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Sample GSM2650513 Query DataSets for GSM2650513
Status Public on Oct 31, 2017
Title Type B intercalated cell, single-cell RNA-Seq, transcriptome 12
Sample type SRA
 
Source name Kidney
Organism Mus musculus
Characteristics strain: C57BL/6
tissue: Kidney
facs antibody: PNA
Treatment protocol Male mice were grown and maintained in the Animal Facility of the NHLBI. 2 month-old mice were used in the experiments.
Extracted molecule polyA RNA
Extraction protocol Cells at 500-700 cells/ul were loaded to C1 IFC, single cell was captured in each champer. After cell lysis, reverse transcription, and PCR on the C1 system, cDNAs were harvested from each IFC outlet.
RNA libraries were prepared for sequencing using standard Illumina protocols
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 3000
 
Data processing Sequenced reads were mapped to Ensembl mouse gene set (GRCm38.p5) using STAR v2.5.1b
Transcript abundances in TPM were caculated by RSEM/1.2.31
Single-cell RNA-seq data analysis were carried out using Seurat package
GRCm38.p5 (Ensembl)
Genome_build: tab-delimited text files include TPM values for each cell
 
Submission date Jun 05, 2017
Last update date May 15, 2019
Contact name Lihe Chen
E-mail(s) lihe.chen@nih.gov
Phone 3015947152
Organization name NHLBI
Street address 10 center drive MSC 1603, Building 10, Room 6N318
City Bethesda
State/province MD
ZIP/Postal code 20892
Country USA
 
Platform ID GPL21493
Series (1)
GSE99701 Transcriptomes of major renal collecting duct cell types in mouse identified by single-cell RNA-Seq
Relations
BioSample SAMN07195465
SRA SRX2884828

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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