NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM2425903 Query DataSets for GSM2425903
Status Public on Nov 06, 2017
Title Salmonella/H.poly Cell 72
Sample type SRA
 
Source name WT Mouse intestinal epithelial cells
Organism Mus musculus
Characteristics stain: C57BL/6
genotype: Wild type
treatment: H. polygyrus (Day 3)
Extracted molecule total RNA
Extraction protocol 3' polyA RNA seq
10X Genomics Chromium Prep
Full length RNAseq (SMART-Seq2)
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NextSeq 500
 
Description Full-length RNAseq (SMART-Seq2) reads
Data processing 3' polyA RNA-seq
CellRanger 1.0
PCA (prcomp in R)
kNN-based graph clustering (R code)
Full-length RNAseq (SMART-Seq2)
Tophat
Bowtie
RSEM
Genome_build: mm10
Supplementary_files_format_and_content: 3' polyA RNA-seq: UMI count expression values for each gene (rows) in each cell (columns)
Supplementary_files_format_and_content: Full-length RNAseq (SMART-Seq2): Transcripts per million (TPM) expression values (derived from RSEM for each gene (rows) in each cell (columns)
 
Submission date Dec 13, 2016
Last update date May 15, 2019
Contact name Adam Haber
E-mail(s) ahaber@hsph.harvard.edu
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)
GSE92332 A single-cell survey of the small intestinal epithelium
Relations
BioSample SAMN06139998
SRA SRX2418183

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

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap