|
| Status |
Public on Apr 24, 2024 |
| Title |
PH2 |
| Sample type |
SRA |
| |
|
| Source name |
Spleen
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: Spleen
cell line: CD11b+cells
cell type: macrophage
treatment: Portal hypertension combined with hypersplenism (PHcH)
|
| Growth protocol |
Spleen macrophages are sorted by CD11b+magnetic beads
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was harvested using Rneasy mini plus kit(Qiagen). 2ug of total RNA was used for the construction of sequnencing libraries
RNA libraries for RNA-seq were prepared using SMARTER mRNA-Seq Library Prep Kit following manufacturer's protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 3000 |
| |
|
| Description |
Portal hypertension combined with hypersplenism (PHcH)
|
| Data processing |
CLC Genomics Workbench v 11.0.1
Sequence reads were trimmed for adaptor sequencelow-quality sequence using CLC genomic benchvork(parameter-Quality limit 0.05)
Trimmed sequence reads were mapped to GrCM38/mm10 using CLC genomic benchwork(parameters-mismath cost 2insertion cost 3 deletion cost 3length fraction: 0.8 similarity fraction. 0.8)
Read count extraction and normalization were performed using CLC genomic benchwork
Assembly: nm10
Supplementary files format and content: tab-delinited text fle includes rav counts for each Sample
Supplementary files format and content: 'tab-delimited text fles include RPKM values foreach Sample
|
| |
|
| Submission date |
Apr 19, 2024 |
| Last update date |
Apr 24, 2024 |
| Contact name |
wang gui hu |
| E-mail(s) |
wangguihu3@126.com
|
| Phone |
18700405140
|
| Organization name |
Xi'an Jiaotong University
|
| Department |
The Second Affiliated Hospital
|
| Lab |
National and Local Joint Engineering Research Center of Biodiagnostics and Biotherapy
|
| Street address |
No.157#, The West 5th Road
|
| City |
Xi’an |
| ZIP/Postal code |
710004 |
| Country |
China |
| |
|
| Platform ID |
GPL21290 |
| Series (1) |
| GSE264420 |
Activation of MEK‐ERK‐c‐MYC signaling pathway promotes splenic M2 macrophage polarization to inhibit PHcH-liver cirrhosis |
|
| Relations |
| BioSample |
SAMN41020234 |
| SRA |
SRX24313066 |
