|
| Status |
Public on Nov 05, 2018 |
| Title |
MHCII.Hi_S246 |
| Sample type |
SRA |
| |
|
| Source name |
Primary intestinal epithelial cells from wild type mice, sorted on H2-Ab1 and Lgr5 [Fig.S2D] [MHCII.Hi_S246]
|
| 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 |
SAMN10379434 |
| SRA |
SRX4979069 |
