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Sample GSM171021 Query DataSets for GSM171021
Status Public on Mar 01, 2007
Title TAFII p250 (6B3) HeLa RenLab ENCODE PCR tiling array replicate 1 ENC1345
Sample type genomic
 
Channel 1
Source name Chromatin immunoprecipitated DNA from HeLa cells using TAFII p250 (6B3) antibody
Organism Homo sapiens
Characteristics Chromatin immunoprecipitated DNA from HeLa 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 HeLa cells
Organism Homo sapiens
Characteristics Input DNA from HeLa 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 -0.696 0.91 6.802e-01 631.00 694.45 711 742 372 80 110 100 1335 1325 390 313 319 104 0 -0.696
2 -0.459 1.07 3.678e-01 699.00 653.00 781 791 375 82 107 93 1272 1271 341 311 315 100 0 -0.459
3 -0.715 0.90 7.142e-01 2275.00 2537.92 2358 2406 698 83 110 99 4043 3972 1059 308 313 102 0 -0.715
4 -0.545 1.01 4.817e-01 1062.00 1052.54 1141 1201 415 79 107 99 1856 1871 481 307 314 104 0 -0.545
5 -0.374 1.14 2.526e-01 1745.00 1537.02 1824 1843 540 79 105 96 2568 2554 432 306 313 103 0 -0.374
6 -0.626 0.95 5.996e-01 2162.00 2267.48 2246 2260 622 84 110 97 3656 3641 559 319 324 104 0 -0.626
7 -0.938 0.77 9.095e-01 1255.00 1634.19 1341 1365 533 86 113 103 2735 2666 646 330 339 130 0 -0.938
8 -1.049 0.71 9.566e-01 612.00 860.24 692 709 299 80 109 104 1586 1584 298 320 329 124 0 -1.049
9 -0.919 0.78 8.976e-01 1056.00 1356.96 1137 1145 455 81 109 102 2308 2357 561 311 315 105 0 -0.919
10 -0.981 0.75 9.305e-01 727.00 975.08 809 860 348 82 107 94 1741 1769 365 306 310 103 0 -0.981
11 -1.163 0.66 9.787e-01 780.00 1186.40 863 881 409 83 109 102 2058 2034 581 312 317 103 0 -1.163
12 -1.132 0.67 9.778e-01 2286.00 3403.60 2370 2351 758 84 110 100 5320 5078 1191 311 316 104 0 -1.132
13 -0.748 0.88 7.531e-01 1072.00 1223.10 1154 1175 447 82 109 102 2113 2134 356 313 317 109 0 -0.748
14 -0.646 0.94 6.285e-01 6320.00 6718.87 6400 6332 1249 80 109 103 10202 10362 1210 314 321 104 0 -0.646
15 -0.959 0.76 9.220e-01 887.00 1171.45 965 991 415 78 107 97 2044 2050 361 320 328 118 0 -0.959
16 -0.888 0.80 8.860e-01 1841.00 2315.73 1922 1969 577 81 110 101 3724 3743 468 316 321 114 0 -0.888
17 -0.948 0.76 9.168e-01 839.00 1100.11 917 901 373 78 106 102 1933 1912 353 314 323 117 0 -0.948
18 -1.089 0.69 9.695e-01 3414.00 4935.19 3498 3395 1080 84 111 101 7578 7308 1702 315 323 110 0 -1.089
19 -0.595 0.97 5.531e-01 1232.00 1264.54 1311 1339 486 79 107 99 2189 2196 566 328 335 108 0 -0.595
20 -0.620 0.96 5.917e-01 10481.00 10941.95 10562 10505 1667 81 110 103 16433 16218 1451 330 338 107 0 -0.620

Total number of rows: 25246

Table truncated, full table size 2490 Kbytes.




Supplementary file Size Download File type/resource
GSM171021.gpr.gz 2.2 Mb (ftp)(http) GPR

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