|
| Status |
Public on Dec 31, 2017 |
| Title |
Gfp-2 |
| Sample type |
SRA |
| |
|
| Source name |
Mediobasal hypothalamus
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57/BL6
genotype: Snord116tm1Uta/J
Sex: Male
treatment: AAV-GFP
weight phenotype: Control
|
| Treatment protocol |
Male mice with a floxed Snord116 deletion (B6(Cg)-Snord116tm1Uta/J - JAX stock no 008118) were stereotaxically injected with AAV-Cre or AAV-GFP in the mediobasal hypothalamus and brains were fresh frozen at 10 weeks post injection.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Hypothalamic regions were laser-capture microdissected from cryosections using a P.A.L.M Microlaser system, and RNA extracting using the miRNeasy micro RNA extraction kit (Qiagen).
Amplification and cDNA library prepartion was performed using the Pico Input Mammalian SMARTer Stranded RNA-Seq kit (Takara Bio).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Description |
laser-captured hypothalamic region
SLX-12913.D703_D503
|
| 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 htseq-count
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 |
Oct 26, 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 |
GPL21103 |
| Series (1) |
| GSE106210 |
Transcriptomic response to adult hypothalamic deletion of Snord116 |
|
| Relations |
| BioSample |
SAMN07837604 |
| SRA |
SRX3330441 |
