Biology subjects

Yan, X.

Publications and source records attributed to Yan, X..

At least 91 records · Page 5Linked to original sources

bioRxiv2025

DANSE: a pipeline for dynamic modelling of time-series multi-omics data

BackgroundUnderstanding time-dependent intracellular processes, such as cell differentiation, is key to developing new therapies for a wide range of diseases. Models that connect transcription factor activity to dynamic expression patterns are rare, despite the increased availability of time-series data. ResultsTo identify key regulators of time-dependent biological processes, we present the pipeline DANSE: Dynamics inference Algorithm on Networks Specified by Enhancers. Starting from multi-omics data, our pipeline constructs a data-driven mechanistic transcription factor (TF) network and subsequently defines a dynamic model based on this TF network. The combination of a TF network and a mechanistic model allows for the identification of a small set of key transcription factors predicted to drive the modelled biological process. We showcase the result of our pipeline by applying DANSE to two different datasets that describe iPSC differentiation. ConclusionsModels constructed using DANSE suggest testable hypotheses for the perturbation of gene expression, for example, knockdown or overexpression, that influence cell fate. In this way, DANSE is a powerful tool for generating novel hypotheses in a data-driven manner that take into account the dynamic nature of multi-omics time series data.

systems biology↗

bioRxiv2025

Accurate Prediction of ecDNA in Interphase Cancer Cells using Deep Neural Networks

Oncogene amplification is a key driver of cancer pathogenesis and is often mediated by extrachromosomal DNA (ecDNA). EcDNA amplifications are associated with increased pathogenicity of cancer and poorer outcomes for patients. EcDNA can be detected accurately using fluorescence in situ hybridization (FISH) when cells are arrested in metaphase. However, the majority of cancer cells are non-mitotic and must be analyzed in interphase, where it is difficult to discern extrachromosomal amplifications from chromosomal amplifications. Thus, there is a need for methods that accurately predict oncogene amplification status from interphase cells. Here, we present interSeg, a deep learning-based tool to cytogenetically determine the amplification status as EC-amp, HSR-amp, or not amplified from interphase FISH images. We trained and validated interSeg on 652 images (40,446 nuclei). Tests on 215 cultured cell and tissue model images (9,733 nuclei) showed 89% and 97% accuracy at the nuclear and sample levels, respectively. The neuroblastoma patient tissue hold-out set (67 samples and 1,937 nuclei) also revealed 97% accuracy at the sample level in detecting the presence of focal amplification. In experimentally and computationally mixed images, interSeg accurately predicted the level of heterogeneity. The results showcase interSeg as an important method for analyzing oncogene amplifications.

cancer biology↗

bioRxiv2025

Tryptophanol, a novel auxin analog found in marine diatoms, enhances nitrogen assimilation

Diatoms exhibit superior competitive capacity in nitrogen assimilation, largely contributing to their growth, although the mechanisms underpinning their success have not been completely understood. Here, a non-ribosomal peptide synthase-like (PtNRPS1, with an unusual domain structure A-T-R1-R2) gene was found to play a vital role in short-term nitrogen assimilation in the marine diatom Phaeodactylum tricornutum. In vitro biochemical assays and in vivo overexpression confirmed that PtNRPS1 catalyzed two sequential two-electron reductions of L-tryptophan to tryptophanol. Tryptophanol exhibits high structural and functional similarities to indole-3-acetic acid (IAA), the most typical phytohormone auxin. Surprisingly, the effective concentration of tryptophanol was lower than that of IAA by as much as 2-5 orders of magnitude for P. tricornutum. Compared with the action of IAA, a distinct molecular mode for tryptophanol was revealed by transcriptomic analysis, resulting mainly in enhanced short-term nitrogen assimilation, which was also confirmed by the elevated nitrogen uptake rates determined by stable-isotope tracking. Finally, global distribution of PtNRPS1 homologues from stramenopiles was found to be positively correlated with the abundance of genes involved in nitrogen assimilation pathways. Overall, our study provides evidence of an auxin-like derivative synthesized by an NRPS in a diatom. We speculate that tryptophanol may accelerate nitrogen assimilation, conferring advantages in the competition for nitrogen in the ocean.

plant biology↗

bioRxiv2025

Hierarchical microstructural tissue growth of the gray and white matter of human visual cortex during the first year of life

