|
| Status |
Public on Oct 30, 2023 |
| Title |
LSD1CKO-1 heart ventricles from E12.5 |
| Sample type |
SRA |
| |
|
| Source name |
heart ventricles
|
| Organism |
Mus musculus |
| Characteristics |
tissue: heart ventricles
genotype: LSD1-KO
age: E12.5
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from heart ventricles using TRIzol reagent (Sigma)
Sequencing libraries were generated using NEBNext Ultra RNA Library Prep Kit for Illumina (NEB, USA, Catalog #: E7530L)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
KO-1
|
| Data processing |
The image data measured by the high-throughput sequencer are converted into sequence data (reads) by CASAVA base recognition
Raw data (raw reads) of fastq format were firstly processed through fastp software.
Index of the reference genome was built using Hisat2 (v2.0.5) and paired-end clean reads were aligned to the reference genome using Hisat2 (v2.0.5).
featureCounts (v1.5.0-p3) was used to count the reads numbers mapped to each gene
Assembly: mm10
Supplementary files format and content: txt files of FPKM value for each sample
|
| |
|
| Submission date |
Sep 30, 2023 |
| Last update date |
Oct 30, 2023 |
| Contact name |
Luo Yuru |
| E-mail(s) |
[email protected]
|
| Organization name |
Xi'an Jiaotong University
|
| Department |
Health Science Center
|
| Street address |
28 Xianning West Road
|
| City |
Xi'an |
| State/province |
Shannxi |
| ZIP/Postal code |
710049 |
| Country |
China |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE244414 |
Epigenetic repression of Cend1 by LSD1 is essential for murine heart development |
|
| Relations |
| BioSample |
SAMN37628106 |
| SRA |
SRX21953837 |
