|
Status |
Public on Nov 06, 2017 |
Title |
Salmonella/H.poly infection (H.poly day10 - Mouse1) |
Sample type |
SRA |
|
|
Source name |
WT Mouse intestinal epithelial cells
|
Organism |
Mus musculus |
Characteristics |
strain: C57BL/6 treatment: Infection with 200 third-stage larvae of H. polygyrus time point: 10 days after infection genotype: Wild-type
|
Extracted molecule |
total RNA |
Extraction protocol |
3' polyA RNA seq 10X Genomics Chromium Prep
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina NextSeq 500 |
|
|
Data processing |
3' polyA RNA-seq CellRanger 1.0 PCA (prcomp in R) kNN-based graph clustering (R code) Genome_build: mm10 Supplementary_files_format_and_content: 3' polyA RNA-seq. The expression levels for each gene (rows) in each single cell (column) in UMI counts as calculated using the CellRanger pipeline. Each column header provides the sequencing batch id, the cell barcode, and the cell type as identified by cluster analysis. Each ID is seperated by '_'
|
|
|
Submission date |
Nov 03, 2017 |
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 |
SAMN07976258 |
SRA |
SRX3361134 |