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Chronic kidney disease is rising worldwide, and kidney transplantation remains the preferred modality of kidney replacement therapy. However, long-term graft survival continues to be limited by chronic alloimmune injury, particularly antibody-mediated rejection (ABMR) and its …
Read PDFDynamic transitions of mature osteoblasts between active and quiescent states are essential for bone homeostasis and present a promising target for osteoanabolic therapy. However, these transitions remain poorly understood due to cellular heterogeneity and limited …
Read PDFLipidomics involves the analysis of hundreds or even thousands of lipids within biological systems. Many of these lipids are highly correlated due to similarities in structure or relationships within metabolic pathways. Eigenlipids, as a concept …
Read PDFCardio-oncology has emerged as a critical discipline addressing the cardiovascular sequelae of antineoplastic therapies. While traditional chemotherapy, targeted therapies, and immune checkpoint inhibitors (ICIs) have revolutionized cancer survival, they are frequently accompanied by cardiotoxicity ranging …
Read PDF<b>Background</b>: Colorectal cancer (CRC) progression is associated with tumor metabolic reprogramming and an immunosuppressive tumor microenvironment, yet coordinated metabolic interactions between malignant epithelial and immune cells remain unclear. This study aimed to characterize metabolic crosstalk …
Read PDFThe TITANIA (mulTi omIcs daTa cANcer dIagnostics therApies) study is an international collaboration to generate high-quality multi-omics cancer profiles. We conducted an exploratory investigation within this framework to understand the molecular basis of lymphovascular invasion …
Read PDFTumor development and progression are affected not only by cancer cell-intrinsic factors comprising complex genetic variations, but also by -extrinsic factors such as cell-cell communication (CCC)-mediated immunosuppression. However, whether and how these two types of …
Read PDFBACKGROUND: Hepatocellular carcinoma (HCC) is a highly prevalent and fatal digestive system malignancy, challenging to treat due to its latent onset and non-specific symptoms in advanced stages. Somatic mutations play a crucial role in hepatocarcinogenesis, …
Read PDFSpatial transcriptomics technologies currently face a trade-off between spatial and molecular resolution. High-resolution single-cell methods such as MERFISH and Expansion Sequencing (ExSeq) resolve individual cells but typically profile limited gene panels, restricting the direct application …
Read PDFMoll glands, found in the margin of the eyelid next to the base of the eyelashes, are likely to play an important role in maintaining the tear film and therefore in securing adequate visual function. …
Read PDFMicrobial electrosynthesis (MES) enables a variety of microorganisms, particularly acetogens, to utilize electrical energy in the form of electrons to produce valuable compounds from CO<sub>2</sub>. In the closely related process of gas fermentation, hydrogen gas …
Read PDF<h4>Motivation</h4>A defining characteristic of biological tissue is its cell type composition. Many pathologies and chronic diseases are associated with perturbations from the homeostatic composition, and these transformations can lead to aberrant or deleterious tissue function. …
Read PDFEndometritis in dairy cows is a common reproductive disease that severely affects reproductive performance and milk production, resulting in significant economic losses. Lipopolysaccharide (LPS) as a PAMP capable of inducing inflammatory responses in the endometrium …
Read PDFBRCA1-associated protein 1 (BAP1) is a deubiquitinase, frequently altered in cancers including hepatocellular carcinoma and cholangiocarcinoma. While Bap1 has been shown to play key roles in metabolism, maintenance of tissue homeostasis, and immune cell development, …
Read PDFBACKGROUND: Esophageal squamous cell carcinoma (ESCC) exhibits pronounced tumor microenvironment (TME) heterogeneity, which contributes to tumor invasion, immune evasion, and resistance to therapy. However, the cellular and spatial mechanisms driving this heterogeneity remain incompletely understood. …
Read PDF<h4>Purpose of review</h4>Spatial transcriptomics enables to capture the whole transcriptome within the local microenvironment in bone. Within this review, we provide an overview of recent spatial transcriptomics applications and indicate its potential for advancing basic …
Read PDF<h4>Introduction</h4>Ulcerative colitis (UC) is driven by mucosal inflammation and epithelial injury. Single cell RNA sequencing (scRNA-seq) enables high resolution profiling of immune, stromal and epithelial compartments in UC, whilst spatial transcriptomic (ST) and proteomic (SP) …
Read PDFSpatial transcriptomics alignment is challenged by technical variations, including geometric distortions from tissue preparation and platform-driven differences in resolution and modality. These issues create diverse alignment scenarios, from matched and mismatched resolutions to cross-modality integration, …
Read PDFSpatial transcriptomics (ST) enables the joint characterization of gene expression and spatial information, indicating the need for generalizable computational methods to exploit these data. However, integrating spatial and non-spatial information remains a challenge. In this …
Read PDFWe propose a computational framework for spatial niche analysis (SpaNiche) in spatial transcriptomics data to uncover colocalization patterns and infer potential ligand-receptor interactions. SpaNiche leverages graph-regularized joint non-negative matrix factorization to integrate information from cell …
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