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Sample GSM3456497 Query DataSets for GSM3456497
Status Public on Nov 05, 2018
Title MHCII.Hi_S236
Sample type SRA
 
Source name Primary intestinal epithelial cells from wild type mice, sorted on H2-Ab1 and Lgr5 [Fig.S2D] [MHCII.Hi_S236]
Organism Mus musculus
Characteristics cell type: Lgr5-GFP mouse intestinal epithelial cells
strain: C57BL/6
treatment: None
time point: None
genotype: Lgr5-GFP
Extracted molecule total RNA
Extraction protocol Full length RNAseq (SMART-Seq2)
This sample represents a single cell processed with SMART-Seq2 protocol.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NextSeq 500
 
Description MHCII_FACS_SS2_All_TPM.mtx
Data processing Full-length RNAseq (SMART-Seq2)
Tophat
Bowtie
RSEM
PCA (prcomp in R)
kNN-based graph clustering (R code)
Genome_build: mm10
Supplementary_files_format_and_content: Transcripts per million (TPM) expression values (derived from RSEM for each gene (rows) in each cell (columns).
 
Submission date Nov 05, 2018
Last update date Apr 05, 2019
Contact name Adam Haber
E-mail(s) [email protected]
Organization name Harvard T. H. Chan School of Public Health
Street address 665 Huntington Ave, HSPH Building 1, Room 305
City Boston
State/province Massachusetts
ZIP/Postal code 02115
Country USA
 
Platform ID GPL19057
Series (1)
GSE106510 T helper cells modulate intestinal stem cell renewal and differentiation
Relations
BioSample SAMN10379445
SRA SRX4979058

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

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