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GEO accession:
Sample GSM52459
Query DataSets for GSM52459
Status
Public on Jun 03, 2005
Title
trimethylated K4 histone 3 in HeLa cell, 0 minute - rep3 of 3
Sample type
genomic
Channel 1
Source name
Chromatin immunoprecipitated DNA using trimethyl-H3K4 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 trimethyl-H3K4 binding using RenLab ENCODE PCR tiling array. Array ID is ENC774. Replicate 3 of 3.
Submission date
May 25, 2005
Last update date
Jun 24, 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)
GSE2730
ENCODE: GWLA analysis of a few promoter and enhancer markers in HeLa cells
Data table header descriptions
ID_REF
VALUE
log2 ratio
STATISTICS
X-statistics
P-VAL
p-value calculated using single array error model
F635_INT
normalized F635 intensity with background intensity as well as blank intensity subtracted
F532_INT
normalized F532 intensity witn background intensity as well as blank intensity subtracted
F635_MEDIAN
F635 median 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
Data table
ID_REF
VALUE
STATISTICS
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
1
0.932626
3.28502525e-01
5.97386651e-03
855.82979
448.37240
1066
1082
342
77
104
113
1391
1404
278
355
364
110
2
0.727677
2.50561558e-01
2.76009265e-02
975.18208
588.88873
1237
1263
499
81
102
84
1693
1629
509
353
358
101
3
-0.346724
-1.29299772e-01
8.38765079e-01
1504.28027
1912.94803
2183
2202
770
77
101
95
3913
3851
932
351
359
102
4
0.140786
5.31725291e-02
3.42050472e-01
1026.67096
931.21591
1413
1447
403
82
102
83
2205
2177
542
357
360
109
5
0.285140
1.06108192e-01
2.08414640e-01
1232.54680
1011.50433
1685
1691
510
79
100
83
2412
2312
647
363
365
104
6
0.650723
2.30596071e-01
3.88231446e-02
1211.47703
771.66377
1575
1604
555
80
100
84
1891
1909
599
352
357
101
7
1.388721
4.31078223e-01
4.85861667e-04
835.71202
319.16122
979
994
413
78
98
81
1183
1178
336
351
359
101
8
-0.433004
-1.62871136e-01
8.93669466e-01
818.56121
1105.09194
1207
1233
432
78
105
96
2482
2464
430
354
363
110
9
0.021827
7.29066432e-03
4.77755433e-01
299.48922
294.99216
515
542
252
82
102
83
1120
1125
250
359
367
109
10
0.943803
2.48909558e-01
2.84132436e-02
232.37550
120.80290
512
522
254
86
108
101
683
686
194
362
375
140
11
0.812739
2.63464135e-01
2.18992604e-02
587.04875
334.20696
745
802
392
86
107
98
1179
1199
332
347
356
109
12
0.356861
1.31453809e-01
1.57237192e-01
1967.59979
1536.42353
2892
2717
960
83
112
116
3363
3184
929
351
363
114
13
0.265239
9.85087125e-02
2.25489597e-01
772.32085
642.61788
1086
1081
396
87
111
104
1728
1723
351
358
369
109
14
0.986917
3.11784902e-01
8.52189041e-03
991.08366
500.05599
1245
1243
601
84
107
87
1414
1491
587
359
363
101
15
1.209483
3.42670032e-01
4.36957463e-03
902.26375
390.16016
1044
1102
537
85
105
81
1257
1302
744
353
356
99
16
0.441500
1.54293291e-01
1.18872034e-01
653.11033
480.92986
870
920
388
89
110
94
1506
1459
384
358
364
105
17
0.472421
1.74507024e-01
9.08860286e-02
1031.96432
743.79261
1369
1401
426
90
114
121
1936
1877
464
359
368
114
18
1.301872
3.67763979e-01
2.44561740e-03
504.23473
204.51741
708
739
368
87
105
79
958
975
320
363
370
99
19
0.084375
3.19304205e-02
4.03487655e-01
1115.68950
1052.31046
1590
1572
497
86
112
102
2446
2371
553
356
363
109
20
0.050291
1.86564258e-02
4.43240653e-01
773.77355
747.26539
1085
1110
373
85
106
87
1928
1899
462
361
370
106
Total number of rows:
25392
Table truncated, full table size
2848 Kbytes
.
Supplementary file
Size
Download
File type/resource
GSM52459.gpr.gz
2.3 Mb
(ftp)
(http)
GPR
GSM52459_532.tif.gz
60.0 Mb
(ftp)
(http)
TIFF
GSM52459_635.tif.gz
55.9 Mb
(ftp)
(http)
TIFF
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