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| Status |
Public on Sep 12, 2018 |
| Title |
KXH |
| Sample type |
SRA |
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| Source name |
myocardium
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| Organism |
Rattus norvegicus |
| Characteristics |
disease state: spontaneously hypertensive rats
agent: KXH
time: administration for 12 weeks
tissue: myocardium
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| Extracted molecule |
total RNA |
| Extraction protocol |
Myocardium were removed, flash frozen on dry ice, 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
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
HiSeq X Ten |
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| Data processing |
Illumina Casava1.7 software used for basecalling.
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to rat whole genome using bowtie v0.12.2 with parameters -q -p 4 -e 100 -y -a -m 10 --best --strata
Reads Per Kilobase of exon per Megabase of library size (RPKM) were calculated using a protocol from Chepelev et al., Nucleic Acids Research, 2009. In short, exons from all isoforms of a gene were merged to create one meta-transcript. The number of reads falling in the exons of this meta-transcript were counted and normalized by the size of the meta-transcript and by the size of the library.
Genome_build: rn6
Supplementary_files_format_and_content: tab-delimited text files include RPKM values for each Sample
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| Submission date |
Sep 11, 2018 |
| Last update date |
Sep 12, 2018 |
| Contact name |
Kai Chen |
| E-mail(s) |
344405885@qq.com
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| Organization name |
TCM
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| Street address |
1838
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| City |
guangzhou |
| ZIP/Postal code |
510000 |
| Country |
China |
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| Platform ID |
GPL24688 |
| Series (1) |
| GSE119795 |
Jiangya Kangxian Formula attenuates Cardiac Remodeling induced by Hypertension in Spontaneous Hypertensive Rat through modulating Mitochondrial Dysfunction |
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| Relations |
| BioSample |
SAMN10033129 |
| SRA |
SRX4670282 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM3383931_KXH.lncRNA.rpkm.txt.gz |
479.7 Kb |
(ftp)(http) |
TXT |
| GSM3383931_KXH.mRNA.rpkm.txt.gz |
251.0 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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