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GEO accession:
Sample GSM52462
Query DataSets for GSM52462
Status
Public on Jun 03, 2005
Title
trimethylated K4 histone 3 in HeLa cell, 30 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 ENC691. 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
0.703980
2.00126029e-01
1.10432861e-01
602.94723
370.13516
1227
1368
688
368
434
387
1798
1812
399
697
714
210
2
0.845528
2.43777640e-01
6.79467545e-02
1021.72695
568.59845
1659
1853
1088
349
411
343
2209
2187
550
703
718
218
3
0.667323
2.11887333e-01
9.74573116e-02
1338.81255
843.01566
2254
2387
1185
330
406
366
2578
2660
683
725
740
230
4
0.794977
2.50994128e-01
6.23422666e-02
962.58479
554.78784
1795
1764
770
332
420
371
2169
2186
519
729
750
281
5
0.505473
1.53991312e-01
1.73093807e-01
861.60129
606.93716
1579
1672
886
338
410
348
2216
2238
592
691
716
248
6
0.715089
2.13355762e-01
9.59192729e-02
763.42202
465.05204
1413
1526
734
327
397
347
1871
1947
516
666
687
215
7
0.596720
8.24605731e-02
3.06977723e-01
209.72642
138.68277
847
967
698
322
392
370
1331
1379
405
674
686
205
8
-0.258797
-8.20881604e-02
6.92221542e-01
678.88823
812.27637
1349
1486
828
312
385
344
2533
2594
584
683
704
223
9
-0.446726
-9.30511164e-02
7.15396862e-01
224.63777
306.16860
729
824
575
298
377
338
1611
1640
479
649
663
209
10
0.620060
9.53431446e-02
2.79865250e-01
153.71707
100.01509
644
711
452
279
351
321
930
944
254
630
640
191
11
0.324691
8.50317679e-02
3.01474585e-01
637.67444
509.16351
1283
1376
946
306
388
362
1904
1993
656
641
678
305
12
-0.471712
-1.54206209e-01
8.27242501e-01
633.89434
879.05545
1405
1457
759
325
400
356
2667
2657
510
630
675
311
13
0.280708
7.56827532e-02
3.21691682e-01
488.25344
401.92392
1095
1180
679
305
375
340
1768
1786
514
613
624
192
14
0.278981
8.28695515e-02
3.06099427e-01
633.47836
522.09569
1292
1365
729
299
368
330
1989
1981
552
607
619
199
15
0.773219
1.19858378e-01
2.31715578e-01
224.68744
131.46698
865
968
614
300
376
324
1211
1252
361
599
604
181
16
0.287890
5.49852708e-02
3.68299345e-01
259.48598
212.54479
858
937
608
313
392
342
1397
1405
444
593
607
198
17
0.140439
4.04612131e-02
4.02255595e-01
587.75854
533.23972
1260
1343
836
325
383
325
1961
1987
458
597
609
208
18
0.213439
2.91051163e-02
4.29344016e-01
133.58818
115.21702
677
702
496
305
369
331
1103
1107
328
588
597
189
19
0.537151
1.55581275e-01
1.70615423e-01
747.43977
515.08361
1338
1505
827
314
380
341
1969
1944
600
575
587
183
20
0.501542
1.20418815e-01
2.30671548e-01
441.70362
311.99799
1011
1141
725
313
390
339
1588
1555
462
558
578
181
Total number of rows:
25392
Table truncated, full table size
2922 Kbytes
.
Supplementary file
Size
Download
File type/resource
GSM52462.gpr.gz
2.4 Mb
(ftp)
(http)
GPR
GSM52462_532.tif.gz
62.5 Mb
(ftp)
(http)
TIFF
GSM52462_635.tif.gz
62.3 Mb
(ftp)
(http)
TIFF
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