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GEO accession:
Sample GSM30756
Query DataSets for GSM30756
Status
Public on Sep 21, 2004
Title
ENCODE: TAF1-HCT116 Rep3
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 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
0.6135323
0.2245
0.055001
532.5
348.69
600
620
272
67
89
74
407
414
115
158
161
44
0
1.53
0.6135323
2
0.3103403
0.1182
0.200015
632.5
509.51
706
719
324
73
96
87
517
530
167
155
158
44
0
1.24
0.3103403
3
0.1243283
0.0482
0.365629
1080.5
991.98
1156
1211
463
75
97
85
854
841
235
153
158
73
0
1.09
0.1243283
4
0.4750853
0.1822
0.097217
846.5
609.13
922
925
326
75
101
116
593
602
155
161
164
77
0
1.39
0.4750853
5
0.2868813
0.1096
0.217624
715.5
587.79
801
793
327
85
126
362
582
571
129
165
232
1199
0
1.22
0.2868813
6
0.2630343
0.1015
0.234936
608.5
506.66
682
723
293
73
99
97
529
521
134
169
179
142
0
1.20
0.2630343
7
0.5849633
0.2064
0.070879
342.5
227.71
416
463
241
73
102
140
331
341
88
167
170
53
0
1.50
0.5849633
8
-0.2009133
-0.0768
0.707814
687.5
788.46
771
780
345
83
111
155
721
714
179
163
178
339
0
0.87
-0.2009133
9
0.1505603
0.0562
0.344591
272.5
244.79
349
381
207
76
100
90
336
342
85
160
164
56
0
1.11
0.1505603
10
0.8953033
0.2773
0.024188
182.5
98.20
256
272
162
73
94
75
229
228
66
156
158
42
0
1.86
0.8953033
11
0.1505603
0.0554
0.346644
343.5
310.26
415
432
211
71
98
85
381
383
84
159
162
53
0
1.11
0.1505603
12
-0.0892673
-0.0344
0.596692
915.5
972.05
991
1005
335
75
98
83
844
867
161
157
162
46
0
0.94
-0.0892673
13
-0.0439433
-0.0159
0.545160
571.5
587.79
646
659
243
74
97
82
577
598
134
160
164
46
0
0.97
-0.0439433
14
0.1763233
0.0639
0.324661
584.5
519.47
657
724
367
72
96
84
524
528
147
155
158
45
0
1.13
0.1763233
15
0.7311833
0.2625
0.030817
502.5
303.14
576
583
267
73
103
161
376
375
98
159
163
47
0
1.66
0.7311833
16
0.5160153
0.1888
0.089404
550.5
385.69
627
669
310
76
101
85
436
445
123
161
163
46
0
1.43
0.5160153
17
-0.0892673
-0.0346
0.597274
560.5
596.33
629
636
298
68
94
82
584
590
139
161
164
45
0
0.94
-0.0892673
18
0.7990873
0.2689
0.027763
328.5
189.29
410
434
234
81
100
82
301
305
79
164
166
47
0
1.74
0.7990873
19
0.3219283
0.1257
0.185387
1601.5
1283.74
1681
1698
514
79
106
93
1062
1065
244
156
161
49
0
1.25
0.3219283
20
0.3895673
0.1506
0.141787
942.5
718.72
1015
1027
405
72
97
87
671
674
144
162
163
68
0
1.31
0.3895673
Total number of rows:
25392
Table truncated, full table size
2659 Kbytes
.
Supplementary file
Size
Download
File type/resource
GSM30756_cy3.tif.gz
54.3 Mb
(ftp)
(http)
TIFF
GSM30756_cy5.tif.gz
55.9 Mb
(ftp)
(http)
TIFF
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