|
| Status |
Public on May 08, 2020 |
| Title |
FAE.epi3.WT |
| Sample type |
SRA |
| |
|
| Source name |
WT Mouse intestinal epithelial cells
|
| Organism |
Mus musculus |
| Characteristics |
strain: Wild type
cell type: intestinal epithelial cells
|
| 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 |
| |
|
| Description |
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 '_'
|
| Data processing |
3' polyA RNA-seq; BAM file of 3' RNAseq reads aligned to mm10
CellRanger 1.0
PCA (prcomp in R)
kNN-based graph clustering (R code)
Genome_build: mm10
Supplementary_files_format_and_content: UMI count expression values for each gene (rows) in each cell (columns)
|
| |
|
| Submission date |
May 07, 2020 |
| Last update date |
May 08, 2020 |
| 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 |
SAMN14848803 |
| SRA |
SRX8288182 |
