CXCR4-targeted dual-softener for inducing senescence therapy in hepatic fibrosis
Data files
Aug 03, 2026 version files 2.42 MB
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gene.count.matrix.csv
1.12 MB
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gene.fpkm.matrix.csv
1.31 MB
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README.md
1.25 KB
Abstract
This dataset contains bulk mRNA sequencing data from primary human hepatic stellate cells isolated from residual liver tissues obtained during surgical resection. Cells were cultured in vitro and treated with vehicle or AMD3100/MnO₂@BSA nanoparticles (AMB NPs) to assess treatment-associated transcriptomic changes in activated human hepatic stellate cells. The dataset includes gene expression data for comparing control and drug-treated conditions. The data can be reused to investigate transcriptional programs associated with cGAS-STING signaling, cellular senescence, senescence-associated secretory responses, and fibrosis-related pathways.
Dataset DOI: 10.5061/dryad.rn8pk0psj
Description of the data and file structure
This compressed folder contains the bulk RNA sequencing (RNA-seq) data used in this study.
Two data tables are included:
Files: gene.count.matrix.csv and gene.fpkm.matrix.csv
Each table includes two experimental groups (control and treatment), with three biological replicates per group:
- PBS-1, PBS-2, PBS-3: Control group (PBS-treated samples)
- AMB-1, AMB-2, AMB-3: Treatment group (treated samples)
Human subjects data
Human liver specimens were obtained from excess surgical liver tissues from patients at a university-affiliated hospital. The study protocol was reviewed and approved by the relevant Institutional Review Board. All procedures involving human participants were conducted in accordance with the ethical principles of the Declaration of Helsinki (1975). Before analysis and deposition, all samples were de-identified through removal of direct personal identifiers and assignment of coded study identifiers. The deposited dataset contains no information that directly identifies individual participants.
Primary human hepatic stellate cells were isolated from freshly collected liver tissues using established enzymatic digestion and density-gradient enrichment procedures and cultured under standard conditions. Cells were seeded into culture plates, serum-starved for 24 h, stimulated with recombinant human TGF-β for 24 h, and subsequently treated with vehicle or AMB NPs for another 24 h. Then total RNA was extracted from harvested cells, and mRNA sequencing libraries were prepared using the TruSeq Stranded mRNA Library Prep Kit (Illumina, CA, USA) according to the manufacturer's protocol. Libraries were sequenced on an Illumina platform, followed by gene expression profiling, differential expression analysis, and functional enrichment analysis.