|
| Status |
Public on Dec 31, 2017 |
| Title |
DMH-D-Fed-111 |
| Sample type |
SRA |
| |
|
| Source name |
dorsomedial nucleus
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57/BL6
nutritional state: Fed
batch: 1
|
| Treatment protocol |
Male mice with a paternal Snord116 deletion (B6(Cg)-Snord116tm1.1Uta/J - JAX stock no 008149) were either ad-libitum fed or fasted for 24-hours prior to brain dissection.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Hypothalamic nuclei were laser-capture microdissection from cryosections using a P.A.L.M Microlaser system, and RNA extracting using the miRNeasy micro RNA extraction kit (Qiagen).
Total RNA was amplified using an Ovation RNA-Seq System V2 (NuGEN), after which cDNA libraries were prepared using the Encore Rapid DR Multiplex System (NuGEN).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
laser-captured hypothalamic nucleus (region)
cpm_del.txt
|
| Data processing |
Basecalls performed using CASAVA 1.7
Reads were aligned to the mouse genome (GRCm38) using Tophat v2.0.11
Counts were determined using Cufflinks v2.2.1
Count normalisation was performed using the edgeR and limma packages in R.
Genome_build: GRCm38
Supplementary_files_format_and_content: Counts per Million (CPM) matrix in tab-delimited text
|
| |
|
| Submission date |
Aug 23, 2017 |
| Last update date |
May 15, 2019 |
| 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 |
GPL17021 |
| Series (1) |
| GSE102992 |
Transcriptomic response to 24-hour food deprivation in four hypothalamic nuclei in Snord116 deletion mice |
|
| Relations |
| BioSample |
SAMN07548291 |
| SRA |
SRX3120248 |
