|
| Status |
Public on May 01, 2024 |
| Title |
Placental labyrinth zone HFHS_F_4073_04 |
| Sample type |
SRA |
| |
|
| Source name |
Placental labyrinth zone
|
| Organism |
Mus musculus |
| Characteristics |
tissue: Placental labyrinth zone
Sex: Female
treatment: High fat high sugar diet
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using the RNeasy Plus Mini Kit (Qiagen, UK) according to manufacturer’s protocol.
RNA-seq libraries were prepared from 500ng of RNA using TruSeq stranded total RNA library preparation kit (Illumina) and barcoded libraries were combined and submitted for sequencing (paired-end 50 cycles on a HiSeq6000) by the Wellcome Trust-MRC institute of Metabolic Science Genomics Core Facility.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
Sample 15
|
| Data processing |
STAR 2.5.0a was used to aligned the sequencing reads to the Mouse genome, and to perform gene-level counts using Ensembl gene model Version 100
Assembly: GRCm38
Supplementary files format and content: raw_counts.tsv
Supplementary files format and content: tab-delimited text with gene-level count
|
| |
|
| Submission date |
Mar 20, 2024 |
| Last update date |
May 01, 2024 |
| 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 |
GPL24247 |
| Series (1) |
| GSE262011 |
Obesogenic diet in mice leads to inflammation and oxidative stress in the mother in association with sex-specific changes in fetal development, inflammatory markers and placental transcriptome |
|
| Relations |
| BioSample |
SAMN40554688 |
| SRA |
SRX24002217 |
