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Sample GSM1267433 Query DataSets for GSM1267433
Status Public on Nov 18, 2013
Title Normal-N_LJ_7
Sample type RNA
 
Source name human skin biopsy
Organism Homo sapiens
Characteristics condition: Normal
patient: N_LJ_7
tissue: Normal skin biopsy
kit: Affy
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using miRNeasy Mini Kit (Qiagen, Valencia, CA) according to the manufacturer’s protocol with on-column DNase digestion
Label biotin
Label protocol GeneChip Affymetrix protocol
 
Hybridization protocol RNA was hybridized to HGU133 Plus 2.0 chips to measure relative gene expression.
Scan protocol Hewlett-Packard GeneArray Scanner
Data processing Preprocessing was carried out using GCRMA (through gcrma package from R/Bioconductor). Since samples were processed using two different kits, Combat was used to eliminate the batch effect. However, the presence of genes with small variance precluded successful estimation of the parameters in the sophisticated model used by Combat in this dataset. To circumvent this issue, genes with SD<0.2 were eliminated prior to Combat adjustment of the batch effect.
 
Submission date Nov 18, 2013
Last update date Mar 14, 2023
Contact name Mayte Suarez-Farinas
E-mail(s) mayte.suarezfarinas@mssm.edu
Organization name Mount SinaiSchool of Medicine
Street address 1425 Madison Ave, L2-70C, Box 1077,
City New York
State/province NY
ZIP/Postal code 10075
Country USA
 
Platform ID GPL571
Series (1)
GSE52471 Dominant Th1 and Minimal Th17 Skewing in Discoid Lupus Revealed by Transcriptomic Comparison with Psoriasis
Relations
Reanalysis of GSM802171
Reanalyzed by GSE227329

Data table header descriptions
ID_REF
VALUE Normalized Expression values in log-2 scale

Data table
ID_REF VALUE
1007_s_at 11.87489638
1053_at 8.407544975
117_at 3.367197652
121_at 5.433205136
1294_at 6.57723755
1316_at 2.912895295
1320_at 4.459486523
1405_i_at 6.005393105
1431_at 5.269606864
1438_at 6.277650565
1487_at 8.536228403
1598_g_at 10.40531818
160020_at 5.849358609
1729_at 9.056438403
177_at 7.653094387
179_at 2.069927667
1861_at 3.441319107
200000_s_at 11.24566312
200001_at 11.14912712
200002_at 13.91593757

Total number of rows: 17440

Table truncated, full table size 389 Kbytes.




Supplementary file Size Download File type/resource
GSM1267433_GSM802171.CEL.gz 2.1 Mb (ftp)(http) CEL
Processed data included within Sample table

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