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Reconstructing causality routes from genetic effects to complex phenotypes in particular cell types is crucial for understanding biological mechanisms underlying the brain-associated phenotypes including imaging-derived phenotypes (IDPs), and brain disorders and behaviors (DBs). Here, we …
Read PDFGastrointestinal cancer is one of the most burdensome health threats worldwide, accounting for approximately one-quarter of all cancer incidences. Gastric and colorectal cancers are among the most prevalent and lethal malignancies of the gastrointestinal tract …
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Read PDFLive single-cell metabolomics is a rapidly growing area of research, which offers the potential to provide unique insights into cellular function and heterogeneity. Single-cell isolation approaches based on capillary sampling are in principle compatible with …
Read PDF<b>Purpose:</b> Data stability is a critical factor in Time-of-Flight Secondary Ion Mass Spectrometry (ToF-SIMS) single-cell analysis. However, various factors, such as sample processing, instrument condition, and data acquisition, can introduce uncertainties into ToF-SIMS data. Correcting …
Read PDF<h4>Background</h4>Immune checkpoint inhibitor-associated myocarditis (ICIAM) poses significant challenges for cancer immunotherapy, particularly regarding the safety and efficacy of immune checkpoint blockade (ICB) rechallenge.<h4>Methods</h4>The present study analyzed 23 cases of ICIAM by integrating longitudinal clinical data …
Read PDFColorectal cancer (CRC) progression is strongly shaped by the tumor microenvironment (TME), where complex interactions between epithelial, immune, and stromal cells orchestrate immune suppression and tumor evolution. To dissect these relationships at single-cell resolution, we …
Read PDFFunctional genomics screens in human induced pluripotent stem cells (hiPSCs) remain challenging despite their transformative potential. We developed iPS2-seq: an inducible, clone-aware screening platform that enables phenotype-agnostic, single-cell resolved dissection of loss-of-function effects in hiPSC …
Read PDFFoundation models (FMs) have been built to analyze single-cell data with different degrees of success. Here, we present scELMo (single-cell embedding from language models), a method for analyzing single-cell data with the help of large …
Read PDFAlzheimer's disease (AD) is a common neurodegenerative disorder; however, its molecular complexity remains poorly understood. Single-cell analysis can reveal the molecular changes in AD in different types of brain cells. In this study, we integrated …
Read PDFThe study looked at how solid-state fermentation affects date palm leaves (DPL) and how it influences lamb performance, both with and without single-cell protein. DPL was fermented using three different strains of microbes. Using the …
Read PDFThe integration of single-cell multi-omics data provides a powerful approach for understanding the complex interplay between different molecular modalities, such as RNA expression, chromatin accessibility and protein abundance, measured through assays like scRNA-seq, scATAC-seq and …
Read PDFCellular and molecular characterization of mammals with multi-chambered stomachs is crucial to our understanding of evolution in digestive and metabolic systems. Here, we generate single-cell transcriptomic atlases of 253,448 and 279,057 cells from 54 tissues …
Read PDF<h4>Background</h4>Head and Neck Squamous Cell Carcinomas (HNSCC) are the seventh most prevalent form of cancer and are associated with human papilloma virus infection (HPV-positive) or with tobacco and alcohol use (HPV-negative). HPV-negative HNSCCs have a …
Read PDFThe rapid advancement of multi-omics single-cell technologies has significantly enhanced our ability to investigate complex biological systems at unprecedented resolution. However, many existing analysis tools are complex, requiring substantial coding expertize, which can be a …
Read PDFThe integration of high-throughput single-cell profiling technologies with RNA velocity analysis has enabled the reconstruction of dynamic cellular differentiation trajectories at unprecedented resolution. Despite these advances, current visualization techniques for RNA velocity are predominantly confined …
Read PDFBrain metastasis (BM) remains largely incurable. Cancer-associated fibroblasts (CAFs) can either support or inhibit tumor growth in the tumor microenvironment (TME), yet their role in BM is not well described. In this study we define …
Read PDFThe inflammation-intestinal metaplasia (IM)-carcinoma cascade has been proposed as a framework for gastric cancer (GC) development, yet the cell-level heterogeneity and microenvironmental remodeling underlying this progression remain poorly characterized. Here, we constructed a single-cell transcriptomic …
Read PDFInflammation progressively increases with age, resulting in a broad remodeling of the CD8⁺ T cell compartment. Recent advances in single-cell RNA sequencing (scRNA-seq) have revealed a transcriptional heterogeneity within the CD8⁺ T cell subsets, challenging …
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