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Series GSE163702 Query DataSets for GSE163702
Status Public on Oct 14, 2021
Title Global gene expression profile of anti-CD3/CD28 or PMA/ionomycin stimulated CD4+ T cell, wild type and Mapk1-KO CD4+ T cells, and empty vector and sh-Zfp831 infected CD4+ T cells
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Several factors promote Tfh cell differentiation. In order to understand how they promotes the expression of Tfh signature genes, we conducted transcriptional analysis.
 
Overall design Naive CD4+ T cells were sorted from wild type or Mapk1-KO mice and activated under various conditions. Under specified condition, empty vector or pMKO.1-sh-Zfp831 were viral transfected into cells. Three days later, the total RNA was extracted with Trizol (Life Technologies) according to manufacturer’s instructions. RNA-seq library was constructed and sequenced with BGI500 platform by BGI Genomics and successfully mapped to mouse genome. Reads counts were normalized based on RPKM/FPKM, fold changes were calculated for all possible comparisons.
 
Contributor(s) Wan S, Zhao X
Citation missing Has this study been published? Please login to update or notify GEO.
Submission date Dec 22, 2020
Last update date Oct 15, 2021
Contact name Chen Dong
Organization name Tsinghua University
Department Institute for Immunology and School of Medicine
Lab Dongchen's lab
Street address Haidian District
City Beijing
ZIP/Postal code 100084
Country China
 
Platforms (1)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
Samples (10)
GSM4984082 3+28
GSM4984083 PI
GSM4984084 Mapk1_KO_rep1
This SubSeries is part of SuperSeries:
GSE163808 ERK, differentially regulated by costimulation molecules, represses Zfp831, a critical regulator in T follicular helper cell differentiation
Relations
BioProject PRJNA687225
SRA SRP298938

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE163702_3+28_VS_PI_FPKM.txt.gz 183.5 Kb (ftp)(http) TXT
GSE163702_EV_vs_KD2_counts.txt.gz 3.9 Mb (ftp)(http) TXT
GSE163702_Mapk1_counts.txt.gz 3.9 Mb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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