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Sample GSM359312 Query DataSets for GSM359312
Status Public on Dec 01, 2009
Title H3K9me3 Yaswen3A RenLab ENCODE PCR tiling array replicate 1 llee_enc_H3K9me3_Yaswen3A_031608.gpr
Sample type genomic
 
Channel 1
Source name Chromatin immunoprecipitated DNA from Yaswen3A cells using H3K9me3 antibody
Organism Homo sapiens
Characteristics Chromatin immunoprecipitated DNA from Yaswen3A cells using H3K9me3 antibody
Extracted molecule genomic DNA
Extraction protocol GenePix
Label Cy5
Label protocol Cy3 input Cy5 ChIP sample
 
Channel 2
Source name Input DNA from Yaswen3A cells
Organism Homo sapiens
Characteristics Input DNA from Yaswen3A 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 -0.253 1.10 3.589e-01 823.00 750.24 873 887 298 50 51 36 1163 1146 375 182 185 78 0 -0.253
2 -0.253 1.10 3.605e-01 746.00 679.88 797 789 301 51 52 38 1066 1075 381 177 183 77 0 -0.253
3 1.31 4.250e-01 10.00 7.65 48 51 37 51 52 37 180 186 78 181 187 79 -50 1.585
4 1.31 4.268e-01 10.00 7.65 51 52 40 50 51 37 177 187 79 179 185 79 -50 0
5 -0.138 1.19 2.543e-01 1231.00 1036.26 1282 1236 510 51 52 38 1542 1555 571 187 187 78 0 -0.138
6 -0.155 1.17 2.586e-01 1695.00 1443.12 1746 1739 410 51 52 39 2067 2069 460 180 193 335 0 -0.155
7 -0.259 1.09 3.626e-01 1646.00 1506.60 1697 1706 557 51 52 37 2147 2174 580 177 182 76 0 -0.259
8 -0.201 1.14 3.040e-01 1412.00 1241.22 1464 1476 417 52 53 37 1804 1791 497 181 187 79 0 -0.201
9 -0.318 1.05 4.231e-01 1400.00 1334.52 1451 1460 353 51 52 37 1925 1937 388 180 185 77 0 -0.318
10 -0.116 1.21 2.282e-01 1850.00 1533.36 1901 1838 549 51 51 36 2186 2174 605 181 184 76 0 -0.116
11 -0.182 1.15 3.028e-01 701.00 607.99 752 804 391 51 52 37 975 1064 468 180 185 79 0 -0.182
12 -0.511 0.92 6.006e-01 395.00 430.57 444 588 407 49 50 37 742 960 557 179 184 81 0 -0.511
13 -0.094 1.22 2.131e-01 917.00 748.71 969 911 302 52 52 37 1161 1149 338 182 186 80 0 -0.094
14 -0.977 0.66 9.414e-01 806.00 1213.69 857 850 275 51 51 36 1771 1705 482 184 190 80 0 -0.977
15 -0.226 1.12 3.293e-01 967.00 864.96 1018 999 299 51 51 37 1319 1293 369 188 191 79 0 -0.226
16 -0.112 1.21 2.218e-01 1492.00 1232.81 1543 1537 331 51 51 37 1798 1779 428 186 188 79 0 -0.112
17 -0.643 0.84 7.593e-01 675.00 806.07 724 753 209 49 50 37 1238 1220 295 184 188 77 0 -0.643
18 -0.927 0.69 9.173e-01 948.00 1378.12 998 988 422 50 51 37 1987 1962 755 185 192 80 0 -0.927
19 1.31 4.299e-01 10.00 7.65 52 52 39 49 52 37 195 204 84 191 197 82 -50 -0.415
20 -1.507 0.46 9.974e-01 503.00 1093.62 555 568 176 52 51 36 1625 1649 312 195 200 80 0 -1.507

Total number of rows: 25246

Table truncated, full table size 2329 Kbytes.




Supplementary file Size Download File type/resource
GSM359312.gpr.gz 2.4 Mb (ftp)(http) GPR
Processed data included within Sample table
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