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Sample GSM7106769 Query DataSets for GSM7106769
Status Public on Sep 08, 2023
Title LP cells, biol rep 1
Sample type SRA
 
Source name Mammary epithelial cells
Organism Mus musculus
Characteristics tissue: Mammary epithelial cells
cell type: luminal progenitor
strain: FVB/N mice
developmental stage: adult (9-10 weeks of age)
Sex: female
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using Qiagen's miRNeasy kit and DNase treated.
100ng of total RNA was used to construct libraries following Illumina's recommended protocol for TruSeq RNA Library Prep Kit v2.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NextSeq 500
 
Description LP1
Data processing Libraries were sequenced on an Illumina NextSeq 500, generating 80 bp paired-end reads.
Reads were aligned to the mouse genome mm10 by the subjunc function of the Rsubread software tool version 1.34.4.
Read counts were summarized by Entrez Gene ID using the Rsubread featureCounts function and Rsubread's inbuilt RefSeq annotation.
Assembly: mm10
Supplementary files format and content: Tab-delimited text files; columns represent Entrez Gene ID, gene length (total base count of all exons) and the number of reads mapped to that gene.
 
Submission date Mar 20, 2023
Last update date Sep 08, 2023
Contact name Yunshun Chen
E-mail(s) yuchen@wehi.edu.au
Organization name Walter and Eliza Hall Institute of Medical Research
Department ACRF Cancer Biology and Stem Cells
Lab Chen
Street address 1G Royal Parade
City Parkville
State/province VIC
ZIP/Postal code 3052
Country Australia
 
Platform ID GPL19057
Series (2)
GSE227748 3D genome organization coordinates key regulators of lineage specification in mammary epithelial cells [RNASeq_MEC]
GSE227750 3D genome organization coordinates key regulators of lineage specification in mammary epithelial cells
Relations
BioSample SAMN33830216
SRA SRX19731160

Supplementary file Size Download File type/resource
GSM7106769_LP1.txt.gz 182.0 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record
Processed data provided as supplementary file

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