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<h4>Objective</h4>This study aims to explore the potential molecular mechanisms by which di (2-ethylhexyl) phthalate (DEHP) exposure induces pulmonary arterial hypertension (PAH).<h4>Methods</h4>We conducted differential expression analysis on multiple genomics datasets to pinpoint PAH-associated genes. Subsequently, an …
Read PDF<h4>Background</h4>Chronic kidney disease (CKD) is a serious global health problem with increasing incidence. Ferroptosis plays a crucial role in kidney diseases, but limited studies have elucidated the mechanism and role of ferroptosis in CKD.<h4>Methods</h4>CKD data …
Read PDF<h4>Objective</h4>To systematically review the pleiotropic roles of Cathepsin K (CTSK) beyond classical bone resorption, elucidating its critical function in regulating extracellular matrix (ECM) dynamics and epithelial-mesenchymal transition (EMT) across diverse pathological systems.<h4>Methods</h4>A comprehensive analysis was …
Read PDFPancreatic cancer, one of the most lethal malignancies, is characterized by insidious onset, frequent late-stage diagnosis, rapid progression, and limited surgical opportunities. Pancreatic ductal adenocarcinoma (PDAC), accounting for over 90% of pancreatic cancer cases, remains …
Read PDFBiomedical science has made substantial progress toward diagnosing, understanding the pathogenesis, and treating various causative agents of infectious disease. However, novel microbial pathogens continue to emerge, and existing pathogens continue to evolve alternative strategies to …
Read PDF<h4>Motivation</h4>Verification of sample sex is an essential quality control step in next-generation sequencing studies, typically assessed from genomic data. Clustering individuals by X chromosome heterozygosity (Xhet) and incorporating relatedness estimates offers a practical first-pass screen …
Read PDF<h4>Motivation</h4>Aberrant DNA methylation is a fundamental epigenetic hallmark of cancer. However, existing resources often lack technological diversity and comprehensive cancer coverage. Furthermore, most platforms fail to achieve deep multi-omics integration and tend to ignore cancer-type-specific …
Read PDFWe report the draft genome of multidrug-resistant <i>Salmonella enterica</i> serovar Braenderup strain DE0603, isolated from an urban river in Johannesburg, South Africa. The isolate was identified as sequence type 22 and carries multiple resistance genes, …
Read PDF<h4>Background</h4>Endometriosis (EMs) is a common gynecological disorder associated with impaired fertility and reduced quality of life. This study investigated abnormal spindle-like microcephaly-associated protein (ASPM), identified as a hub gene in EMs pathogenesis, and explored its …
Read PDF<h4>Motivation</h4>Functionally important 'fold-switching' proteins, which do not obey the classical folding dogma, are now thought to be widespread. Algorithms that can accurately annotate fold-switching proteins from sequence information can help uncover the true extent of …
Read PDFTriatomine bugs are blood feeding insects that transmit the parasite Trypanosoma cruzi, causative agent of Chagas disease. The bugs are found primarily in the Americas with a few species in Asia and Africa. Here, we …
Read PDF<h4>Motivation</h4>Antibodies, as pivotal effector molecules of the immune system, neutralize pathogens through specific binding to antigens mediated by complementarity-determining regions (CDRs), highlighting the critical importance of precise antibody design in diagnostics and therapeutics. Despite significant …
Read PDF<h4>Objective</h4>Schizophrenia lacks objective biomarkers, and its complex aetiology demands epigenetic insight. Given the regulatory roles of long non-coding RNAs (lncRNAs) in the nervous system and brain-relevant signals in peripheral exosomes, we evaluated lncRNA expression in …
Read PDFWastewater-based genomic surveillance (WWGS) has proven effective for monitoring SARS-CoV-2 and other viruses within communities. It enables rapid detection of known and emerging mutations and provides insights into circulating lineages. Despite its advantages, WWGS faces …
Read PDF<h4>Summary</h4>Sketchbook is a tool for design and analysis of <i>Boolean network sketches</i>, a framework for partial specification of Boolean network models combining static and dynamic logical constraints. The tool combines an intuitive graphical interface with …
Read PDFBACKGROUND: In recent years, Piwi-interacting RNAs (piRNAs) have been found to be involved in different biological roles beyond their initially identified role in protecting the germline genome. However, there is a lack of robust computational …
Read PDF<h4>Summary</h4>Whereas transcriptomic and spatial profiling offer static snapshots of tissue structure, mechanistic models use biological rules to predict how tissues evolve. We present the BioInformatics WalkThrough (BIWT) software to directly initialize spatial agent-based models from …
Read PDFBACKGROUND: Carotid atherosclerosis is a kind of systemic atherosclerosis in the carotid arteries. It remains one of the leading causes of ischemic stroke. However, the efficiency of treatment is insufficient. Thus, it is urgent to …
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