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Sample GSM225148 Query DataSets for GSM225148
Status Public on Dec 01, 2008
Title H4Ac K562 Chromatin RenLab ENCODE PCR tiling array replicate 3 ENC2085_H4Ac_K562_A.gpr
Sample type genomic
 
Channel 1
Source name Chromatin immunoprecipitated DNA from K562 Chromatin cells using H4Ac antibody
Organism Homo sapiens
Characteristics Chromatin immunoprecipitated DNA from K562 Chromatin cells using H4Ac antibody
Extracted molecule genomic DNA
Extraction protocol Nimblegen
Label Cy5
Label protocol Cy3 input Cy5 ChIP sample
 
Channel 2
Source name Input DNA from K562 Chromatin cells
Organism Homo sapiens
Characteristics Input DNA from K562 Chromatin cells
Extracted molecule genomic DNA
Extraction protocol Nimblegen
Label Cy3
Label protocol Cy3 input Cy5 ChIP sample
 
 
Hybridization protocol Nimblegen
Scan protocol Nimblegen
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 Aug 27, 2007
Last update date Aug 14, 2011
Contact name Bing Ren
E-mail(s) biren@ucsd.edu
Organization name Ludwig Institute for Cancer Research
Department Department of Cellular and Molecular Medicine
Lab Laboratory of Gene Regulation
Street address 9500 Gilman Drive
City La Jolla
State/province CA
ZIP/Postal code 92093-0653
Country USA
 
Platform ID GPL1454
Series (1)
GSE8887 Ludwig Institute/UCSD ENCODE project August 2007 Release

Data table header descriptions
ID_REF ID_REF
VALUE log ratio (F635/F532)
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

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
1 0.161 1.56 5.612e-02 1420.00 911.16 1539 1608 723 119 162 151 2429 2494 762 1159 1182 364 0
2 -0.200 1.21 2.331e-01 2386.00 1966.54 2508 2533 1140 122 166 156 3900 3789 1313 1159 1187 369 0
3 -0.823 1.39 4.796e-01 10.00 7.17 120 156 147 133 168 150 1119 1137 364 1142 1178 417 -50
4 0.415 1.39 4.782e-01 10.00 7.17 147 184 167 139 184 204 1139 1163 328 1133 1157 376 -50
5 -0.037 1.36 1.234e-01 1812.00 1333.74 1942 1921 756 130 166 150 2980 3057 886 1121 1140 340 0
6 0.440 1.89 1.234e-02 3356.00 1774.98 3478 3065 1668 122 206 420 3561 3262 1252 1087 1127 421 0
7 -3.305 0.14 9.703e-01 17.00 120.53 125 169 161 108 163 239 1229 1222 325 1061 1082 352 -50
8 -0.067 1.33 1.453e-01 1789.00 1344.51 1899 1854 938 110 160 170 2908 2834 934 1034 1059 350 0
9 0.131 1.53 5.825e-02 1268.00 830.81 1381 1422 569 113 160 169 2208 2205 547 1050 1071 368 0
10 -0.178 1.23 2.051e-01 2802.00 2275.04 2940 2939 1004 138 370 723 4251 4138 995 1080 1299 856 0
11 -0.076 1.32 1.391e-01 2580.00 1950.75 2740 2756 1033 160 586 1406 3811 3783 967 1092 1299 791 0
12 2.136 6.12 1.825e-06 9816.00 1602.79 9999 8684 3965 183 782 1742 3328 3155 1141 1094 1332 809 0
13 1.083 2.95 5.345e-04 3098.00 1048.91 3286 2893 1884 188 1418 5403 2576 2455 963 1114 1399 949 0
14 3.484 15.59 1.080e-07 51211.00 3284.50 51355 39447 23081 144 1092 5757 5659 4987 2412 1081 1212 737 0
15 -0.536 0.96 5.596e-01 1206.00 1254.82 1338 1290 624 132 224 1068 2801 2695 789 1052 1081 347 0
16 1.503 2.37 4.276e-01 17.00 7.17 126 163 143 109 149 139 1068 1105 355 1062 1087 343 -50
17 0.349 1.78 1.521e-02 3482.00 1960.80 3590 3581 1122 108 148 138 3793 3681 881 1060 1075 342 0
18 -0.682 0.87 7.009e-01 878.00 1010.89 988 1006 523 110 154 150 2469 2463 606 1060 1082 339 0
19 0.000 1.39 4.512e-01 23.00 16.50 132 164 136 109 157 154 1106 1125 350 1083 1108 351 -50
20 1.949 5.38 1.333e-06 13768.00 2557.72 13882 13811 2298 114 160 153 4634 4788 1138 1069 1092 348 0

Total number of rows: 25246

Table truncated, full table size 2379 Kbytes.




Supplementary file Size Download File type/resource
GSM225148.gpr.gz 2.6 Mb (ftp)(http) GPR
Processed data included within Sample table
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