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Sample GSM186375 Query DataSets for GSM186375
Status Public on Jul 28, 2007
Title kidney Pol2 Nimblegen 14.4M Mouse tiling array of mm5 at 100bp resolution v1.0 36 of 37
Sample type genomic
 
Channel 1
Source name Chromatin immunoprecipitated DNA from kidney cells using Pol2 antibody
Organism Mus musculus
Characteristics cells: kidney immunoprecipitated chromatin
Extracted molecule genomic DNA
Extraction protocol immunoprecipitated chromatin
Label Cy5
Label protocol Cy5
 
Channel 2
Source name Input Chromatin kidney cells.
Organism Mus musculus
Characteristics cells: kidney input chromatin
Extracted molecule genomic DNA
Extraction protocol input chromatin
Label Cy3
Label protocol Cy3
 
 
Hybridization protocol NimbleGen hybridization protocol
Scan protocol NimbleGen scan protocol
Description Chromatin immunoprecipitation was performed using antibodies against Pol2 and formaldehyde crosslinked chromatin from kidney cells. The immunoprecipitated DNA was amplified, fluorescently labeled and hybridized to a 391K element tiling array based on NCBI33 build of the mouse genome (mm5) that contains non-overlapping 50-mer oligonucleotides, positioned at every 100 basepairs (bp)
Data processing Genome-wide array sets (1-37) for all tissues were loess normalized using the R package limma.
 
Submission date May 02, 2007
Last update date May 03, 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 GPL4977
Series (1)
GSE7688 Genome-wide mapping and analysis of active promoters in mouse ES cells and adult organs

Data table header descriptions
ID_REF PROBE_DESIGN_ID
VALUE log2R normalized
INT_635 Cy5 intensity raw from pair file
INT_532 Cy3 intensity raw from pair file

Data table
ID_REF VALUE INT_635 INT_532
1426_0543_0361 0.03 1214.11 692.78
1426_0673_0273 0.12 2731.44 1709.78
1426_0733_0561 0.04 3101.11 2614.22
1426_0284_0138 0.04 1328.22 894.89
1426_0470_0898 0.25 849.11 410.67
1426_0690_0994 0.11 852.78 509.11
1426_0513_0933 0.24 487.11 425.33
1426_0061_0145 -0.11 801.33 417.00
1426_0254_0546 0.18 1339.11 1224.78
1426_0468_0808 -0.39 1522.78 1722.11
1426_0433_0119 -0.07 1949.33 1782.22
1426_0639_0775 0.28 8338.89 6330.22
1426_0680_0334 0.15 3551.56 3224.78
1426_0028_0466 0.02 1101.78 686.78
1426_0685_0611 0.28 733.00 352.00
1426_0535_0609 0.26 857.22 782.33
1426_0682_0414 0.11 1871.00 1244.67
1426_0238_0902 0.16 728.11 420.78
1426_0453_0533 -0.07 759.11 796.56
1426_0535_0315 -0.27 1454.11 1435.56

Total number of rows: 383381

Table truncated, full table size 13264 Kbytes.




Supplementary file Size Download File type/resource
GSM186375.pair.gz 4.6 Mb (ftp)(http) PAIR

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