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Sample GSM30783 Query DataSets for GSM30783
Status Public on Sep 21, 2004
Title ENCODE: RNA PolII-HCT116 Rep3
Sample type genomic
 
Channel 1
Source name Chromatin immunoprecipitated DNA using RNA polymerase II antibody
Organism Homo sapiens
Extracted molecule genomic DNA
 
Channel 2
Source name input DNA
Organism Homo sapiens
Extracted molecule genomic DNA
 
 
Description Genome-wide location analysis of RNA polymerase II binding at ENCODE regions in HCT116 cells. Replicate 3 of 3.
 
Submission date Sep 17, 2004
Last update date Nov 22, 2005
Contact name Chunxu Qu
E-mail(s) qchunxu@ucsd.edu
Phone (858)822-5767
Organization name Ludwig Institute for Cancer Research
Department Gene Regulation
Lab RenLab
Street address
City San Diego
State/province CA
ZIP/Postal code 92093
Country USA
 
Platform ID GPL1454
Series (1)
GSE1778 ENCODE: GWLA of TAF1, RNA PolII binding in four cell lines

Data table header descriptions
ID_REF
VALUE same as UNF_VALUE but with flagged values removed
SIGNIFICANCE significance
P-VAL p-value calculated using single array error model
F635_INT F635 intensity with background intensity subtracted
F532_INT F532 intensity with background intensity subtracted
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 F532 standard deviation
B532_MEDIAN B532 median intensity
B532_MEAN B532 mean intensity
B532_SD B532 standard deviation
FLAG flag from GenePro, 0 is useful
PRE_VALUE enrichment value (F635/F532)
UNF_VALUE log ratio (log2 of PRE_VALUE)

Data table
ID_REF VALUE SIGNIFICANCE P-VAL 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 PRE_VALUE UNF_VALUE
1 0.3334243 0.1288 0.163063 774 612.71 841 895 387 69 91 78 541 542 126 131 135 40 0 1.26 0.3334243
2 0.3334243 0.1286 0.163433 919 730.42 991 1017 361 74 96 83 623 606 191 135 139 43 0 1.26 0.3334243
3 0.0976113 0.0363 0.390959 1542 1447.26 1607 1610 497 67 90 77 1097 1054 352 134 136 41 0 1.07 0.0976113
4 0.4114263 0.1577 0.114619 1151 867.75 1211 1219 441 62 88 81 708 705 202 129 137 79 0 1.33 0.4114263
5 0.3448283 0.1344 0.152628 1025 807.39 1089 1115 371 66 87 72 674 675 175 135 138 42 0 1.27 0.3448283
6 0.4854273 0.1845 0.079780 929 665.53 995 962 374 68 89 73 578 580 141 133 136 41 0 1.40 0.4854273
7 0.5160153 0.1884 0.075420 456 319.94 523 544 255 69 88 74 348 351 99 132 134 41 0 1.43 0.5160153
8 -0.5353323 -0.2044 0.940505 793 1145.43 857 867 366 66 88 76 897 883 207 134 136 39 0 0.69 -0.5353323
9 -0.1360623 -0.0488 0.645009 316 345.59 381 406 205 67 90 77 368 383 102 135 137 38 0 0.91 -0.1360623
10 0.2868813 0.1015 0.219571 205 167.51 272 304 176 69 89 75 245 251 68 130 135 39 0 1.22 0.2868813
11 -0.2009133 -0.0750 0.716413 326 374.27 393 421 218 69 91 76 387 382 107 135 140 47 0 0.87 -0.2009133
12 -0.4540323 -0.1815 0.916832 1272 1753.62 1341 1331 486 71 95 81 1304 1305 216 138 140 41 0 0.73 -0.4540323
13 0.4222333 0.1630 0.106990 1168 873.79 1239 1231 406 73 92 78 720 714 175 137 142 61 0 1.34 0.4222333
14 0.2986583 0.1164 0.187272 717 581.02 785 808 336 70 92 79 527 537 156 138 141 41 0 1.23 0.2986583
15 0.4750853 0.1699 0.097557 488 351.63 552 605 322 66 91 80 375 384 140 138 142 42 0 1.39 0.4750853
16 0.1890343 0.0732 0.288428 636 556.87 703 722 327 69 91 76 513 501 183 140 143 41 0 1.14 0.1890343
17 -0.2009133 -0.0780 0.723935 768 881.34 840 873 346 74 93 76 728 732 159 140 143 41 0 0.87 -0.2009133
18 0.5459683 0.1938 0.069746 357 244.48 441 462 246 86 101 84 306 314 84 140 142 39 0 1.46 0.5459683
19 -0.0145003 -0.0082 0.525078 1614 1637.41 1685 1756 564 73 93 79 1229 1163 354 140 143 44 0 0.99 -0.0145003
20 0.0426443 0.0188 0.442854 914 884.35 983 1006 330 71 96 82 730 712 189 140 143 43 0 1.03 0.0426443

Total number of rows: 25392

Table truncated, full table size 2612 Kbytes.




Supplementary file Size Download File type/resource
GSM30783_cy3.tif.gz 53.8 Mb (ftp)(http) TIFF
GSM30783_cy5.tif.gz 56.3 Mb (ftp)(http) TIFF

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