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Sample GSM3488976 Query DataSets for GSM3488976
Status Public on Mar 29, 2020
Title Tcm_PEneg_B
Sample type RNA
 
Source name primary T lymphocytes derived from human peripheral blood mononuclear cells (PBMC)
Organism Homo sapiens
Characteristics cell type: effector memory T lymphocytes
culture condition: Effector memory T lymphocytes were stimulated with PMA/Ionomycin, PE-labelled within a GM-CSF Cytokine Secretion Assay (Miltenyi Biotec) and sorted for PEpos/neg before total RNA extraction
label: PEneg
Treatment protocol Tem were stimulated for 3h with PMA/ionomycin and labelled for GM-CSF secretion with a GM-CSF cytokine secretion kit (Miltenyi Biotec) before sorting for PE+/- cells with a BD Sorter Aria II
Growth protocol Effector memory T lymphocytes were isolated by magnetic enrichment for CD4 (Miltentyi Biotec) and sorted for CD4+CD25-CD45RA-CCR7- and incubated overnight in complete media
Extracted molecule total RNA
Extraction protocol PE+/- cells were resuspended in Trizol. Total RNA was extracted with Direct-Zol RNA mini Prep (Zymo Research)
Label biotin
Label protocol 100 ng of total RNA were labelled with the nCounter® Human miRNA Expression Assay codeset according to the manufacturers protocol
 
Hybridization protocol Samples were hybridized overnight at 65C
Scan protocol Samples were run on a Nanostring Sprint Profiler
Description Human peripheral blood mononuclear cells were separated from peripheral blood using Ficoll-Paque Plus (GE Healthcare). CD4+ T lymphocytes were further isolated by positive selection using magnetic microbeads (Miltenyi Biotec). Effector Memory T cell subsets were then sorted based on the expression of the following surface markers: CD4+CD25–CD45RA-CCR7-.
nCounter® Human miRNA Expression Assay
Data processing Raw data was processed with nSolver 3.0 Software (Nanostring). Reads were normalized to internal postive & negative controls and to the 25 highest expressed miRNAs. Genes were considered expressed if at least one sample had a read >125 and maximum 1 sample with a read <27
 
Submission date Nov 26, 2018
Last update date Mar 29, 2020
Contact name Chiara Balestrieri
E-mail(s) balestrieri.c@gmail.com
Organization name IRCCS San Raffaele Scientific Institute
Department Center for Omics Sciences
Street address Via Olgettina 58
City Milan
ZIP/Postal code 20132
Country Italy
 
Platform ID GPL25243
Series (2)
GSE122943 A molecular network regulating the pro-inflammatory phenotype of human memory T lymphocytes (Nanostring II)
GSE122946 A molecular network regulating the proinflammatory phenotype of human memory T lymphocytes

Data table header descriptions
ID_REF
VALUE normalized reads

Data table
ID_REF VALUE
hsa-let-7a-5p 734.56
hsa-let-7b-5p 117.48
hsa-let-7d-5p 80.17
hsa-let-7f-5p 55.57
hsa-let-7g-5p 1669.42
hsa-let-7i-5p 241.31
hsa-miR-106a-5p+hsa-miR-17-5p 91.65
hsa-miR-125a-5p 75.25
hsa-miR-1260a 79.76
hsa-miR-132-3p 101.49
hsa-miR-142-3p 10932.66
hsa-miR-146a-5p 78.12
hsa-miR-146b-5p 148.23
hsa-miR-150-5p 30919.24
hsa-miR-155-5p 151.51
hsa-miR-15a-5p 150.28
hsa-miR-15b-5p 269.6
hsa-miR-16-5p 458.21
hsa-miR-181a-5p 44.49
hsa-miR-191-5p 110.1

Total number of rows: 798

Table truncated, full table size 15 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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