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Sample GSM359297 Query DataSets for GSM359297
Status Public on Dec 01, 2009
Title H3K4me3 Yaswen1A RenLab ENCODE PCR tiling array replicate 1 llee_enc_H3K4me3_Yaswen1A_031608.gpr
Sample type genomic
 
Channel 1
Source name Chromatin immunoprecipitated DNA from Yaswen1A cells using H3K4me3 antibody
Organism Homo sapiens
Characteristics Chromatin immunoprecipitated DNA from Yaswen1A cells using H3K4me3 antibody
Extracted molecule genomic DNA
Extraction protocol GenePix
Label Cy5
Label protocol Cy3 input Cy5 ChIP sample
 
Channel 2
Source name Input DNA from Yaswen1A cells
Organism Homo sapiens
Characteristics Input DNA from Yaswen1A cells
Extracted molecule genomic DNA
Extraction protocol GenePix
Label Cy3
Label protocol Cy3 input Cy5 ChIP sample
 
 
Hybridization protocol GenePix
Scan protocol GenePix
Description ChIP-chip analyses were performed for various transcription factors and chromatin modifications in various cell types. Details to be described in publications.
Data processing raw data
 
Submission date Jan 09, 2009
Last update date Feb 19, 2009
Contact name Bing Ren
E-mail(s) biren@ucsd.edu
Organization name University of California, San Diego
Street address 9500 Gilman Drive
City La Jolla
State/province CA
ZIP/Postal code 92093
Country USA
 
Platform ID GPL1454
Series (1)
GSE14436 P16INK4a mediated supperssion of telomerase in normal and malignant human breast cells

Data table header descriptions
ID_REF ID_REF
VALUE log2 ratio (F635/F532) with flagged values removed
STATISTICS statistics
PVAL p-value
F635_INT F635 intensity with background intensity subtracted (normalized)
F532_INT F532 intensity with background intensity subtracted (normalized)
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 F532standard deviation
B532_MEDIAN B532 median intensity
B532_MEAN B532 mean intensity
B532_SD B532 standard deviation
FLAG flag from GenePro, 0 is useful
UNF_VALUE log ratio (F635/F532)

Data table
ID_REF VALUE STATISTICS PVAL 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 UNF_VALUE
1 -0.904 1.05 4.093e-01 359.00 340.58 416 438 205 57 63 49 809 873 325 137 143 69 0 -0.904
2 -1.167 0.88 7.177e-01 277.00 315.24 335 346 164 58 63 48 750 744 248 128 134 61 0 -1.167
3 1.97 3.006e-01 10.00 5.07 59 68 57 56 61 48 130 137 59 134 140 62 -50 0
4 1.97 2.940e-01 10.00 5.07 57 60 45 55 62 48 140 144 65 135 139 62 -50 -1.322
5 -1.215 0.85 7.281e-01 311.00 365.92 365 418 224 54 61 50 853 998 503 131 138 63 0 -1.215
6 -0.468 1.43 5.145e-02 814.00 570.68 869 876 368 55 62 51 1262 1224 411 136 137 59 0 -0.468
7 -0.890 1.06 3.893e-01 516.00 484.52 572 580 269 56 61 50 1090 1082 423 134 134 59 0 -0.890
8 -0.976 1.00 4.948e-01 368.00 366.94 423 426 200 55 62 48 858 848 299 134 136 62 0 -0.976
9 -0.990 0.99 5.122e-01 365.00 367.44 420 438 191 55 62 49 856 862 267 131 136 62 0 -0.990
10 -0.917 1.05 4.211e-01 517.00 494.66 573 577 289 56 63 51 1110 1095 397 134 136 60 0 -0.917
11 -0.788 1.14 2.784e-01 264.00 231.11 319 334 169 55 62 49 590 616 193 134 137 61 0 -0.788
12 0.325 2.47 1.471e-04 561.00 227.06 615 650 282 54 60 49 582 621 231 134 137 59 0 0.325
13 -0.645 1.26 1.331e-01 477.00 378.09 531 545 191 54 60 48 880 897 210 134 138 61 0 -0.645
14 -1.158 0.88 7.173e-01 405.00 458.17 461 478 215 56 63 49 1039 1017 281 135 137 60 0 -1.158
15 -0.746 1.18 2.214e-01 467.00 396.84 524 544 205 57 63 49 919 914 256 136 140 61 0 -0.746
16 -1.046 0.96 5.881e-01 567.00 593.49 626 650 219 59 64 49 1304 1328 285 133 137 59 0 -1.046
17 -0.862 1.09 3.448e-01 476.00 438.40 532 560 205 56 62 51 1003 1003 207 138 141 60 0 -0.862
18 -1.094 0.92 6.388e-01 491.00 531.15 548 571 282 57 63 50 1180 1201 398 132 137 62 0 -1.094
19 1.97 2.877e-01 10.00 5.07 51 58 46 58 64 50 139 145 61 138 140 62 -50 0
20 -0.175 1.75 7.405e-03 418.00 239.22 472 483 209 54 61 50 612 636 200 140 144 61 0 -0.175

Total number of rows: 25246

Table truncated, full table size 2304 Kbytes.




Supplementary file Size Download File type/resource
GSM359297.gpr.gz 2.4 Mb (ftp)(http) GPR
Processed data included within Sample table
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