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GEO accession:
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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