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Sample GSM30784 Query DataSets for GSM30784
Status Public on Sep 21, 2004
Title ENCODE: RNA PolII-HeLa 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 HeLa 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 0.3448283 0.1365 0.246599 880 692.39 948 984 255 70 84 59 707 688 132 138 143 42 0 1.27 0.3448283
2 0.4646683 0.1827 0.179621 1222 882.67 1293 1301 350 73 84 55 866 860 235 142 144 45 0 1.38 0.4646683
3 0.3448283 0.1372 0.245612 2137 1679.41 2206 2214 596 71 81 47 1514 1485 369 141 141 33 0 1.27 0.3448283
4 0.5849633 0.2218 0.132861 1325 882.67 1394 1371 489 71 83 55 867 857 298 143 148 54 0 1.50 0.5849633
5 0.4956953 0.1904 0.169671 1305 926.87 1376 1362 419 73 83 55 904 907 282 144 148 55 0 1.41 0.4956953
6 0.7048723 0.2655 0.091386 1301 796.74 1373 1345 426 74 82 47 796 825 274 142 143 32 0 1.63 0.7048723
7 0.5945493 0.2278 0.126451 840 556.12 915 920 266 77 87 51 601 601 143 143 143 31 0 1.51 0.5945493
8 0.2868813 0.1133 0.284835 1363 1115.92 1436 1398 447 75 89 67 1056 981 297 142 149 89 0 1.22 0.2868813
9 -0.2009133 -0.0809 0.657679 585 675.20 655 676 262 72 87 66 698 678 156 143 150 87 0 0.87 -0.2009133
10 0.6599253 0.2399 0.114304 368 233.25 441 449 189 75 82 49 339 339 80 144 146 31 0 1.58 0.6599253
11 0.0840643 0.0321 0.436084 846 799.19 922 923 357 78 86 54 797 794 231 141 144 33 0 1.06 0.0840643
12 -0.1202943 -0.0472 0.593663 1598 1733.43 1673 1646 378 77 84 54 1561 1490 279 144 148 37 0 0.92 -0.1202943
13 0.2509623 0.0996 0.308620 1551 1304.98 1627 1651 367 78 90 74 1215 1225 228 147 153 49 0 1.19 0.2509623
14 0.4541763 0.1726 0.193178 988 719.40 1068 1088 444 82 87 48 742 721 271 151 151 32 0 1.37 0.4541763
15 0.6959943 0.2621 0.094168 932 575.76 1007 1023 311 77 87 51 624 634 148 150 152 34 0 1.62 0.6959943
16 0.5753123 0.2162 0.138977 1152 774.64 1228 1170 459 78 90 54 787 740 247 151 152 33 0 1.49 0.5753123
17 0.0976113 0.0370 0.426435 1081 1012.80 1154 1144 386 75 86 51 976 912 311 146 148 32 0 1.07 0.0976113
18 0.4646683 0.1796 0.183775 740 536.48 809 803 250 71 82 48 583 565 139 141 144 33 0 1.38 0.4646683
19 0.4329593 0.1672 0.200689 3158 2344.79 3228 3123 1004 72 85 52 2059 1928 604 144 145 37 0 1.35 0.4329593
20 0.4436073 0.1740 0.191299 1729 1271.83 1802 1779 422 75 83 49 1188 1160 304 147 147 33 0 1.36 0.4436073

Total number of rows: 25392

Table truncated, full table size 2622 Kbytes.




Supplementary file Size Download File type/resource
GSM30784_cy3.tif.gz 13.5 Mb (ftp)(http) TIFF
GSM30784_cy5.tif.gz 14.0 Mb (ftp)(http) TIFF

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