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GEO accession:
Sample GSM30786
Query DataSets for GSM30786
Status
Public on Sep 21, 2004
Title
ENCODE: RNA PolII-HeLa 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 HeLa 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
0.4956953
0.1829
0.024608
703.5
499.74
783
827
376
80
108
95
577
573
166
164
167
48
0
1.41
0.4956953
2
0.6599253
0.2432
0.004464
982.5
622.25
1065
1092
441
83
112
136
678
698
230
164
179
321
0
1.58
0.6599253
3
0.5260693
0.1993
0.016029
1869.5
1302.73
1942
1913
660
73
102
88
1233
1166
414
158
163
50
0
1.44
0.5260693
4
0.5945493
0.2209
0.008755
1143.5
758.11
1220
1243
521
77
103
90
786
776
247
160
164
51
0
1.51
0.5945493
5
0.5945493
0.2273
0.007262
1287.5
850.29
1367
1389
489
80
106
91
862
882
183
160
164
52
0
1.51
0.5945493
6
0.5945493
0.2142
0.010626
939.5
623.47
1011
1037
520
72
101
88
678
669
275
163
165
48
0
1.51
0.5945493
7
0.6322683
0.2342
0.005890
659.5
424.54
738
751
315
79
105
88
514
518
146
163
165
50
0
1.55
0.6322683
8
0.6870613
0.2613
0.002478
1566.5
972.80
1645
1643
464
79
107
92
962
954
226
159
162
49
0
1.61
0.6870613
9
-0.0145003
-0.0045
0.519504
512.5
516.73
592
605
278
80
105
87
587
591
153
160
162
48
0
0.99
-0.0145003
10
0.4436073
0.1521
0.050921
296.5
218.33
380
412
244
84
108
90
338
342
96
157
161
48
0
1.36
0.4436073
11
0.2016343
0.0798
0.195456
650.5
564.03
732
755
293
82
108
93
627
649
146
161
165
50
0
1.15
0.2016343
12
0.4005383
0.1570
0.045715
1933.5
1462.84
2011
2000
633
78
106
91
1368
1314
355
161
167
52
0
1.32
0.4005383
13
0.2016343
0.0769
0.204180
1094.5
953.40
1169
1175
495
75
102
87
950
924
299
163
167
48
0
1.15
0.2016343
14
0.3673713
0.1368
0.070691
778.5
601.63
853
899
467
75
106
90
658
667
246
161
164
49
0
1.29
0.3673713
15
0.5558163
0.2054
0.013601
736.5
500.96
808
839
378
72
103
88
575
576
173
161
166
51
0
1.47
0.5558163
16
0.6959943
0.2609
0.002512
1182.5
729.00
1261
1272
457
79
108
94
766
758
185
164
167
50
0
1.62
0.6959943
17
0.6780723
0.2589
0.002687
1274.5
796.92
1355
1365
353
81
105
88
820
827
160
162
167
53
0
1.60
0.6780723
18
0.7655353
0.2701
0.001838
528.5
310.52
602
633
292
74
99
83
411
431
158
154
160
50
0
1.70
0.7655353
19
0.5753123
0.2209
0.008773
2286.5
1536.84
2366
2328
701
80
105
88
1424
1424
317
156
158
48
0
1.49
0.5753123
20
0.6040713
0.2283
0.007039
1292.5
852.72
1372
1370
476
80
104
86
856
862
176
152
157
47
0
1.52
0.6040713
Total number of rows:
25392
Table truncated, full table size
2737 Kbytes
.
Supplementary file
Size
Download
File type/resource
GSM30786_cy3.tif.gz
56.7 Mb
(ftp)
(http)
TIFF
GSM30786_cy5.tif.gz
58.6 Mb
(ftp)
(http)
TIFF
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