Smad1/5 is acetylated in the dorsal aortae of the mouse embryo driving early arterial gene expression

Academic Background During embryonic development, arteriovenous differentiation (AV differentiation) is a critical step in ensuring proper blood vessel formation and maturation. Defects in arterial or venous identity can lead to inappropriate fusion of vessels, resulting in so-called arteriovenous malformations (AVMs). Currently, the mechanism behi...

Circulating Dimethylguanidino Valeric Acid, Dietary Factors, and Risk of Coronary Heart Disease

Background Coronary Heart Disease (CHD) is one of the leading causes of death globally, with a complex pathogenesis involving multiple metabolic and dietary factors. In recent years, the development of metabolomics has provided new perspectives for studying CHD, particularly through the analysis of blood metabolites to uncover potential disease ris...

RNA Binding Protein with Multiple Splicing (RBPMS) Promotes Contractile Phenotype Splicing in Human Embryonic Stem Cell-Derived Vascular Smooth Muscle Cells

The Critical Role of RNA-Binding Protein RBPMS in Vascular Smooth Muscle Cells Academic Background Vascular Smooth Muscle Cells (VSMCs) are the primary structural components of large arteries. In healthy blood vessels, VSMCs exhibit a mature contractile phenotype, responsible for regulating vascular tone and blood flow. However, VSMCs possess pheno...

EPICPred: Predicting Phenotypes Driven by Epitope-Binding TCRs Using Attention-Based Multiple Instance Learning

T-cell receptors (TCRs) play a crucial role in the adaptive immune system by recognizing pathogens through binding to specific antigen epitopes. Understanding the interactions between TCRs and epitopes is essential for uncovering the biological mechanisms of immune responses and developing T cell-mediated immunotherapies. However, although the impo...

SCICONE: Single-Cell Copy Number Calling and Event History Reconstruction

During tumor development, copy number alterations (CNAs) are key drivers of tumor heterogeneity and evolution. Understanding these variations is crucial for developing personalized cancer diagnostics and therapies. Single-cell sequencing technology offers the highest resolution for copy number analysis, down to the individual cell level. However, l...

ImmunoTar—Integrative Prioritization of Cell Surface Targets for Cancer Immunotherapy

Cancer remains one of the leading causes of death globally. Despite significant advancements in immunotherapy in recent years, such as the successful application of chimeric antigen receptor T-cell (CAR-T) therapy and antibody-drug conjugates (ADCs), the effective identification of cancer-specific surface protein targets remains a major challenge i...

Trajectory Alignment of Gene Expression Dynamics

The advent of single-cell RNA sequencing (scRNA-seq) technology has provided unprecedented resolution for studying gene expression dynamics during cell development and differentiation. However, due to the complexity of biological processes, cell developmental trajectories under different conditions are often asymmetric, posing challenges for data i...

Contrastive Mapping Learning for Spatial Reconstruction of Single-Cell RNA Sequencing Data

Single-cell RNA sequencing (scRNA-seq) technology enables high-throughput transcriptomic profiling at single-cell resolution, significantly advancing research in cell biology. However, a notable limitation of scRNA-seq is that it requires tissue dissociation, resulting in the loss of the original spatial location information of cells within tissues...

APNet: An Explainable Sparse Deep Learning Model to Discover Differentially Active Drivers of Severe COVID-19

Academic Background The COVID-19 pandemic has had a significant impact on global public health systems. Although the pandemic has somewhat subsided, its complex immunopathological mechanisms, long-term sequelae (such as “long COVID”), and the potential for similar threats in the future continue to drive in-depth research. Severe COVID-19 cases are ...

Synergistic Combination of Perphenazine and Temozolomide Suppresses Patient-Derived Glioblastoma Tumorspheres

Academic Background Glioblastoma (GBM) is a highly malignant primary brain tumor. Despite current standard treatments such as surgical resection, radiotherapy, and chemotherapy, the prognosis remains extremely poor, with a median survival of only 14.6 months. Traditional treatments often fail to completely eradicate the tumor and are prone to recur...