Development of gray and white matter tissue microstructure is critical for the emergence of sensory and cognitive functions. However, it is unknown how microstructural tissue properties of the human visual system develop in the first year of human life. Here, we use tissue relaxation rate (R1) obtained using quantitative MRI to measure the longitudinal development of gray and white matter in brain areas spanning three visual processing streams: dorsal, lateral, and ventral, during the first year of life. R1 in gray and white matter of all visual regions in the three processing streams increases postnatally, indicating microstructural tissue growth. R1 increases faster between 0-6 months than 6-12 months, and faster in white matter than gray matter, with white matter R1 surpassing that of gray matter after two months of age. Strikingly, this microstructural growth is hierarchical: across all streams, early visual areas are more mature at birth than higher-level areas but develop more slowly postnatally than higher-level areas. The exception is TO1 (MT) which is similar to V1: it is microstructurally more mature at birth and develops slower than neighboring areas. Overall, our findings provide the first comprehensive measurement of microstructural tissue growth in infancy across three visual processing streams and propose a new hypothesis that functional development of the visual cortex may be coupled with microstructural development and follows a similar hierarchical trajectory.

neuroscience↗

bioRxiv2025

Efficient Cell Factory Design by Combining Meta-Heuristic Algorithm with Enzyme Constrained Metabolic Models

The rational design of high-performance microbial cell factories remains a central challenge in sustainable biomanufacturing due to the complexity of metabolic networks and the difficulty of predicting synergistic genetic interventions. Despite recent advances in strain design algorithms, predicting combinatorial targets remains computationally prohibitive due to the combinatorial explosion. Here, we present MetaStrain, a unified computational framework that integrates enzyme-constrained models (ecModels) with meta-heuristic algorithms to identify non-intuitive combinatorial gene targets for improving product yields. MetaStrain first performs pre-screening through a modified enforced objective flux scanning algorithm to reduce the dimensionality of candidate genes and annotate editing strategies. The subsequent search module employs flexible individual encodings compatible with diverse meta-heuristic algorithms and adopts a bottom-up phenotype evaluation strategy enabling efficient exploration of the combinatorial design space. Integrated redundancy analysis tools further identify single and fixed-size combinatorial strategies, facilitating direct experimental implementation. Computational simulation in Saccharomyces cerevisiae reveals significant enhancements in 2-phenylethanol and spermidine biosynthesis, while controlling target count and covering experimentally validated targets. Experimental validation in Escherichia coli further confirmed the algorithms predictive power, achieving up to a 61.25% increase in L-tryptophan titer of the five-target combination strain. Overall, MetaStrain achieves high computational efficiency, stable convergence, and broad adaptability across diverse metabolic targets. This study provides a powerful tool for metabolic engineering, bridging computational prediction and experimental realization, and highlighting the potential of meta-heuristic optimization in synthetic biology.

bioinformatics↗

bioRxiv2025

Proximal Pulmonary Artery Stiffening as a Biomarker of Cardiopulmonary Aging

The geroscience hypothesis suggests that understanding underlying ageing mechanisms will enable us to delay aging and lessen age-related disability and diseases. While hallmarks of ageing list multiple contributing factors, role of mechanics has only been recently recognized and increasingly appreciated. Here, we use mouse models of ageing to investigate changes in mechanics of the proximal pulmonary artery, lung and right ventricle function in ageing. We found an age-related decline in the capacity to store energy and increased circumferential stiffness of the proximal pulmonary artery with age that associated with a reorientation of collagen towards the circumferential direction, decreased exercise ability, and decreased function of the lung and right ventricle. The observed compromised mechanics in proximal pulmonary artery is consistent across multiple mouse models of accelerated ageing. Further, transcriptional changes in proximal pulmonary artery indicate that aging is associated with senescence of perivascular macrophages, adventitial fibroblasts, and medial smooth muscle cells. Older pulmonary arteries increase expression of genes associated with ECM turnover (including genes in the TGF{beta} pathway) and increased intercellular signaling amongst perivascular macrophages, fibroblasts and smooth muscle cells. Our results provide promising biomarkers of ageing for diagnosis and potential pathways and molecular targets for targeting anti-ageing therapies.

physiology↗

bioRxiv2025

Alveolar epithelial cell plasticity and injury memory in human pulmonary fibrosis

Acute and repetitive lung epithelial injury can lead to irreversible and even progressive pulmonary fibrosis; Idiopathic pulmonary fibrosis (IPF) is a fatal disease and quintessential example of this phenomenon. The composition of epithelial cells in human pulmonary fibrosis - irrespective of disease etiology - is marked by the presence of Aberrant Basaloid cells: an abnormal cell phenotype with pro-fibrotic and senescent features, localized to the surface of fibrotic lesions. Despite their relevance to human pulmonary fibrosis, the exotic molecular profile of Aberrant Basaloid cells has obscured their etiology, preventing insights into how or why these cells emerge with fibrosis. Here we identify cellular intermediaries between Aberrant Basaloid and normal alveolar epithelial cells in human IPF tissue. We track the emergence of Aberrant Basaloid cells from alveolar epithelial cells ex vivo and uncover a role for similar cells in epithelial regeneration under normal conditions. Lastly, we characterize the epigenetic changes that distinguish Aberrant Basaloid cells from their progenitors and identify hallmarks of AP-1 injury memory retention. This study elucidates the phenomenon of maladaptive epithelial plasticity and regeneration in pulmonary fibrosis and re-contextualizes therapeutic strategies for epithelial dysfunction.

