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Sample GSM171074 Query DataSets for GSM171074
Status Public on Mar 01, 2007
Title TAFII p250 (6B3) K562 RenLab ENCODE PCR tiling array replicate 1 ENC1733
Sample type genomic
 
Channel 1
Source name Chromatin immunoprecipitated DNA from K562 cells using TAFII p250 (6B3) antibody
Organism Homo sapiens
Characteristics Chromatin immunoprecipitated DNA from K562 cells using TAFII p250 (6B3) 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 -0.601 0.87 7.599e-01 449.00 513.41 509 546 194 60 70 55 803 836 198 122 124 51 0 -0.601
2 -0.766 0.78 8.950e-01 250.00 320.41 310 316 146 60 67 53 543 549 154 118 122 53 0 -0.766
3 -1.036 0.65 9.873e-01 740.00 1143.69 801 809 273 61 68 52 1638 1590 424 121 124 52 0 -1.036
4 -0.529 0.92 6.730e-01 827.00 899.42 889 912 315 62 71 59 1318 1347 304 125 128 54 0 -0.529
5 -0.593 0.88 7.552e-01 843.00 958.98 905 910 281 62 78 91 1396 1442 317 124 137 102 0 -0.593
6 -0.616 0.87 7.840e-01 1505.00 1738.52 1567 1589 430 62 78 108 2429 2400 353 123 140 146 0 -0.616
7 -1.084 0.63 9.927e-01 945.00 1510.84 1006 1016 318 61 68 60 2123 2080 363 119 126 78 0 -1.084
8 -1.025 0.65 9.855e-01 398.00 610.67 459 463 191 61 68 56 931 935 221 121 123 55 0 -1.025
9 -1.088 0.62 9.904e-01 533.00 854.18 592 604 239 59 66 50 1251 1271 411 118 119 47 0 -1.088
10 -1.104 0.62 9.935e-01 501.00 811.96 558 581 208 57 65 48 1194 1202 221 117 119 48 0 -1.104
11 -1.089 0.62 9.911e-01 727.00 1166.30 787 792 337 60 67 50 1664 1580 497 117 120 46 0 -1.089
12 -0.306 1.07 3.514e-01 1872.00 1745.31 1933 1930 470 61 78 125 2437 2404 490 122 127 84 0 -0.306
13 -0.871 0.73 9.568e-01 789.00 1087.90 850 867 264 61 69 53 1564 1564 231 121 120 47 0 -0.871
14 -0.567 0.90 7.263e-01 4411.00 4925.32 4471 4241 1076 60 66 50 6653 6363 1189 120 121 48 0 -0.567
15 -0.809 0.76 9.292e-01 773.00 1020.80 831 850 288 58 66 51 1473 1455 323 119 121 47 0 -0.809
16 -0.891 0.72 9.641e-01 1318.00 1842.56 1378 1419 366 60 66 50 2566 2567 301 122 123 48 0 -0.891
17 -1.285 0.54 9.991e-01 709.00 1302.76 769 786 226 60 66 50 1849 1833 229 121 123 48 0 -1.285
18 -1.166 0.59 9.962e-01 1679.00 2839.99 1739 1723 692 60 66 51 3888 3733 880 121 123 47 0 -1.166
19 1.33 3.736e-01 10.00 7.54 60 68 50 60 66 50 128 128 50 126 128 48 -50 0
20 -0.378 1.02 4.551e-01 6516.00 6384.89 6577 6500 737 61 69 53 8596 8433 798 127 129 49 0 -0.378

Total number of rows: 25246

Table truncated, full table size 2381 Kbytes.




Supplementary file Size Download File type/resource
GSM171074.gpr.gz 1.9 Mb (ftp)(http) GPR

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