|
| Status |
Public on Jun 30, 2021 |
| Title |
ScRNA Overnight Fast + Refed Sample 1 data chunk S6_L005 |
| Sample type |
SRA |
| |
|
| Source name |
median eminence of the hypothalamus
|
| Organism |
Mus musculus |
| Characteristics |
tissue: median eminence of the hypothalamus
treatment: Overnight Fast + Refed
replicate: 1
strain: C57B/L6
10x_library_barcode: SIGAC7
data_chunk: S6_L005
|
| Treatment protocol |
5 animals were fasted overnight, 5 animals were fasted overnight then refed 1h (normal chow diet)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
The median eminence from all animals within the same treatment groups are combined and single cells were dissociated via trituration in papain.
Isolated cells from each treatment group were split into 2 and were encapsulated in droplets and cDNA libraries were made using a 10X Genomics Chromium instrument and 10X Single Cell 3’ V2 Reagent kit. Paired end sequencing was performed on an Illumina HiSeq 4000. The first 26bp read contains both a cell barcode and a unique molecular identifier, the next 76bp read contains the cDNA insert.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Description |
scRNASeq sample collected from C57B/L6 mice after Overnight Fast + Refed replicate 1 data chunk S6_L005
|
| Data processing |
Sequencing reads were generated using 10X Genomics Cell Ranger software version 2.0 mkfastq command
The same software (count) was used to map reads to the mm10 Mouse genome and to measure the gene abundance
Genome_build: mm10
Supplementary_files_format_and_content: Raw UMI counts for each cell are listed in a tab-delimited file
|
| |
|
| Submission date |
Jul 05, 2019 |
| Last update date |
Jun 30, 2021 |
| Contact name |
Brian Yee Hong Lam |
| E-mail(s) |
yhbl2@cam.ac.uk
|
| Organization name |
University of Cambridge
|
| Department |
Metabolic Research Laboratories
|
| Street address |
Box 289 Addenbookes Hospital, Hills Road
|
| City |
Cambridge |
| ZIP/Postal code |
CB2 0QQ |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL21103 |
| Series (1) |
| GSE133890 |
Rapid nutritional regulation of oligodendrocytes of the adult hypothalamic median eminence revealed by single-cell transcriptomic analysis |
|
| Relations |
| BioSample |
SAMN12220209 |
| SRA |
SRX6408754 |
