|
| Status |
Public on Nov 28, 2022 |
| Title |
114Plus |
| Sample type |
SRA |
| |
|
| Source name |
progenitor APC Low n6/n3
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57Bl/6
tissue: subcutaneous adipose tissue
cell type: progenitors
pufa ratio: Low n6/n3
|
| Treatment protocol |
Adipocyte precursor cells were isolated by flow cytometry. CD24+ and CD24- ("plus" = progenitors and "minus" = preadipocytes) were sequenced following 10 days of early life high or low n6/n3 exposure.
|
| Growth protocol |
Cross-fostered wildtype pups were exposed postnatally to milk containing either High or Low n6/n3 PUFA ratios during initial 12-days of life
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated using Duet Kit according to Zymogen Research protocol
RNA libraries were prepared for sequencing using standard Illumina protocols
NuGEN universal Plus mRNA SEQ protocol part no. 9133
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
Flow-sorted APCs from subcutaneous adipose tissue
All_genes_progenitors.xlsx
114Plus
|
| Data processing |
BBDuk (version 38.86) trim adapter sequences
salmon (version 0.14.2) quantify trimmed reads at the transcript level
R programming environment (version 4.0.2)
DESeq2 (version 1.28.1)
Genome_build: mm10; Mus_musculus.GRCm38.79
Supplementary_files_format_and_content: excel spreadsheet containing gene level quantification for all genes from all samples
|
| |
|
| Submission date |
Aug 07, 2020 |
| Last update date |
Nov 28, 2022 |
| Contact name |
Michael C. Rudolph |
| E-mail(s) |
Michael-rudolph@ouhsc.edu
|
| Organization name |
OUHSC
|
| Department |
Physiology
|
| Lab |
Rudolph Lab
|
| Street address |
975 NE 10th St. BRC North rm 364
|
| City |
Oklahoma City |
| State/province |
OK |
| ZIP/Postal code |
73104 |
| Country |
USA |
| |
|
| Platform ID |
GPL24247 |
| Series (2) |
| GSE155893 |
Low n6/n3 Ratio Consumption of Neonates Establishes Lipid Oxidative Metabolism in Adipocyte Precursor Cells [Bulk RNA-seq] |
| GSE155895 |
Neonatal Intake of Omega-3 Fatty Acids Enhances Lipid Oxidation in Adipocyte Precursors |
|
| Relations |
| BioSample |
SAMN15762340 |
| SRA |
SRX8910324 |
