Gene Expression Nebulas
A data portal of transcriptomic profiles analyzed by a unified pipeline across multiple species

Gene Expression Nebulas

A data portal of transcriptome profiles across multiple species

PRJNA694174: Transcriptional analysis of SARS-CoV-2 specific CD4 T cells

Source: NCBI / GSE165373
Submission Date: Jan 22 2021
Release Date:
Update Date: Aug 16 2021

Summary: Transcriptional analysis of SARS-CoV-2 specific CD4 T cells

Overall Design: The objective of this analysis was to determine if there was a transcriptional difference in the CD4 T cell response elicited by SARS-CoV-2 infection in individuals that quickly resolved their infection compared to those individuals with prolonged SARS-CoV-2-associated symptoms

GEN Datasets:
GEND000454
Strategy:
Species:
Tissue:
Healthy Condition:
Cell Type:
Cell Line:
Development Stage:
Protocol
Growth Protocol: -
Treatment Protocol: Cryopreserved PBMC samples were thawed and resuspended in complete cell culture media at a concentration of 5 × 106 cell/mL and stimulated with 0.5 μg/mL of a SARS-CoV-2 Spike protein peptide pool for 18 h at 37 °C. Spike-reactive CD4+ T cells were identified by expression of the activation markers CD134 and CD69 and isolated by flow cytometric sorting using BD FACSAria II instrument. Cells were sorted directly into 350ul RLT+ buffer supplemented with 1% 2-ME
Extract Protocol: RNA isolated from RLT+ buffer using a RNeasy Micro spin column according to the manufacuter's protocol
Library Construction Protocol: cDNA was generated using a SMART-Seq HT Kit (TaKaRa, 634455), and the final Illumina-compatible DNA sequencing libraries prepared using an Illumina Nextera XT DNA Library Preparation kit
Sequencing
Molecule Type: polyA(+) RNA
Library Source:
Library Layout: SINGLE
Library Strand: -
Platform: ILLUMINA
Instrument Model: Illumina NextSeq 500
Strand-Specific: Unspecific
Samples
Basic Information:
Sample Characteristic:
Biological Condition:
Experimental Variables:
Protocol:
Sequencing:
Assessing Quality:
Analysis:
Data Resource GEN Sample ID GEN Dataset ID Project ID BioProject ID Sample ID Sample Name BioSample ID Sample Accession Experiment Accession Release Date Submission Date Update Date Species Race Ethnicity Age Age Unit Gender Source Name Tissue Cell Type Cell Subtype Cell Line Disease Disease State Development Stage Mutation Phenotype Case Detail Control Detail Growth Protocol Treatment Protocol Extract Protocol Library Construction Protocol Molecule Type Library Layout Strand-Specific Library Strand Spike-In Strategy Platform Instrument Model Cell Number Reads Number Gbases AvgSpotLen1 AvgSpotLen2 Uniq Mapping Rate Multiple Mapping Rate Coverage Rate
Publications
Persistent COVID-19 Symptoms Minimally Impact the Development of SARS-CoV-2-Specific T Cell Immunity.
Viruses . 2021-05-15 [PMID: 34063463]