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| Status |
Public on May 07, 2024 |
| Title |
KONS_627 |
| Sample type |
SRA |
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| Source name |
abdominal aorta
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| Organism |
Mus musculus |
| Characteristics |
tissue: abdominal aorta
genotype: KONS
treatment: Saline
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| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was harvested using TRIzol® Reagent (invitrogen.). 1 µgof total RNA was used for the construction of sequencing libraries.
RNA libraries for RNA-seq were prepared using Nebnext ultra-RNA library preparation kit following manufacturer's protocols.
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
HiSeq X Ten |
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| Description |
WT mice infused with Saline
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| Data processing |
Utilize the bcl2fastq software to perform Base Calling on the original image files from Illumina high-throughput sequencing and convert them into original sequencing reads.
Use the FastQC software to analyze the base quality from 5' to 3' of the sequencing reads and assess the content of A, T, C, and G bases in the sequencing data, evaluating the base type ratio at each position from an overall level.
Utilize the fastp software to filter the raw data, removing reads that do not meet the analysis criteria, in order to obtain clean reads that can be used for subsequent alignment, statistics, and further analysis.
After quality control of the raw sequencing data, clean data is obtained. The clean data is then assessed to review the effectiveness of the quality control, and ultimately, the clean data is used for analysis.
Read count extraction and normalization were performed using RseQC software
Assembly: mm10
Supplementary files format and content: tab-delimited text file includes raw counts for each Sample
Supplementary files format and content: tab-delimited text files include RPKM values for each Sample
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| Submission date |
Apr 04, 2024 |
| Last update date |
May 07, 2024 |
| Contact name |
Jun Peng |
| E-mail(s) |
pjunlab@hotmail.com
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| Organization name |
Fujian University of Traditional Chinese Medicine
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| Department |
Academy of Integrative Medicine
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| Street address |
1 Qiuyang Road, Minhou Shangjie
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| City |
Fuzhou |
| State/province |
Fujian |
| ZIP/Postal code |
350122 |
| Country |
China |
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| Platform ID |
GPL21273 |
| Series (1) |
| GSE263223 |
DAPK1 acts as a positive regulator of hypertension via induction of vasoconstriction |
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| Relations |
| BioSample |
SAMN40751045 |
| SRA |
SRX24156280 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM8188041_KONS_627.txt.gz |
15.8 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
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