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Polymorphonuclear neutrophils (PMNs) are innate cells that may act as myeloid-derived suppressor cells (MDSCs), most often characterized by their immunosuppressive capacity towards immune cells within the tumor microenvironment. Over the last decade, many studies have …
Read PDFA comprehensive understanding of age-related changes in the human immune system is critical for deciphering the mechanisms of immunosenescence. Although transcriptomic studies have described immune alterations during aging, investigations into the proteomic layer and integrated …
Read PDF<h4>Rationale</h4>Cardiac fibrosis formation leads to cardiac dysfunction that is mainly caused by a high fat diet accompanied by an increased accumulation of apoptotic cells. MER proto-oncogene tyrosine kinase (MerTK) is a major receptor for efferocytosis, …
Read PDFMicroproteins (i.e., peptides) are increasingly recognized for their functions in versatile biological contexts, but their clinical relevance and utility remain largely unexplored. Proteogenomic approaches can accelerate microprotein discovery in clinical samples by integrating proteomic data …
Read PDF<h4>Introduction</h4>Alzheimer's disease (AD) is a heterogeneous disease with diverse disease progression trajectories and brain pathology. Identifying AD subtypes is essential for understanding AD etiology, heterogeneity, and developing precise treatment.<h4>Methods</h4>We applied a subspace-merging algorithm to integrate …
Read PDFThe richness of our somatosensory experience is reflected in the functional diversity of somatic sensory neurons. Single-cell RNA sequencing of sensory neurons has revealed a molecular basis for such diversity<sup>1-3</sup>. However, sensory neuron diversity has …
Read PDFPersistent infection with high-risk human papillomavirus (HR-HPV) is the primary cause of cervical cancer. Co-infection with HIV-1 increases the risk of cervical cancer progression 6-fold, despite adherence to antiretroviral therapy (ART). While chronic HIV-1 infection …
Read PDFAntisense oligonucleotides (ASOs) are promising therapeutics, but safety concerns such as liver toxicity and off-target (OffT) effects necessitate thorough evaluation during the compound selection process. This study leverages time course global proteomics and transcriptomics to …
Read PDFSpatial proteomics has become one of the mainstays of spatial biology at an impressive speed. It enables the in-depth study of protein abundance, localization, and microenvironmental context at the levels of tissues, cells, and subcellular …
Read PDFChronic infection with <i>Pseudomonas aeruginosa</i> is a major driver of airway inflammation, which plays a central role in the progression of cystic fibrosis (CF) lung disease. During long-term colonization, <i>P. aeruginosa</i> adapts to the CF …
Read PDFAdipogenesis from mouse embryonic stem cells (mESCs) offers a tractable model for dissecting early adipocyte commitment, yet the mechanisms coordinating this transition across multiple biological layers remain incompletely understood. Here we present the first simultaneous …
Read PDFBottom-up and native top-down proteomics provide complementary but traditionally disconnected views of protein composition and structure. Integrating these approaches into a single, streamlined workflow has remained challenging due to incompatible sample preparation and analytical requirements. …
Read PDFProteomics represents a fundamental layer for understanding the molecular complexity of solid tumors by quantifying protein abundance and capturing proteoforms and post-translational modifications undetected in genomics or transcriptomics analyses. As mass spectrometry-based technologies and public …
Read PDFAlternative splicing affects 95% of multi-exon genes, generating protein isoforms with distinct functions. While current alternative splicing analyses effectively identify splice events at the RNA level, they provide limited protein-level insight. To address this gap, …
Read PDFSingle-cell proteomics (SCP) is an exciting new field of study with developments in the areas of sample preparation, instrumentation and informatics. SCP has captured the imagination of biologists and clinicians and the critical interest of …
Read PDFPolyomaviruses (PyV) are ubiquitous pathogens that can cause devastating human diseases. Due to the small size of their genomes, PyV utilize complex patterns of RNA splicing to maximize their coding capacity. Despite the importance of …
Read PDFAlternative splicing (AS) is an important mechanism in the development of many cancers, as novel or aberrant AS patterns play an important role as an independent onco-driver. In addition, cancer-specific AS is potentially an effective …
Read PDFTranscriptomic diversity greatly contributes to the fundamentals of disease, lineage-specific biology, and environmental adaptation. However, much of the actual isoform repertoire contributing to shaping primate evolution remains unknown. Here, we combined deep long- and short-read …
Read PDF<h4>Background</h4>Posttranscriptional processing of precursor mRNAs contributes to transcriptome and protein diversity and gene regulatory mechanisms in eukaryotes. However, this posttranscriptional mechanism has not been studied in the marine macroalgae Gracilariopsis lemaneiformis, which is the most …
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