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Sample GSM210505 Query DataSets for GSM210505
Status Public on Nov 19, 2007
Title CD4+ DNAse hypersitivity_2005-09-28_Crawford_HG17_Set16_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_Set16_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 GPL5548
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 440.44 742.78 -0.313864708647275
52886883 517.89 754.22 0.0759228435569504
52886884 668.44 770.22 0.698160358273474
52886885 487.67 723.22 0.0276903442843573
52886886 1199.11 1492.56 0.493086757273648
52886887 433.11 630.11 0.078629136446118
52886888 807.44 1019.78 0.454400659545693
52886889 637.67 772.22 0.566058986437873
52886890 688.33 891.11 0.388704567168283
52886891 533.78 691 0.388820006220933
52886892 536.44 704.89 0.349148996888121
52886893 508.78 541 0.911583106642584
52886894 577 911.78 -0.140978540632621
52886895 552.89 724.78 0.355467106842998
52886896 563.89 664.11 0.640081771071146
52886897 569.89 872 -0.0553968502323908
52886898 539.33 838.22 -0.0968637388259427
52886899 501.56 741.33 0.0365961677244372
52886900 472.67 648.89 0.232830829424708
52886901 1197 1460 0.547010101016316

Total number of rows: 388468

Table truncated, full table size 15865 Kbytes.




Supplementary file Size Download File type/resource
GSM210505.gff.gz 3.9 Mb (ftp)(http) GFF
GSM210505_60793_532.pair.gz 6.6 Mb (ftp)(http) PAIR
GSM210505_60793_635.pair.gz 6.6 Mb (ftp)(http) PAIR
Processed data included within Sample table

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