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Sample GSM171059 Query DataSets for GSM171059
Status Public on Mar 01, 2007
Title H2A.Z HeLa RenLab ENCODE PCR tiling array replicate 3 ENC1645
Sample type genomic
 
Channel 1
Source name Chromatin immunoprecipitated DNA from HeLa cells using H2A.Z antibody
Organism Homo sapiens
Characteristics Chromatin immunoprecipitated DNA from HeLa cells using H2A.Z 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 -0.312 0.82 8.630e-01 3264.00 4004.66 3490 3576 1032 226 300 297 4705 4746 1202 652 680 248 0 -0.312
2 -0.136 0.92 6.697e-01 3144.00 3413.79 3378 3589 1251 234 304 328 4136 4290 1073 681 693 243 0 -0.136
3 -0.472 0.73 9.500e-01 7228.00 9902.46 7461 7643 2521 233 290 272 10723 10136 3661 701 710 247 0 -0.472
4 1.62 4.363e-01 16.00 9.88 239 299 262 223 294 271 644 662 247 668 690 277 -50 0
5 -0.467 0.73 9.502e-01 5326.00 7276.17 5562 5639 1624 236 298 277 8049 7982 2335 685 702 243 0 -0.467
6 -0.079 0.96 5.918e-01 8089.00 8441.11 8327 8144 2355 238 312 322 9224 9192 1782 681 710 464 0 -0.079
7 -0.376 0.78 9.079e-01 5789.00 7423.39 6019 6084 1939 230 294 293 8194 8055 1974 681 699 249 0 -0.376
8 -0.464 0.73 9.487e-01 3227.00 4396.92 3472 3512 1128 245 309 302 5152 5112 1326 702 715 248 0 -0.464
9 -0.780 0.59 9.967e-01 3086.00 5236.79 3321 3393 1074 235 295 272 5994 5971 1350 694 704 254 0 -0.780
10 -0.594 0.67 9.804e-01 3297.00 4917.64 3540 3666 1462 243 319 559 5659 5443 1608 682 702 276 0 -0.594
11 -0.584 0.68 9.740e-01 4836.00 7163.53 5067 5056 2074 231 301 286 7949 7776 4033 699 732 464 0 -0.584
12 -0.622 0.66 9.823e-01 3619.00 5501.59 3861 3915 1445 242 300 274 6260 6303 2645 692 703 247 0 -0.622
13 -0.048 0.98 5.460e-01 4711.00 4812.90 4938 4885 1488 227 311 455 5572 5626 1350 701 730 395 0 -0.048
14 -0.109 0.94 6.337e-01 9973.00 10630.67 10200 10066 3007 227 302 380 11462 11458 4015 703 749 781 0 -0.109
15 0.065 1.06 3.834e-01 4972.00 4696.31 5217 5247 1293 245 314 406 5457 5680 2849 704 752 799 0 0.065
16 -0.153 0.91 6.891e-01 6881.00 7558.76 7126 6908 2707 245 346 1267 8349 8504 3280 699 816 2040 0 -0.153
17 0.291 1.24 1.254e-01 5491.00 4434.47 5734 5679 1614 243 358 519 5210 5200 1132 722 800 1511 0 0.291
18 -0.657 0.64 9.891e-01 6965.00 10849.04 7220 7202 2317 255 382 994 11728 12403 3386 748 884 2161 0 -0.657
19 -0.166 0.90 7.111e-01 4160.00 4612.32 4429 4623 1408 269 621 2935 5450 5456 1209 782 1399 4945 0 -0.166
20 0.031 1.03 4.269e-01 14318.00 13846.85 14571 14540 2907 253 394 1161 14783 14677 2038 769 898 1203 0 0.031

Total number of rows: 25246

Table truncated, full table size 2600 Kbytes.




Supplementary file Size Download File type/resource
GSM171059.gpr.gz 2.4 Mb (ftp)(http) GPR

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