|
| Status |
Public on Jun 20, 2023 |
| Title |
Choroid plexus HFD 3 |
| Sample type |
SRA |
| |
|
| Source name |
Choroid plexus
|
| Organism |
Rattus norvegicus |
| Characteristics |
strain: Wistar
age: 27 weeks
Sex: Female
tissue: Choroid plexus
animals pooled: 1
treatment: High fat diet
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Extraction was performed by Novogene (UK) Company Limited.
Done by Novogene (UK) Company using NEB Next® Ultra™ RNA Library Prep Kit, and sequenced on Illumina NovaSeq 6000, paired-end 150 bp, 12Gb output.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
QC quality control and adapter removal was done by Novogene (UK) Company Limited.
Mapping to reference genome (rattus norvegicus Rnor_6.0.104) using STAR (v. 2.7.2a) (--sjdbOverhang 100 --outSAMtype BAM SortedByCoordinate --outSAMunmapped Within --quantMode TranscriptomeSAM)
Abundance quantified by RSEM (v. 1.3.3) (--bam --paired-end --forward-prob 0)
Assembly: Rnor_6.0 (rn6) v.104
Supplementary files format and content: tab-delimited text files for gene abundance for each samples in TPM and FPKM
|
| |
|
| Submission date |
Jan 24, 2023 |
| Last update date |
Jun 20, 2023 |
| Contact name |
Søren Norge Andreassen |
| E-mail(s) |
snorge@sund.ku.dk
|
| Organization name |
University of Copenhagen
|
| Department |
Department of Neuroscience
|
| Lab |
MacAulay
|
| Street address |
Blegdamsvej 3
|
| City |
Copenhagen |
| State/province |
Region Hovedstaden |
| ZIP/Postal code |
2200 |
| Country |
Denmark |
| |
|
| Platform ID |
GPL25947 |
| Series (1) |
| GSE223582 |
Modelling idiopathic intracranial hypertension in rats: contributions of high fat diet and testosterone to intracranial pressure and cerebrospinal fluid production |
|
| Relations |
| BioSample |
SAMN32886173 |
| SRA |
SRX19147581 |
