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GEO accession:
Sample GSM30769
Query DataSets for GSM30769
Status
Public on Sep 21, 2004
Title
ENCODE: TAF1-THP1 Rep2
Sample type
genomic
Channel 1
Source name
Chromatin immunoprecipitated DNA using TAF1 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 TAF1 binding at ENCODE regions in THP1 cells. Replicate 2 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
0.5459683
0.2114
0.004949
1662.5
1135.40
1745
1785
565
81
110
107
1067
1063
247
197
222
624
0
1.46
0.5459683
2
0.3895673
0.1506
0.033087
1943.5
1480.53
2026
1988
780
81
108
92
1322
1238
499
188
191
58
0
1.31
0.3895673
3
0.3103403
0.0996
0.112214
1442.5
1160.24
1533
1754
1481
89
142
293
1076
1147
953
187
211
192
0
1.24
0.3103403
4
0.5459683
0.2091
0.005365
2420.5
1663.56
2500
2516
727
78
107
102
1464
1465
391
190
201
191
0
1.46
0.5459683
5
0.5058913
0.1646
0.022284
2352.5
1653.10
2432
2456
732
78
106
92
1453
1629
2368
187
192
128
0
1.42
0.5058913
6
0.6415463
0.2385
0.001807
1819.5
1165.47
1899
1899
788
78
106
91
1079
1121
419
186
190
58
0
1.56
0.6415463
7
0.4114263
0.1573
0.027508
1044.5
785.04
1127
1141
462
81
104
88
781
801
224
179
183
56
0
1.33
0.4114263
8
0.2265093
0.0902
0.135486
2160.5
1845.27
2246
2241
637
84
109
91
1593
1562
420
180
184
57
0
1.17
0.2265093
9
0.0426443
0.0173
0.416505
805.5
781.12
892
917
367
85
110
93
780
768
207
181
185
60
0
1.03
0.0426443
10
0.2750073
0.0994
0.112613
475.5
394.16
559
600
308
82
110
91
480
485
160
177
182
57
0
1.21
0.2750073
11
0.2986583
0.1184
0.074355
1471.5
1192.92
1550
1565
559
77
105
90
1091
1093
245
177
182
71
0
1.23
0.2986583
12
0.1243283
0.0500
0.270744
3131.5
2870.21
3216
3112
1012
83
109
92
2380
2293
506
183
188
57
0
1.09
0.1243283
13
0.0840643
0.0330
0.343619
1821.5
1719.77
1908
1921
587
85
112
94
1503
1485
351
186
194
74
0
1.06
0.0840643
14
0.4329593
0.1614
0.024462
1454.5
1075.27
1536
1642
786
80
105
87
1010
1019
438
186
194
136
0
1.35
0.4329593
15
0.5360533
0.1968
0.008163
1095.5
757.59
1180
1207
544
83
112
96
771
749
311
190
194
58
0
1.45
0.5360533
16
0.3448283
0.1349
0.049827
1394.5
1094.88
1477
1498
535
81
108
91
1032
972
342
193
197
61
0
1.27
0.3448283
17
0.1763233
0.0682
0.202802
1532.5
1360.26
1615
1643
511
81
109
93
1229
1220
279
187
190
55
0
1.13
0.1763233
18
0.5655973
0.2093
0.005326
924.5
622.94
1007
1063
494
81
108
93
660
688
205
182
187
56
0
1.48
0.5655973
19
0.4222333
0.1643
0.022486
3683.5
2752.55
3765
3668
1103
80
107
91
2287
2210
657
180
185
54
0
1.34
0.4222333
20
0.3895673
0.1504
0.033270
1962.5
1502.76
2048
2035
623
84
111
92
1337
1299
401
186
190
57
0
1.31
0.3895673
Total number of rows:
25392
Table truncated, full table size
2756 Kbytes
.
Supplementary file
Size
Download
File type/resource
GSM30769_cy3.tif.gz
60.3 Mb
(ftp)
(http)
TIFF
GSM30769_cy5.tif.gz
59.8 Mb
(ftp)
(http)
TIFF
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