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Sample GSM5026606 Query DataSets for GSM5026606
Status Public on Feb 24, 2021
Title cDC1 zfp366 KO replicate 2
Sample type SRA
 
Source name Splenic conventional dendritic cells 1
Organism Mus musculus
Characteristics strain: C57/BL6
genotype: zfp366-/-
gender: Female
biological replicate (mouse pool): 2
Treatment protocol ex-vivo isolated splenic DCs (tissue digested with collagenase and DNAse)
Extracted molecule polyA RNA
Extraction protocol RNeasy Plus Mini kit (Qiagen).
TruSeq RNA Sample preparation kit (Illumina)
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NextSeq 500
 
Description 1456 cDC1
Data processing Sequencing was undertaken on an Illumina NextSeq 500 to produce 86bp paired-end reads.
Read-pairs were aligned to the GRCm38/mm10 build of the Mus musculus genome using Rsubread::align.
Genewise counts were obtained using featureCounts with Rsubread's inbuilt mm10 annotation.
Genome_build: GRCm38/mm10
Supplementary_files_format_and_content: Tab-delimited text giving Entrez Gene IDs, gene length (number of bases in union of all exons) and the number of read-pairs assigned to that read.
 
Submission date Jan 19, 2021
Last update date Feb 26, 2021
Contact name Gordon K Smyth
E-mail(s) smyth@wehi.edu.au
Phone (+61 3) 9345 2326
Fax (+61 3) 9347 0852
URL http://www.wehi.edu.au
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
 
Platform ID GPL19057
Series (2)
GSE165125 RNA-seq analysis of mouse cDC1 and cDC2 populations upon DC-SCRIPT depletion
GSE165361 RNA-seq and CUT&Tag analysis of mouse cDC1 and cDC2 populations upon DC-SCRIPT depletion
Relations
BioSample SAMN17384744
SRA SRX9898626

Supplementary file Size Download File type/resource
GSM5026606_GenewiseCounts_1456-cDC1.tsv.gz 175.8 Kb (ftp)(http) 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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