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Sample GSM210502 Query DataSets for GSM210502
Status Public on Nov 19, 2007
Title CD4+ DNAse hypersitivity_2005-09-28_Crawford_HG17_Set13_1
Sample type genomic
 
Channel 1
Source name CD4+ DNAse-treated genomic DNA, replicate #1
Organism Homo sapiens
Characteristics Treatment:DNAse digested
Treatment protocol DNAse digestion
Extracted molecule genomic DNA
Extraction protocol DNAse treated DNA was extracted and amplified.
Label Cy3
Label protocol Sample was labeled by Nimblegen according to their established protocol.
 
Channel 2
Source name CD4+ input genomic DNA, replicate #1
Organism Homo sapiens
Characteristics Treatment:No DNAse
Treatment protocol None
Extracted molecule genomic DNA
Extraction protocol Input DNA was extracted.
Label Cy5
Label protocol Sample was labeled by Nimblegen according to their established protocol.
 
 
Hybridization protocol Sample was hybridized by Nimblegen according to their established protocol.
Scan protocol Sample was scanned by Nimblegen according to their established protocol.
Description CD4+ DNAse hypersitivity_2005-09-28_Crawford_HG17_Set13_1
Data processing Data were normalized to have median log2 ratio of zero and median absolute deviation (MAD) of one.
 
Submission date Jul 13, 2007
Last update date Aug 14, 2011
Contact name Sean Davis
E-mail(s) sdavis2@mail.nih.gov
Phone 301-435-2652
Organization name National Cancer Institute
Lab Genetics Branch
Street address 37 Convent Drive, Room 6138
City Bethesda
State/province MD
ZIP/Postal code 20892
Country USA
 
Platform ID GPL5545
Series (1)
GSE8486 Whole genome DNAse hypersensitivity in human CD4+ T-cells

Data table header descriptions
ID_REF Feature match id
RED_INTENSITY Red intensity of the original scan (raw data)
GREEN_INTENSITY Green intensity of the original scan (raw data)
VALUE Median centered, MAD scaled value

Data table
ID_REF RED_INTENSITY GREEN_INTENSITY VALUE
52886882 413.33 575.44 0.14142985175741
52886883 273.78 483.33 -0.432308641967022
52886884 604.22 906.33 -0.0387380580710039
52886885 363.33 650.67 -0.466895143018733
52886886 927.67 863.89 1.1129026459029
52886887 424.89 404.11 1.06195790863296
52886888 620.67 839.78 0.210399052584341
52886889 1043.89 995.67 1.0550734363112
52886890 386.67 570.89 -0.000470055708095959
52886891 310.56 536.67 -0.380684803829019
52886892 612.67 893.56 0.0290952720652245
52886893 219.67 516.67 -1.12543288272450
52886894 296.78 507.33 -0.35450701698963
52886895 411.33 545.11 0.260525263564368
52886896 321.44 499.89 -0.125980551633107
52886897 466.89 744.11 -0.185213189788993
52886898 369.22 512 0.150988790754803
52886899 551.78 715 0.31478276497107
52886900 649 818.78 0.379408617144853
52886901 697 949.56 0.193794946743219

Total number of rows: 388468

Table truncated, full table size 15774 Kbytes.




Supplementary file Size Download File type/resource
GSM210502.gff.gz 3.9 Mb (ftp)(http) GFF
GSM210502_60914_532.pair.gz 6.6 Mb (ftp)(http) PAIR
GSM210502_60914_635.pair.gz 6.5 Mb (ftp)(http) PAIR
Processed data included within Sample table

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