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Sample GSM4099246 Query DataSets for GSM4099246
Status Public on Oct 28, 2020
Title db/db1
Sample type SRA
 
Source name pancreas
Organism Mus musculus
Characteristics cell type: islet cells
strain: C57BL/6
tissue: pancreas
genotype: Lepr-/-
Extracted molecule total RNA
Extraction protocol Islets were isolated by collagenase digestion followed by purification on Histopaque (Sigma Aldrich, Germany) density gradient and used directly for RNA extraction.
The library for sequencing was constructed by removing ribosomal RNA from the total RNA.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model HiSeq X Ten
 
Data processing We applied the reads filtering towards the raw reads after sequencing to achieve the clean data following the criteria: a)10% base quality <15 b) 13% base quality <20.
Hisat2 2.0.4 mapping to reference genome
count counting
Genome_build: mm10
Supplementary_files_format_and_content: TXT file contain counts for each sample
 
Submission date Sep 27, 2019
Last update date Oct 28, 2020
Contact name Liting Wu
E-mail(s) wult5@mail2.sysu.edu.cn
Organization name The First Affiliated Hospital of Sun Yat-sen University
Department Department of Endocrinology and Metabolism
Street address Zhongshan Road 2
City Guangzhou
ZIP/Postal code 510080
Country China
 
Platform ID GPL21273
Series (1)
GSE138096 Next Generation Sequencing Facilitates Quantitative Analysis of Wild Type and Diabetic db/db Mice Islets Transcriptomes
Relations
BioSample SAMN12860814
SRA SRX6914901

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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