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GEO accession:
Sample GSM60190
Query DataSets for GSM60190
Status
Public on Jun 10, 2005
Title
dimethylated K4 histone H3 in HeLa cell, 30 minutes - rep2 of 3
Sample type
genomic
Channel 1
Source name
Chromatin immunoprecipitated DNA using dimethyl-H3K4 antibody
Organism
Homo sapiens
Characteristics
Chromatin immunoprecipitated DNA using dimethyl-H3K4 antibody
Extracted molecule
genomic DNA
Label
Cy5
Channel 2
Source name
input DNA
Organism
Homo sapiens
Characteristics
input DNA
Extracted molecule
genomic DNA
Label
Cy3
Description
Genome-wide location analysis of dimethyl-H3K4 binding using RenLab ENCODE PCR tiling array. Array ID is ENC773. Replicate 2 of 3.
Data processing
Single-Array Error Model
Submission date
Jun 03, 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
0.352459
1.29807600e-01
1.93527576e-01
712.41596
557.99822
786
811
305
74
100
98
1578
1611
378
416
429
136
2
0.232463
8.73618639e-02
2.80238236e-01
959.05347
816.32783
1058
1075
398
75
100
90
1978
1991
476
414
422
129
3
-0.515584
-1.89574216e-01
8.96745613e-01
1552.08990
2218.82478
1814
1831
689
76
103
100
4076
4060
1156
415
422
129
4
-0.103242
-3.83663849e-02
6.00890834e-01
950.48394
1020.99491
1031
1082
409
77
102
93
2341
2294
639
418
427
129
5
-0.067937
-2.62179474e-02
5.69343392e-01
1105.35450
1158.65076
1256
1244
431
77
105
131
2507
2523
504
433
441
153
6
0.273222
9.87819982e-02
2.55194612e-01
1070.32544
885.66174
1222
1185
499
80
100
83
2142
2109
683
428
433
127
7
0.813018
2.85311192e-01
2.86401964e-02
846.16506
481.62872
904
923
376
85
108
94
1486
1499
355
421
432
133
8
-0.281126
-1.05742238e-01
7.59473875e-01
1039.64712
1263.31969
1196
1202
520
83
105
95
2761
2673
591
422
431
137
9
-0.071840
-2.41739199e-02
5.63985750e-01
318.55850
334.82289
435
466
241
83
103
86
1217
1213
295
421
430
135
10
0.688838
1.81631782e-01
1.13081989e-01
207.43454
128.68272
452
468
230
85
106
88
799
816
222
408
415
117
11
0.219885
8.08091479e-02
2.95126290e-01
693.24558
595.24432
761
810
333
85
112
105
1686
1662
397
413
431
158
12
0.333167
1.30998704e-01
1.91356861e-01
2313.18876
1836.19121
2576
2602
612
87
128
208
3543
3454
569
423
440
196
13
0.379488
1.46158394e-01
1.65047297e-01
1069.21454
821.91622
1157
1185
359
86
116
124
2016
2002
339
415
429
158
14
0.447319
1.49967724e-01
1.58823059e-01
985.43508
722.72231
1029
1098
526
85
104
81
1754
1849
801
407
415
126
15
0.874634
2.89739428e-01
2.67617804e-02
958.66546
522.84874
988
1029
461
84
101
78
1522
1543
577
402
414
123
16
0.672073
2.39810737e-01
5.50244083e-02
1012.19110
635.25528
1062
1100
416
83
105
90
1749
1713
491
406
415
124
17
0.306736
1.17101314e-01
2.17606531e-01
1125.59430
910.00766
1231
1239
425
85
116
160
2150
2132
438
417
432
250
18
1.006295
3.28640422e-01
1.42661624e-02
667.31223
332.20352
740
761
355
91
109
86
1206
1207
337
410
421
127
19
0.076745
2.97067545e-02
4.21541963e-01
1541.29159
1461.44471
1714
1727
461
89
115
122
3000
2929
718
411
421
145
20
-0.084137
-3.23184761e-02
5.85254132e-01
1071.10499
1135.42890
1254
1216
382
85
109
92
2492
2459
554
404
411
128
Total number of rows:
25392
Table truncated, full table size
2843 Kbytes
.
Supplementary file
Size
Download
File type/resource
GSM60190.gpr.gz
2.3 Mb
(ftp)
(http)
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