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Sample GSM7134844 Query DataSets for GSM7134844
Status Public on Mar 30, 2024
Title PATIENT_#21
Sample type RNA
 
Source name Stimulated T cells
Organism Homo sapiens
Characteristics gender: female
genotype: PSMC3 +/E305D
phenotype: Neurodevelopmental disorder
Treatment protocol PBMC were stimulated with 1 µg/µl L-PHA (Sigma) and 150 U/ml IL-2 (Miltenyi Biotec) for three weeks to expand naive T cells following the procedure of Fonteneau et al.
Growth protocol PBMC were cultured in U-bottom 96-well plates together with irradiated feeder cells using RPMI 1640 medium supplemented with 10% human AB serum.
Extracted molecule total RNA
Extraction protocol Total RNA was isolated from resting T cells using the kit from Analytic Jena AG following the manufacturer’s instructions.
Label NanoString CodSets
Label protocol Labelling was performed using gene-specific biotin-tagged molecular barcodes (CodeSets) designed and provided by the manufacturer.
 
Hybridization protocol One hundred nanograms total RNA was hybridized with the nCounter Autoimmune Profiling panel CodeSets for 16 hours at 65°C.
Scan protocol Hybridized probes were immobilized on streptavidin-coated cartridges for digital counting by a nCounter™ Digital Analyzer.
Data processing RCC files were analysed using nSolver 4.0. Normalization of RNA loading was performed using the geometric mean of a unique housekeeping gene.
 
Submission date Mar 31, 2023
Last update date Mar 30, 2024
Contact name Frédéric Ebstein
E-mail(s) frederic.ebstein@gmail.com
Organization name French Institute of Health and Medical Research (Inserm)
Department L'unité de recherche de l'institut du thorax, Inserm UMR 1087
Street address IRS-UN - 8 quai Moncousu - BP 70721
City Nantes
ZIP/Postal code 44007
Country France
 
Platform ID GPL33300
Series (1)
GSE228675 Transcriptional analysis of T cells derived from individuals with neurodevelopmental disorder carrying de novo heterozygous PSMC3 variants.

Data table header descriptions
ID_REF
VALUE Values are normalized RNA counts.

Data table
ID_REF VALUE
1 26.3
2 2234.55
3 827.45
4 1719.61
5 736.44
6 3926.65
7 143.66
8 84.98
9 1.2
10 1681.29
11 9.54
12 507.71
13 68.22
14 534.06
15 1554.35
16 1551.96
17 33.49
18 1.2
19 4.75
20 13.13

Total number of rows: 784

Table truncated, full table size 8 Kbytes.




Supplementary file Size Download File type/resource
GSM7134844_PATIENT_21.RCC.gz 8.9 Kb (ftp)(http) RCC
Processed data included within Sample table

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