AIMC Topic: Transcriptome
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Machine learning-based integration identifies plasma cells-related gene signature ST6GAL1 in idiopathic pulmonary fibrosis.
BMC pulmonary medicine
Jul 2, 2025
BACKGROUND: Idiopathic pulmonary fibrosis (IPF) is a rare, progressive, and fibrotic disease with poor prognosis that lacks treatment options. As a major component of the lung adaptive immune system, plasma cells play a crucial regulatory role during...
Cohesive data analysis for the identification of prognostic hub genes and significant pathways associated with HER2 + and TN breast cancer types.
Scientific reports
Jul 2, 2025
Breast cancer is the most prevalent and lethal form of cancer being the utmost common medical concern of women. Breast cancer etiology implicates numerous cellular protein receptors such as estrogen receptors (ER), progesterone receptors (PR), and hu...
Deep molecular profiling of synovial biopsies in the STRAP trial identifies signatures predictive of treatment response to biologic therapies in rheumatoid arthritis.
Nature communications
Jul 2, 2025
Approximately 40% of patients with rheumatoid arthritis do not respond to individual biologic therapies, while biomarkers predictive of treatment response are lacking. Here we analyse RNA-sequencing (RNA-Seq) of pre-treatment synovial tissue from the...
Prioritizing perturbation-responsive gene patterns using interpretable deep learning.
Nature communications
Jul 2, 2025
Spatially resolved transcriptomics enables mapping of multiplexed gene expression within tissue contexts. While existing methods prioritize spatially variable genes within a single slice, few address identifying genes with differential spatial expres...
Cross modality learning of cell painting and transcriptomics data improves mechanism of action clustering and bioactivity modelling.
Scientific reports
Jul 2, 2025
In drug discovery, different data modalities (chemical structure, cell biology, quantum mechanics, etc.) are abundant, and their integration can help with understanding aspects of chemistry, biology, and their interactions. Within cell biology, cell ...
Unveiling diagnostic biomarkers and therapeutic targets in lung adenocarcinoma using bioinformatics and experimental validation.
Scientific reports
Jul 2, 2025
Lung adenocarcinoma (LUAD) is a major challenge in oncology due to its complex molecular structure and generally poor prognosis. The aim of this study was to find diagnostic markers and therapeutic targets for LUAD by integrating differential gene ex...
Comprehensive machine learning analysis of PANoptosis signatures in multiple myeloma identifies prognostic and immunotherapy biomarkers.
Scientific reports
Jul 2, 2025
PANoptosis is closely associated with tumorigenesis and therapeutic response, yet its role in multiple myeloma (MM) remains unclear. This study analyzed bulk transcriptomic and clinical data from the TCGA and GEO databases to identify seven PANoptosi...
Identification of potential pathogenic genes associated with the comorbidity of rheumatoid arthritis and renal fibrosis using bioinformatics and machine learning.
Scientific reports
Jul 1, 2025
This study aimed to identify the potential pathogenic genes associated with the comorbidity of rheumatoid arthritis (RA) and renal fibrosis (RF). Transcriptomic data related to RA and RF were retrieved from the GEO database. Differential expression g...
Potential role of TNFRSF12A in linking glioblastoma and alzheimer's disease via shared tumour suppressor pathways.
Scientific reports
Jul 1, 2025
Tumor suppressor genes (TSGs) are critical regulators of cellular homeostasis and are extensively studied in cancer biology. However, their roles in neurodegenerative diseases, particularly Alzheimer's disease (AD), remain poorly understood. Recent e...
Shared gene signatures and molecular mechanisms link ankylosing spondylitis and rheumatoid arthritis.
Scientific reports
Jul 1, 2025
Ankylosing spondylitis (AS) and rheumatoid arthritis (RA) are closely related autoimmune diseases with shared mechanisms that remain unclear. This study aims to identify shared molecular signatures and hub genes underlying the co-occurrence of AS and...
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