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GEO accession:
Sample GSM30778
Query DataSets for GSM30778
Status
Public on Sep 21, 2004
Title
ENCODE: RNA PolII-IMR90 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 IMR90 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
0.8639383
0.3039
0.008303
368
202.27
428
446
164
60
69
42
421
435
129
129
132
38
0
1.82
0.8639383
2
0.8639383
0.3038
0.008316
472
258.77
535
546
210
63
72
42
502
505
177
129
132
37
0
1.82
0.8639383
3
0.8479973
0.3030
0.008461
579
322.24
642
638
235
63
72
43
592
589
175
128
131
38
0
1.80
0.8479973
4
0.8953033
0.3182
0.006063
535
288.06
595
601
204
60
70
45
544
539
170
129
131
36
0
1.86
0.8953033
5
0.8479973
0.3031
0.008447
500
277.60
564
581
215
64
71
40
527
531
146
127
129
36
0
1.80
0.8479973
6
0.7048723
0.0356
0.389548
321
196.69
387
605
1450
66
75
45
413
879
3146
129
131
37
0
1.63
0.7048723
7
0.8399603
0.2821
0.013081
238
133.22
303
323
145
65
76
46
321
326
99
128
131
38
0
1.79
0.8399603
8
-0.1681233
-0.0669
0.701063
364
410.82
429
437
166
65
74
43
719
720
168
128
130
36
0
0.89
-0.1681233
9
0.4750853
0.1761
0.082489
251
180.65
318
328
120
67
75
45
388
393
86
127
130
36
0
1.39
0.4750853
10
0.7739963
0.2381
0.030262
123
71.84
196
214
111
73
82
48
231
241
68
126
130
37
0
1.71
0.7739963
11
0.6040713
0.2178
0.042985
255
167.40
324
329
134
69
79
48
371
367
99
129
132
36
0
1.52
0.6040713
12
0.4436073
0.1714
0.088306
882
650.76
952
949
241
70
79
48
1065
1067
178
130
133
36
0
1.36
0.4436073
13
0.3334243
0.1303
0.152093
433
342.47
505
507
164
72
83
51
621
622
129
128
131
36
0
1.26
0.3334243
14
0.7655353
0.2657
0.018124
353
207.15
428
447
208
75
85
63
426
430
130
127
140
217
0
1.70
0.7655353
15
0.9107333
0.3009
0.008855
243
129.04
322
344
145
79
88
62
318
330
116
131
140
199
0
1.88
0.9107333
16
0.7824093
0.2802
0.013603
364
211.34
442
444
171
78
89
53
435
444
112
130
133
36
0
1.72
0.7824093
17
0.4222333
0.1556
0.109942
346
257.37
425
434
186
79
90
53
498
484
148
127
131
36
0
1.34
0.4222333
18
0.9560573
0.3083
0.007551
206
106.02
295
314
142
89
98
58
281
292
88
127
130
36
0
1.94
0.9560573
19
0.6870613
0.2462
0.026131
435
270.63
520
530
214
85
95
56
515
514
148
125
128
36
0
1.61
0.6870613
20
0.6959943
0.2502
0.024311
426
262.95
515
526
199
89
98
56
504
507
156
125
128
36
0
1.62
0.6959943
Total number of rows:
25392
Table truncated, full table size
2624 Kbytes
.
Supplementary file
Size
Download
File type/resource
GSM30778_cy3.tif.gz
53.7 Mb
(ftp)
(http)
TIFF
GSM30778_cy5.tif.gz
52.7 Mb
(ftp)
(http)
TIFF
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