
8 -1.978 0.82 5.347e-01 228.00 276.49 527 968 3731 299 426 940 988 995 164 90 92 37 0 -1.978
9 -3.196 0.35 9.837e-01 136.00 383.64 423 557 561 287 409 439 1336 1360 242 90 92 39 0 -3.196
10 -2.795 0.47 9.567e-01 163.00 348.23 460 576 501 297 400 415 1220 1241 262 89 89 35 0 -2.795
11 -3.047 0.39 9.671e-01 171.00 435.06 443 548 535 272 390 402 1502 1462 582 89 89 36 0 -3.047
12 -1.586 1.08 4.120e-01 483.00 446.45 747 832 641 264 385 407 1539 1640 445 89 90 44 0 -1.586
13 -1.707 0.99 5.059e-01 369.00 371.02 624 721 580 255 374 411 1295 1224 338 90 90 37 0 -1.707
14 -1.196 1.42 1.243e-01 1454.00 1025.61 1726 1773 1078 272 389 429 3421 3221 753 90 90 36 0 -1.196
15 -1.740 0.97 5.311e-01 378.00 388.87 651 759 639 273 396 453 1355 1328 236 92 91 36 0 -1.740
16 -2.169 0.72 8.379e-01 408.00 564.99 649 775 612 241 372 410 1924 1882 286 89 90 36 0 -2.169
17 0.981 6.41 1.430e-05 1856.00 289.42 2123 2227 1133 267 392 426 1030 1009 161 90 91 35 0 0.981
18 -2.803 0.47 9.661e-01 431.00 925.85 695 837 641 264 400 437 3098 3625 1197 91 94 44 0 -2.803
19 -1.950 0.84 6.606e-01 248.00 294.97 540 650 549 292 402 417 1052 1000 267 94 94 37 0 -1.950
20 -0.910 1.73 3.097e-02 1976.00 1142.91 2253 2359 1196 277 378 383 3804 3786 383 92 94 38 0 -0.910

Total number of rows: 25246

Table truncated, full table size 2373 Kbytes.




Supplementary data files not provided
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