 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on Apr 23, 2024 |
| Title |
s76075 |
| Sample type |
SRA |
| |
|
| Source name |
aorta
|
| Organism |
Mus musculus |
| Characteristics |
tissue: aorta
Sex: female
genotype: Ldlr-/-
diet: Continuous HFD
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from thoracic aorta samples with Qiagen columns (RNeasy MiniSpin Columns) using a polytron (T25 basic, IKA, Labortechnik)
RNA concentrations were obtained using nanodrop or a fluorometric Qubit RNA assay (Life Technologies, Grand Island, New York, USA). The quality of the RNA (RNA integrity number) was determined on the Agilent 2100 Bioanalyzer (Agilent Technologies, Palo Alto, CA, USA) as per the manufacturer’s instructions. RNA sequencing 344 libraries were prepared from 100 ng of total mRNA using the Illumina® Stranded Total RNA 345 Prep
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
Fastq files were aligned using STAR algorithm (version 2.7.6a), on the mm10 Ensembl 346 release 101 reference. Reads were then count using RSEM (v1.3.1).
Assembly: GRCm38
Supplementary files format and content: raw counts per gene, by sample
|
| |
|
| Submission date |
Jan 24, 2024 |
| Last update date |
Apr 23, 2024 |
| Contact name |
Hafid Ait-Oufella |
| E-mail(s) |
hafid.aitoufella@inserm.fr
|
| Phone |
+33612011940
|
| Organization name |
Inserm
|
| Department |
U970
|
| Street address |
56, Rue Leblanc
|
| City |
Paris |
| ZIP/Postal code |
75015 |
| Country |
France |
| |
|
| Platform ID |
GPL19057 |
| Series (1) |
| GSE254105 |
Alternate high fat diet aggravates atherosclerosis through an IL1B- 2 dependent reprogramming of neutrophil progenitors |
|
| Relations |
| BioSample |
SAMN39597346 |
| SRA |
SRX23381789 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM8033421_76075_S18.resultsRSEM.genes.results.gz |
1.1 Mb |
(ftp)(http) |
RESULTS |
SRA Run Selector |
| Raw data are available in SRA |
|
|
|
|
 |
