|
| Status |
Public on Mar 21, 2016 |
| Title |
MI rep1 |
| Sample type |
SRA |
| |
|
| Source name |
myocardial ischemia_myocardium
|
| Organism |
Rattus norvegicus |
| Characteristics |
strain: Sprague Dawley
mouse weight: 250-280g
gender: male
sample group: myocardial ischemia (MI)
tissue: heart; myocardium
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Hearts were removed, flash frozen on liquid nitrogen, and RNA was harvested using Trizol reagent. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries.
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
Sample 1
|
| Data processing |
Illumina Casava1.8.2 software used for basecalling.
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to UCSC RN4 whole genome using tophat v2.0.6
Differential gene and transcript expression analysis using a protocol from Cole Trapnell et al., nature protocols, 2012.
Genome_build: Rattus_norvegicus_UCSC_rn4
Supplementary_files_format_and_content: tab-delimited text files include FPKM values for each Sample .
|
| |
|
| Submission date |
Jan 16, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Bing-Mei Zhu |
| E-mail(s) |
zhubm64@hotmail.com
|
| Phone |
+86-025-85811235
|
| Organization name |
Nanjing university of Chinese Medicine
|
| Street address |
138 Xianlin Avenue
|
| City |
Nanjing |
| State/province |
Jiangsu |
| ZIP/Postal code |
210023 |
| Country |
China |
| |
|
| Platform ID |
GPL14844 |
| Series (1) |
| GSE54132 |
Genome-wide profiling of gene expression under electro-acupuncture treatment on MI heart in rats |
|
| Relations |
| BioSample |
SAMN02585237 |
| SRA |
SRX434332 |
