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Sample GSM171076 Query DataSets for GSM171076
Status Public on Mar 01, 2007
Title TAFII p250 (6B3) K562 RenLab ENCODE PCR tiling array replicate 3 ENC1735
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 -0.617 0.96 5.658e-01 452.00 472.09 517 529 231 65 79 67 791 810 222 98 99 44 0 -0.617
2 -0.811 0.84 7.479e-01 309.00 369.23 372 395 193 63 77 64 641 631 159 99 99 43 0 -0.811
3 -1.067 0.70 9.144e-01 762.00 1087.25 828 841 327 66 84 80 1694 1630 329 98 102 67 0 -1.067
4 -1.062 0.70 9.095e-01 641.00 911.49 708 717 340 67 85 79 1437 1420 299 99 102 51 0 -1.062
5 -0.636 0.94 5.853e-01 664.00 703.03 729 727 292 65 79 69 1129 1092 408 97 100 52 0 -0.636
6 -0.676 0.92 6.302e-01 1414.00 1538.91 1482 1466 554 68 91 110 2355 2223 539 96 113 131 0 -0.676
7 -1.028 0.72 8.985e-01 942.00 1308.65 1012 1018 335 70 98 117 2019 1972 433 98 136 210 0 -1.028
8 -1.074 0.70 9.105e-01 373.00 534.77 437 436 191 64 79 67 883 853 241 98 101 53 0 -1.074
9 -1.066 0.70 9.076e-01 576.00 821.57 638 637 270 62 77 64 1301 1278 387 95 96 41 0 -1.066
10 -1.263 0.61 9.654e-01 408.00 666.93 473 502 215 65 79 63 1073 1060 251 94 95 41 0 -1.263
11 -1.277 0.61 9.658e-01 604.00 997.33 671 697 282 67 79 63 1562 1540 483 98 97 41 0 -1.277
12 -0.464 1.06 4.019e-01 1475.00 1385.63 1543 1552 466 68 231 2513 2132 2083 444 98 451 4338 0 -0.464
13 -0.798 0.84 7.478e-01 791.00 936.70 859 850 322 68 285 2727 1474 1432 234 99 713 5715 0 -0.798
14 -0.561 1.00 5.074e-01 4684.00 4705.96 4749 4412 1503 65 80 64 7002 6614 1450 94 96 40 0 -0.561
15 -0.685 0.91 6.391e-01 858.00 939.42 924 902 347 66 80 64 1475 1443 312 96 97 41 0 -0.685
16 -0.693 0.91 6.491e-01 1384.00 1524.60 1449 1464 512 65 78 62 2334 2267 457 96 96 41 0 -0.693
17 -0.930 0.77 8.468e-01 772.00 1002.09 839 826 292 67 81 70 1568 1553 278 97 98 44 0 -0.930
18 -1.043 0.71 9.006e-01 1780.00 2498.08 1844 1847 855 64 77 62 3765 3820 976 98 98 41 0 -1.043
19 1.47 3.861e-01 10.00 6.81 64 81 64 65 80 65 104 104 40 99 101 41 -50 0
20 -0.234 1.25 1.898e-01 6507.00 5212.12 6572 6074 2085 65 80 70 7750 7450 1211 99 101 43 0 -0.234

Total number of rows: 25246

Table truncated, full table size 2341 Kbytes.




Supplementary file Size Download File type/resource
GSM171076.gpr.gz 1.9 Mb (ftp)(http) GPR

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