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Sample GSM171080 Query DataSets for GSM171080
Status Public on Mar 01, 2007
Title H3K18Ac K562 RenLab ENCODE PCR tiling array replicate 1 ENC1746
Sample type genomic
 
Channel 1
Source name Chromatin immunoprecipitated DNA from K562 cells using H3K18Ac antibody
Organism Homo sapiens
Characteristics Chromatin immunoprecipitated DNA from K562 cells using H3K18Ac 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 cells
Organism Homo sapiens
Characteristics Input DNA from K562 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 Feb 23, 2007
Last update date Feb 26, 2007
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)
GSE7118 Ludwig Institute/UCSD ENCODE project March 2007 Release

Data table header descriptions
ID_REF ID_REF
VALUE same as UNF_VALUE but 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 -0.810 0.74 9.744e-01 2827.00 3801.97 2938 2996 803 111 123 74 5367 5119 1230 412 419 119 0 -0.810
2 -0.935 0.68 9.942e-01 2532.00 3715.27 2653 2682 512 121 128 78 5256 5290 922 414 420 145 0 -0.935
3 -0.886 0.71 9.881e-01 5586.00 7920.07 5696 5293 1738 110 118 72 10716 9841 2980 394 394 107 0 -0.886
4 -0.958 0.67 9.946e-01 4284.00 6387.77 4398 4424 1486 114 128 76 8725 8337 2545 400 407 117 0 -0.958
5 -0.767 0.77 9.602e-01 4953.00 6466.04 5058 5038 1447 105 127 135 8822 8343 2236 395 411 152 0 -0.767
6 -0.656 0.83 9.019e-01 8221.00 9937.30 8331 8487 1313 110 127 91 13334 12990 1361 383 401 179 0 -0.656
7 -0.658 0.83 9.018e-01 6826.00 8263.82 6940 6717 1421 114 129 84 11153 10740 1823 383 399 152 0 -0.658
8 -0.950 0.67 9.953e-01 2857.00 4233.96 2971 3062 593 114 126 81 5910 5821 958 392 401 114 0 -0.950
9 -0.774 0.76 9.659e-01 4007.00 5259.07 4120 4265 872 113 124 72 7249 7080 1112 395 390 116 0 -0.774
10 -0.841 0.73 9.830e-01 3647.00 5014.31 3757 3676 674 110 122 73 6932 6775 1204 397 399 109 0 -0.841
11 -0.836 0.73 9.816e-01 5211.00 7135.89 5328 5112 1196 117 127 71 9697 9430 1804 397 403 109 0 -0.836
12 0.089 1.39 1.591e-02 9508.00 6858.89 9622 9344 2332 114 123 71 9340 8655 2551 401 404 108 0 0.089
13 -0.611 0.85 8.607e-01 4932.00 5780.07 5044 5103 818 112 119 63 7925 7849 774 392 399 107 0 -0.611
14 0.063 1.36 2.037e-02 27079.00 19890.72 27199 25194 6530 120 131 76 26325 24419 5714 402 405 112 0 0.063
15 -0.438 0.96 5.791e-01 5482.00 5700.27 5586 7309 8600 104 121 74 7829 7806 806 400 405 116 0 -0.438
16 -0.564 0.88 8.060e-01 7549.00 8564.60 7656 7605 1195 107 113 69 11558 11445 1309 396 403 111 0 -0.564
17 -0.523 0.91 7.486e-01 5297.00 5841.45 5406 5373 825 109 120 75 8004 7997 874 391 397 115 0 -0.523
18 -0.620 0.85 8.675e-01 8344.00 9842.92 8457 8167 2124 113 122 70 13223 13414 2246 395 401 106 0 -0.620
19 1.30 4.214e-01 10.00 7.67 109 117 56 101 115 67 399 430 125 429 431 106 -50 0
20 -0.112 1.21 1.004e-01 26873.00 22278.55 26973 26806 3296 100 116 72 29468 28894 3591 433 440 113 0 -0.112

Total number of rows: 25246

Table truncated, full table size 2553 Kbytes.




Supplementary file Size Download File type/resource
GSM171080.gpr.gz 2.1 Mb (ftp)(http) GPR

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