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Sample GSM1371019 Query DataSets for GSM1371019
Status Public on Jul 25, 2014
Title SScMH_32_6mo_RA
Sample type RNA
 
Channel 1
Source name SScMH_32_6mo_RA
Organism Homo sapiens
Characteristics tissue: systemic sclerosis human forearm skin biopsy
Biomaterial provider Northwestern University
Treatment protocol Storage of human tissue in RNAlater.
Extracted molecule total RNA
Extraction protocol Total RNA isolated using Qiagen RNeasy Mini Kit.
Label Cy3
Label protocol Labeled using Agilent Quick Amp Labeling Kit.
 
Channel 2
Source name Stratagene Universal Human Reference
Organism Homo sapiens
Characteristics sample type: reference
Biomaterial provider Stratagene
Extracted molecule total RNA
Extraction protocol Total RNA isolated by Stratagene.
Label Cy5
Label protocol Labeled using Agilent Quick Amp Labeling Kit.
 
 
Hybridization protocol Hybridized using Agilent Hyb Kit.
Scan protocol Fluorescent array images were collected for both Cy3 and Cy5 with a GenePix 4000B fluorescent scanner, and image intensity data were extracted and analyzed with GenePix Pro analysis software.
Description SScMH_32_6mo_RA
EXPT_ID: 72498
PRINT_ID: 1064
Data processing Data for both channels were Lowess-normalized and then the log(2) ratio was taken. Data were filtered for genes with >80% good data.
 
Submission date Apr 17, 2014
Last update date Jan 14, 2016
Contact name Tammara Wood
E-mail(s) tammara.a.wood@dartmouth.edu
Organization name Dartmouth Medical School
Department Biomedical Data Science
Lab Whitfield Lab
Street address WTRB 674
City Lebanon
State/province NH
ZIP/Postal code 03756
Country USA
 
Platform ID GPL6480
Series (4)
GSE59785 Mycophenolate Treatment in Systemic Sclerosis
GSE59787 Hinchcliff 165 microarray dataset
GSE76809 Multi-tissue functional genomic study of systemic sclerosis

Data table header descriptions
ID_REF
VALUE Log(base2) of G/R Lowess Normalized Ratio (Mean) representing test/reference
INV_VALUE Log(base2) of R/G Lowess Normalized Ratio (Mean)

Data table
ID_REF VALUE INV_VALUE
A_23_P100001 0.009 -0.009
A_23_P100022 0.405 -0.405
A_23_P100056 -0.547 0.547
A_23_P100074 0.153 -0.153
A_23_P100092 0.112 -0.112
A_23_P100103 -0.197 0.197
A_23_P100127 -0.208 0.208
A_23_P100133 -0.00806 0.00806
A_23_P100141 -0.743 0.743
A_23_P100156 -0.45 0.45
A_23_P100196 -0.275 0.275
A_23_P100203 -0.131 0.131
A_23_P100220 0.352 -0.352
A_23_P10025 -0.22 0.22
A_23_P100263 -0.779 0.779
A_23_P100292 0.322 -0.322
A_23_P100315 -0.00787 0.00787
A_23_P100326 -0.288 0.288
A_23_P100341 -0.0626 0.0626
A_23_P100344 -0.239 0.239

Total number of rows: 24044

Table truncated, full table size 605 Kbytes.




Supplementary file Size Download File type/resource
GSM1371019_SScMH_32_6mo_RA_251485046929A.gpr.gz 5.7 Mb (ftp)(http) GPR
Processed data included within Sample table

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