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Sample GSM4273518 Query DataSets for GSM4273518
Status Public on Dec 18, 2020
Title control 4
Sample type RNA
 
Source name CD73-FR4-CD4+ T cells
Organism Mus musculus
Characteristics sample type: control
Extracted molecule total RNA
Extraction protocol The Trizol samples were thawed on ice, 300 µl chloroforn was added, shaken, incubated for 3 minutes at room temperature and spun at 12,000 x g and 4°C. The aqueous phase was transferred to new tubes, 1 volume of isopropanol and 1 µl of linear polyachrylamide stock solution (25 µg/µl) was added. The samples were precipitated for 16 hours at -20°C and centrifuged for 10 minutes at 12,000 x g and 4°C. Supernatants were removed and RNA pellets washed with 70% ethanol. RNA pellets were resuspended in 100 µl RNAse-free water and purified with NucleoSpin RNA Clean-up XS columns as per manufacturer's instructions, from which the RNA was eluted with 12 µl water and stored at -80°C. RNAs were quantified with an Agilent 2100 Bioanalyzer. All samples had RNA integrity values > 8 and were use for amplification and microarray hybridizations.
Label biotin
Label protocol Total RNA (0.1-30 ng) was amplified and labeled using the Ovation Pico WTA System V2 in combination with the Encore Biotin Module (Nugen).
 
Hybridization protocol Amplified cDNA was hybridized on Affymetrix Mouse Gene ST 2.0 arrays containing about 35,000 probe sets.
Scan protocol Staining and scanning using a GeneChip Scanner 3000 7G was done according to the Affymetrix expression protocol including minor modifications as suggested in the Encore Biotin protocol.
Description FACS-sorted CD4+ T cells
Data processing R/Bioconductor, rma normalization, default parameters
 
Submission date Jan 15, 2020
Last update date Dec 18, 2020
Contact name Tobias Straub
E-mail(s) tstraub@med.uni-muenchen.de
Organization name LMU Munich
Department Biomedical Center, Bioinformatics
Street address Großhadener Str. 9
City Martinsried
ZIP/Postal code 82152
Country Germany
 
Platform ID GPL16570
Series (2)
GSE143738 Gene expression of control and anergic CD4+ T cells in the mouse
GSE143739 Gene expression of CD4+ T cells

Data table header descriptions
ID_REF
VALUE RMA signal intensity

Data table
ID_REF VALUE
17200001 3.07
17200003 5.14
17200005 2.76
17200007 3.93
17200009 3.38
17200011 3.96
17200013 2.71
17200015 5.07
17200017 4.88
17200019 3.19
17200021 3.19
17200023 4.38
17200025 2.64
17200027 5.17
17200029 2.66
17200031 3.19
17200033 4.33
17200035 2.29
17200037 2.53
17200039 2.28

Total number of rows: 41345

Table truncated, full table size 560 Kbytes.




Supplementary file Size Download File type/resource
GSM4273518_ctrl_4.CEL.gz 8.2 Mb (ftp)(http) CEL
Processed data included within Sample table

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