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GEO accession:
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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