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Sample GSM144648 Query DataSets for GSM144648
Status Public on Jan 01, 2007
Title CTCF U937 replicate 3
Sample type genomic
 
Channel 1
Source name Chromatin immunoprecipitated DNA from U937 cells using CTCF antibody
Organism Homo sapiens
Characteristics Chromatin immunoprecipitated DNA from U937 cells using CTCF antibody
Extracted molecule genomic DNA
Extraction protocol NimbleGen
Label Cy5
Label protocol Cy3 input Cy5 sample NimbleGen
 
Channel 2
Source name Input DNA from U937 cells
Organism Homo sapiens
Characteristics Input DNA from U937 cells
Extracted molecule genomic DNA
Extraction protocol NimbleGen
Label Cy3
Label protocol Cy3 input Cy5 sample NimbleGen
 
 
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 Nov 15, 2006
Last update date Nov 17, 2006
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)
GSE6292 Ludwig Institute/UCSD ENCODE project

Data table header descriptions
ID_REF ID_REF
VALUE log ratio (F635/F532) (useful values only)
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 -0.406 0.75 9.170e-01 1069.00 1420.57 1182 1269 566 113 151 138 1764 1744 561 348 356 120 0 -0.406
2 -0.225 0.85 7.849e-01 1153.00 1352.35 1257 1316 567 104 144 135 1692 1719 522 344 351 114 0 -0.225
3 -0.391 0.76 9.179e-01 2815.00 3702.91 2924 2939 901 109 151 150 4044 3991 914 353 359 119 0 -0.391
4 -0.569 0.67 9.719e-01 1327.00 1975.35 1449 1501 651 122 164 174 2309 2281 839 340 356 234 0 -0.569
5 -0.436 0.74 9.343e-01 1657.00 2248.23 1776 1811 719 119 180 836 2599 2469 780 358 432 1700 0 -0.436
6 -0.050 0.96 5.775e-01 3232.00 3357.80 3348 3365 1115 116 160 147 3698 3544 886 351 355 121 0 -0.050
7 -0.444 0.73 9.392e-01 1472.00 2009.46 1585 1680 667 113 156 145 2361 2317 569 358 365 120 0 -0.444
8 -0.654 0.63 9.868e-01 1089.00 1719.53 1204 1271 571 115 153 142 2068 2087 447 354 361 115 0 -0.654
9 -0.544 0.68 9.686e-01 1550.00 2267.29 1671 1748 735 121 164 166 2611 2666 747 351 355 116 0 -0.544
10 -0.584 0.67 9.756e-01 926.00 1392.48 1054 1129 487 128 173 179 1738 1690 495 350 358 117 0 -0.584
11 -0.459 0.73 9.424e-01 1735.00 2392.70 1860 1964 805 125 165 159 2738 2737 896 353 357 116 0 -0.459
12 0.592 1.50 2.211e-02 5170.00 3440.07 5298 5223 1689 128 165 191 3789 3662 1061 360 367 122 0 0.592
13 -0.071 0.95 6.059e-01 2306.00 2429.82 2434 2435 823 128 162 144 2781 2774 508 359 363 118 0 -0.071
14 0.069 1.05 4.085e-01 13274.00 12698.85 13399 13086 2771 125 162 145 13020 12731 1939 362 368 118 0 0.069
15 -0.289 0.82 8.499e-01 1752.00 2146.91 1865 1907 639 113 158 156 2505 2472 481 365 375 120 0 -0.289
16 -0.415 0.75 9.277e-01 2831.00 3787.18 2948 2905 1127 117 161 155 4142 3952 1052 367 376 121 0 -0.415
17 -0.364 0.77 9.028e-01 1676.00 2163.96 1797 1875 636 121 166 162 2525 2549 431 368 376 119 0 -0.364
18 -0.890 0.54 9.985e-01 6355.00 11814.00 6488 6910 2470 133 172 166 12152 12508 2992 376 382 119 0 -0.890
19 0.028 1.02 4.667e-01 2345.00 2307.42 2474 2442 698 129 164 154 2697 2708 474 397 402 125 0 0.028
20 -0.082 0.94 6.236e-01 10088.00 10712.46 10214 10269 1841 126 161 156 11070 10947 1193 392 396 127 0 -0.082

Total number of rows: 25246

Table truncated, full table size 2558 Kbytes.




Supplementary data files not provided
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