biostudies-arrayexpressMetabolomicsUnknownTranscriptomicsGenomicsProteomicsYinuo MaNAIllumina NovaSeq 6000RNA-seq of total RNAMus musculusMus musculushttps://www.ebi.ac.uk/biostudies/studies/E-MTAB-16488This study aimed to investigate the transcriptional effects of asperuloside (ASP) on inflammatory chondrocytes and its potential mechanisms in osteoarthritis (OA). ATDC5 cells were stimulated with TNF-α and IL-1β to mimic the inflammatory environment of OA, followed by treatment with either asperuloside (ASP) or PBS as a vehicle control. An untreated group served as a baseline control. Total RNA was extracted and subjected to RNA-seq to identify differentially expressed genes and pathways involved in inflammation, extracellular matrix metabolism, and cartilage homeostasis. The results provide transcriptomic insights into the anti-inflammatory and chondroprotective effects of asperuloside.biostudies-arrayexpressLibrary Construction - RNA-seq libraries were prepared from 1 µg of total RNA using the Illumina TruSeq Stranded mRNA Library Prep Kit (Illumina, USA) following the manufacturer’s protocol. After adapter ligation and PCR amplification, libraries were quantified and validated using a Qubit fluorometer and Agilent Bioanalyzer.Nucleic Acid Extraction - Total RNA was extracted from ATDC5 cells using TRIzol reagent (Invitrogen) according to the manufacturer’s instructions. RNA concentration and purity were assessed using a NanoDrop spectrophotometer, and RNA integrity was confirmed with an Agilent 2100 Bioanalyzer (RIN ≥ 8.0).Sample Collection - ATDC5 cells were cultured under standard conditions (37°C, 5% CO₂) in DMEM/F12 medium supplemented with 5% FBS and antibiotics. Cells were divided into three groups: untreated control, TNF-α/IL-1β–stimulated group (OA model), and TNF-α/IL-1β–stimulated group treated with asperuloside (ASP). After 24 hours of treatment, cells were harvested for RNA extraction.Sequencing - Sequencing was performed on an Illumina NovaSeq 6000 platform using paired-end 150 bp reads (PE150). Raw reads were subjected to quality control, including adapter trimming and low-quality base removal, before downstream analysis.OrganizationMINSEQE ScoreAssays and DataMAGE-TAB FilesYinuo MafalseRNA-seq of ATDC5 chondrocytes treated with asperuloside under TNF-α and IL-1β stimulation compared with PBS-treated and untreated controlsThis study aimed to investigate the transcriptional effects of asperuloside (ASP) on inflammatory chondrocytes and its potential mechanisms in osteoarthritis (OA). ATDC5 cells were stimulated with TNF-α and IL-1β to mimic the inflammatory environment of OA, followed by treatment with either asperuloside (ASP) or PBS as a vehicle control. An untreated group served as a baseline control. Total RNA was extracted and subjected to RNA-seq to identify differentially expressed genes and pathways involved in inflammation, extracellular matrix metabolism, and cartilage homeostasis. The results provide transcriptomic insights into the anti-inflammatory and chondroprotective effects of asperuloside.2026-07-01T00:00:00Z2026-07-01T01:04:19.702Z2026-01-02T14:52:38.201ZE-MTAB-16488ERP187206EFO_0002944EFO_0004170EFO_0009653EFO_0005518EFO_0004184