AIMC Topic: Transcriptome

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Comprehensive integration of single-cell and bulk transcriptome to reveal plasma cell heterogeneity and a prognosis signature in head and neck squamous cell carcinoma.

Oral oncology
Head and neck squamous cell carcinoma (HNSCC) is a prevalent malignancy with a low five-year survival rate, emphasising the urgent need for effective prognostic biomarkers to guide patient stratification and personalised treatment. Plasma cells (PCs)...

Recent developments in omics studies and artificial intelligence in depression and suicide.

Translational psychiatry
Major depressive disorder (MDD) is the most prevalent and severe form of mental illness and is significantly linked to suicide. At present, addressing the treatment and prevention of depression and suicide poses significant challenges, largely due to...

Multi-omics insights of immune cells in the risk and prognosis of idiopathic membranous nephropathy.

Communications biology
Idiopathic membranous nephropathy (IMN) is the major cause of autoimmune-related nephrotic syndrome. The role immune cells play in the risk and prognosis of IMN remains elusive. We employ multi-omics data and a variety of approaches to evaluate the c...

Comprehensive multi-omics analysis reveals the core role of glycerophospholipid metabolism in the influence of short-chain fatty acids on the development of sepsis.

Scientific reports
Sepsis is a systemic inflammatory response syndrome caused by infection, which has a high morbidity and mortality. Short-chain fatty acids (SCFAs) have been proved to improve the outcome of sepsis by regulating immunity and metabolism, but its specif...

Identification and validation of hub genes related to neutrophil extracellular traps-mediated cell damage and immune recruitment during abdominal aortic aneurysm.

Scientific reports
Previous research has shown that the formation of Neutrophil Extracellular Traps (NETs), mediated by neutrophils, leads to an increase in inflammatory cell response and cellular tissue damage during Abdominal Aortic Aneurysm (AAA). Building on this f...

Machine learning models highlight environmental and genetic factors associated with the Arabidopsis circadian clock.

Nature communications
The circadian clock of plants contributes to their survival and fitness. However, understanding clock function at the transcriptome level and its response to the environment requires assaying across high resolution time-course experiments. Generating...

Integrative transcriptomic analysis reveals oligodendrocyte lineage switching in multiple sclerosis.

Life science alliance
Multiple sclerosis (MS) is a chronic disease of the central nervous system. The occurrence of MS is a phased process while its cause is still unclear. Here, by combining white matter single-nucleus transcriptomic datasets from MS and control samples,...

Prediction of the risk of transplant rejection based on RNA sequencing data of PBMCs before transplantation.

Scientific reports
Novel methods for detecting transplant rejection are craved, since conventional methods can detect ongoing rejection that may sometimes have already caused irreversible damage in transplanted organs. Here, we applied a transcriptomics database of rec...

Combining mucosal microbiome and host multi-omics data shows prognostic potential in paediatric ulcerative colitis.

Nature communications
Current first-line treatments of paediatric ulcerative colitis (UC) maintain a 6-month remission in only half of the patients. Relapse prediction at diagnosis could enable earlier introduction of immunosuppressants. We collected intestinal biopsies f...

Integrated transcriptomic and functional modeling reveals AKT and mTOR synergy in colorectal cancer.

Scientific reports
Colorectal cancer (CRC) treatment remains challenging due to genetic heterogeneity and resistance mechanisms. To address this, we developed a drug discovery pipeline using patient-derived primary CRC cultures with diverse genomic profiles. These cult...