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Series GSE165125 Query DataSets for GSE165125
Status Public on Feb 24, 2021
Title RNA-seq analysis of mouse cDC1 and cDC2 populations upon DC-SCRIPT depletion
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary The functional diversification of dendritic cells (DCs) is a key step in establishing protective immune responses. Despite the importance of this lineage diversity, its genetic basis is not fully understood. DC-SCRIPT (Zfp366) is a poorly known transcription factor expressed in conventional DCs (cDCs) and their committed bone marrow progenitors but not in plasmacytoid DCs (pDCs). We show that mice lacking DC-SCRIPT displayed substantially impaired development of IRF8-dependent conventional DC1 (cDC1), while cDC2 differentiated normally. The residual DC-SCRIPT-deficient cDC1s had impaired CD8+ T-cell cross-priming, which could be in part explained by the direct control of DC-SCRIPT on IL-12p40 production. Genome-wide mapping of DC-SCRIPT binding and gene expression analyses revealed a key role for DC-SCRIPT in maintaining cDC1 identity via the direct regulation of cDC1 signature genes, including Irf8. Our study reveals DC-SCRIPT to be a critical component of the gene regulatory program shaping the functional attributes of cDC1s.
Overall design cDC1s and cDC2s were sorted from the spleens of WT and Zfp366-/- mice. RNA was extracted and profiled using RNA-seq. Biological triplicates were prepared for each genotype to produce twelve samples in total.
Contributor(s) Coughlan HD, Smyth GK
Citation(s) 33811060
Submission date Jan 19, 2021
Last update date May 26, 2021
Contact name Gordon K Smyth
Phone (+61 3) 9345 2326
Fax (+61 3) 9347 0852
Organization name Walter and Eliza Hall Institute of Medical Research
Department Bioinformatics
Lab Smyth
Street address 1G Royal Pde
City Parkville
State/province Vic
ZIP/Postal code 3052
Country Australia
Platforms (1)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (12)
GSM5026604 cDC1 zfp366 KO replicate 1
GSM5026605 cDC2 zfp366 KO replicate 1
GSM5026606 cDC1 zfp366 KO replicate 2
This SubSeries is part of SuperSeries:
GSE165361 RNA-seq and CUT&Tag analysis of mouse cDC1 and cDC2 populations upon DC-SCRIPT depletion
BioProject PRJNA693308
SRA SRP302432

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Supplementary file Size Download File type/resource
GSE165125_GenewiseCounts.tsv.gz 478.5 Kb (ftp)(http) TSV
GSE165125_RAW.tar 2.1 Mb (http)(custom) TAR (of TSV)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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