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GEO accession:
Sample GSM30747
Query DataSets for GSM30747
Status
Public on Sep 21, 2004
Title
ENCODE: TAF1-HCT116 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 HCT116 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 man intensity
F635_SD
F635 standard deviation
B635_MEDIAN
B635 median intensity
B635_MEAN
B635 mean intensity
B635_SD
B635 standard deviation
F532_MEDIAN
F532 mdian intensity
F532_MEAN
F532 man 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
0.4005383
0.1453
0.118740
441.5
335.28
516
576
282
75
381
3662
403
410
110
145
422
3741
0
1.32
0.4005383
2
0.2868813
0.1081
0.189804
520.5
425.04
583
627
325
63
89
91
463
469
155
137
147
198
0
1.22
0.2868813
3
0.0840643
0.0321
0.397101
1004.5
949.08
1071
1077
407
67
94
96
860
861
258
137
153
206
0
1.06
0.0840643
4
0.0840643
0.0059
0.480796
447.5
421.08
515
690
821
68
107
215
466
1624
4321
143
194
918
0
1.06
0.0840643
5
0.2509623
0.0976
0.213798
657.5
551.76
722
737
309
65
90
76
554
553
132
132
136
40
0
1.19
0.2509623
6
0.2630343
0.0980
0.212947
577.5
483.12
646
676
302
69
101
207
504
517
144
134
181
921
0
1.20
0.2630343
7
0.4329593
0.1605
0.095992
332.5
245.52
397
422
201
65
244
2205
321
316
85
131
394
3577
0
1.35
0.4329593
8
-0.5353323
-0.2052
0.952305
511.5
744.48
576
613
281
65
87
74
702
687
189
134
137
40
0
0.69
-0.5353323
9
-0.5145733
-0.1801
0.928424
168.5
240.24
236
263
165
68
92
90
322
333
86
136
139
42
0
0.70
-0.5145733
10
0.2016343
0.0641
0.301248
133.5
116.16
198
233
152
65
88
75
229
223
71
137
142
52
0
1.15
0.2016343
11
-0.2515393
-0.0915
0.771480
245.5
291.72
312
337
186
67
90
78
362
376
106
137
141
43
0
0.84
-0.2515393
12
-0.3400753
-0.1305
0.855570
702.5
884.40
765
767
294
63
87
76
813
816
141
139
141
42
0
0.79
-0.3400753
13
-0.2009133
-0.0766
0.733361
471.5
541.20
538
572
261
67
92
83
552
566
130
138
141
43
0
0.87
-0.2009133
14
0.2141253
0.0796
0.258929
544.5
471.24
608
609
278
64
91
80
495
507
155
134
139
46
0
1.16
0.2141253
15
0.8559903
0.2986
0.007612
504.5
278.52
567
583
295
63
88
76
354
353
87
139
143
45
0
1.81
0.8559903
16
0.3103403
0.1209
0.162949
489.5
393.36
556
584
233
67
90
77
443
438
103
141
144
43
0
1.24
0.3103403
17
-0.2344653
-0.0917
0.771974
431.5
509.52
499
539
245
68
90
76
531
532
148
141
142
43
0
0.85
-0.2344653
18
0.7048723
0.2508
0.020751
312.5
191.40
374
397
180
62
88
78
285
295
86
136
140
42
0
1.63
0.7048723
19
0.2509623
0.0990
0.210418
1205.5
1009.80
1266
1302
511
61
87
77
905
860
288
136
138
42
0
1.19
0.2509623
20
0.4541763
0.1723
0.080728
780.5
571.56
841
867
327
61
87
77
577
581
129
140
143
42
0
1.37
0.4541763
Total number of rows:
25392
Table truncated, full table size
2639 Kbytes
.
Supplementary file
Size
Download
File type/resource
GSM30747_cy3.tif.gz
53.4 Mb
(ftp)
(http)
TIFF
GSM30747_cy5.tif.gz
55.0 Mb
(ftp)
(http)
TIFF
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