|
| Status |
Public on Dec 01, 2023 |
| Title |
HEM_5_T0706P4 |
| Sample type |
SRA |
| |
|
| Source name |
liver
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: paracarcinomatous liver tissue
cell type: Patient-derived organoids
disease state: Hyperuricemia (HUA) model
medium: EM
passage: P4
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA Extraction: Trizol method
RNA libraries were prepared for sequencing using standard Illumina protocol
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Construction of Illumina PE library
Initial quality assessment of sequencing reads using FastQC
Quality cutting and statistics of sequencing data
Compare with reference genome using TopHat (http://tophat.cbcb.umd.edu/ )
Gene coverage analysis using RSeQC-2.3.2（http://code.google.com/p/rseqc/）
Genome_build: hg38
Supplementary_files_format_and_content: txt file includes TPM values for each sample and each gene.
|
| |
|
| Submission date |
Nov 19, 2021 |
| Last update date |
Dec 01, 2023 |
| Contact name |
Maojin Yao |
| E-mail(s) |
maojin.yao@aliyun.com
|
| Phone |
8619924786386
|
| Organization name |
Guangzhou Medical University
|
| Department |
Guangzhou Institute of Respiratory Health
|
| Lab |
State Key Laboratory of Respiratory Disease
|
| Street address |
No.195, West Dongfeng Road, Yuexiu District
|
| City |
Guangzhou |
| State/province |
Guangdong |
| ZIP/Postal code |
510180 |
| Country |
China |
| |
|
| Platform ID |
GPL24676 |
| Series (1) |
| GSE189228 |
Establishment of a 3D hyperuricemia model based on cultured human liver organoids |
|
| Relations |
| BioSample |
SAMN23313528 |
| SRA |
SRX13180444 |
