|
| Status |
Public on Nov 06, 2017 |
| Title |
M2-Irf3KO_2 |
| Sample type |
SRA |
| |
|
| Source name |
M2-Irf3KO, myocardial infarction tissue
|
| Organism |
Mus musculus |
| Characteristics |
genotype: IRF3-/-
tissue: Myocardial infarction tissue
gender: male
age: ~12 weeks old
|
| Treatment protocol |
Left anterior coronary artery suture ligation (permanent)
|
| Growth protocol |
Male mice ~12 weeks old
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Mechanical homogenization of infarcted heart sample, RNA Extraction per instructions of commercial Qiagen RNA Easy kit
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
[Quality Control] PICARD, Version: 1.100, CollectRnaSeqMetrics
[Alignment] STAR version 2.3.0
[Alignment manipulation] Samtools 0.1.18.0
[Feature Counting] HTSeq version 0.6.0. Parameters: unstranded=TRUE, quality thresh=10, feature file=ftp://ftp.ensembl.org/pub/release-67/gtf/mus_musculus/Mus_musculus.NCBIM37.67.gtf.gz
[Differential Expression] R library edgeR, version 3.8.6
Genome_build: mm9
Supplementary_files_format_and_content: RPKMs
|
| |
|
| Submission date |
Nov 04, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Kevin R King |
| Organization name |
UC San Diego
|
| Department |
Medicine and Bioengineering
|
| Lab |
King Lab
|
| Street address |
9500 Gilman Dr. MC 0412
|
| City |
La Jolla |
| State/province |
CA |
| ZIP/Postal code |
92093 |
| Country |
USA |
| |
|
| Platform ID |
GPL17021 |
| Series (2) |
| GSE106471 |
IRF3 and type I interferons fuel a fatal response to myocardial infarction [bulk RNA-Seq] |
| GSE106473 |
IRF3 and type I interferons fuel a fatal response to myocardial infarction |
|
| Relations |
| BioSample |
SAMN07977642 |
| SRA |
SRX3362806 |
