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Sample GSM30781 Query DataSets for GSM30781
Status Public on Sep 21, 2004
Title ENCODE: RNA PolII-HCT116 Rep1
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 1 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 0.5260693 0.2020 0.096377 1084.5 752.67 1181 1183 315 96 114 79 1068 1013 300 130 131 27 0 1.44 0.5260693
2 0.5459683 0.2130 0.084831 1481.5 1011.61 1565 1533 356 83 96 68 1386 1303 327 126 128 30 0 1.46 0.5459683
3 0.2141253 0.0842 0.293583 2263.5 1951.65 2366 2292 559 102 119 83 2558 2478 736 129 131 28 0 1.16 0.2141253
4 0.5058913 0.1972 0.101744 1607.5 1133.84 1710 1708 354 102 134 124 1540 1587 266 128 161 296 0 1.42 0.5058913
5 0.6135323 0.2369 0.063282 1403.5 915.11 1488 1576 353 84 105 77 1267 1341 286 127 130 28 0 1.53 0.6135323
6 0.5160153 0.1974 0.101542 1426.5 995.52 1511 1558 457 84 99 64 1364 1245 448 124 126 28 0 1.43 0.5160153
7 0.6690273 0.2449 0.057180 757.5 476.05 850 873 368 92 107 72 721 703 182 127 127 29 0 1.59 0.6690273
8 -0.5994623 -0.2295 0.930506 849.5 1289.04 952 1034 342 102 117 83 1730 1685 347 125 127 29 0 0.66 -0.5994623
9 0.1110313 0.0424 0.392299 410.5 379.55 494 485 218 83 102 75 599 590 188 125 127 39 0 1.08 0.1110313
10 1.0071963 0.3360 0.015138 414.5 205.86 511 492 252 96 114 81 381 378 117 123 124 28 0 2.01 1.0071963
11 0.3448283 0.1325 0.196429 588.5 464.79 683 696 230 94 110 75 706 699 94 126 127 30 0 1.27 0.3448283
12 -0.4150373 -0.1450 0.825036 232.5 310.40 338 342 176 105 123 90 497 516 203 109 111 48 0 0.75 -0.4150373
13 0.2265093 0.0878 0.285586 1180.5 1012.41 1271 1302 333 90 106 67 1368 1331 263 107 110 36 0 1.17 0.2265093
14 0.5459683 0.2046 0.093561 1296.5 885.36 1397 1202 477 100 114 69 1228 1169 512 125 127 27 0 1.46 0.5459683
15 0.8073553 0.2951 0.028538 923.5 529.12 1022 1064 318 98 116 80 793 738 232 133 133 31 0 1.75 0.8073553
16 0.3334243 0.1312 0.198830 976.5 773.58 1062 1116 307 85 108 72 1094 1072 253 130 131 31 0 1.26 0.3334243
17 -0.1520033 -0.0606 0.651987 840.5 934.41 946 944 319 105 125 87 1293 1304 161 129 132 27 0 0.90 -0.1520033
18 0.8237493 0.2962 0.028088 693.5 391.62 792 775 294 98 117 82 617 632 198 128 131 27 0 1.77 0.8237493
19 0.4750853 0.1808 0.121812 2724.5 1964.51 2826 2678 849 101 117 80 2574 2405 835 129 130 29 0 1.39 0.4750853
20 0.4956953 0.1932 0.106387 1592.5 1132.23 1684 1658 344 91 110 77 1538 1527 240 128 129 27 0 1.41 0.4956953

Total number of rows: 25392

Table truncated, full table size 2724 Kbytes.




Supplementary file Size Download File type/resource
GSM30781_cy3.tif.gz 13.0 Mb (ftp)(http) TIFF
GSM30781_cy5.tif.gz 14.5 Mb (ftp)(http) TIFF

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