cell biology↗

bioRxiv2025

Widespread distribution of the BpfA-carrying bacteria involved in the bisphenol F degradation in Pseudomonadota and Actinomycetota

The global use of bisphenol F (BPF) has led to widespread environmental contamination, posing significant threats to ecosystems and human health. However, the genes involved in BPF degradation remained unknown. In this study, a novel oxidase gene, bpfA, was obtained from strain Microbacterium sp. F2 through a four-step purification strategy. BpfA is classified as a member of the 4-phenol oxidizing (4PO) subfamily and contains a conserved FAD-binding domain (Asp152 and His393) as well as a Tyr-Tyr-Arg triad (Tyr93, Tyr474, Arg475). BpfA catalyzes the conversion of BPF to 4,4-dihydroxydibenzophenone (DHBP) through a series of three consecutive reactions. In addition, BpfA exhibits catalytic activity towards 4-alkylphenols, such as vanillyl alcohol (VA), 4-n-propylguaiacol (4PG), and 4-(methoxymethyl)phenol (4MOP). BpfA homologs are widely distributed in the environment, particularly in soil. Bioinformatics-based taxonomic profiling revealed that BpfA homologs are widely distributed in metagenomes from cultivated land and forests, mainly belonging to Pseudomonadota and Actinomycetota. This study enhances our understanding of the microbial degradation mechanism of BPF, elucidates the catalytic function of the novel oxidase gene bpfA and its distribution pattern in the environment, and provides important insights into the evolutionary origin of BPF degradation genes and the targeted mining of environmental microbial resources.

microbiology↗

bioRxiv2025

Genetic regulation of fatty acid content in adipose tissue

Fatty acids are important as structural components, energy sources, and signaling mediators. While studies have extensively explored genetic regulation of fatty acids in serum and other bodily fluids, their regulation within adipose tissue, a crucial regulator of cardiovascular and metabolic health remains unclear. Here, we investigated the genetic regulation of 18 fatty acids in subcutaneous adipose tissue from 569 female twins from TwinsUK. Using twin models, the heritability of fatty acids ranged from 5% to 59%, indicating a substantial genetic regulation of fatty acid levels within adipose tissue, which was also tissue-specific in many cases. Genome-wide association studies identified ten significant loci, in SCD, ADAMTSL1, ZBTB41, SNTB1, EXOC6B, ACSL3, LINC02055, MKRN2/TSEN2, FADS1 and HAPLN across 13 fatty acids or fatty acid product-to-precursor ratios. Using adipose gene expression and methylation, which were concurrently measured in these samples, we detected five fatty acid-associated signals that colocalized with eQTL and meQTL signals, highlighting fatty acids that are regulated by molecular processes within adipose tissue. We identified strong associations of adipose fatty acids-associated loci with type 2 diabetes, body fat percentage, and cardiovascular disease. We explored links between polygenic scores of common metabolic traits and adipose fatty acid levels, and identified associations between polygenic scores of BMI, body-fat distribution and triglycerides and several fatty acids, indicating these risk scores impact local adipose tissue content. Overall, our results identified local genetic regulation of fatty acids within adipose tissue and highlighted their links with renal and cardio-metabolic health.

genetics↗

bioRxiv2025

Aptamer-Enabled Discovery and Clinical Analysis of Exosomal Surface Biomarkers in Hepatocellular Carcinoma

Exosomal membrane proteins hold promise as cancer biomarkers but face detection challenges due to low abundance and conformational sensitivity. We developed AptEx-ID, a microbead-displayed aptamer platform enabling high- throughput screening of hepatocellular carcinoma (HCC)-specific exosomal surface proteins. Aptamers, selected via competitive binding to tumor-derived versus healthy exosomes, demonstrated high affinity and specificity. Clinical validation using 50 HCC and 30 control plasma samples identified a 7-aptamer panel via machine learning, achieving 93.75% accuracy and 0.95 ROC-AUC. These aptamers further revealed HCC-associated biomarkers (e.g., IMPDH1, ASCC3, GTSE1), validated by siRNA knockdown and biophysical assays. Post-treatment monitoring showed aptamer signal reduction in responsive patients, highlighting their prognostic utility. This platform integrates biomarker discovery, diagnostics, and therapeutic monitoring, offering a robust approach for HCC management through exosomal surface proteome profiling.

molecular biology↗

bioRxiv2025

Transcriptional Subtypes on Immune Microenvironment and Predicting Postoperative Recurrence and Metastasis in Pheochromocytoma and Paraganglioma

Pheochromocytomas and paragangliomas (PPGLs) exhibit substantial molecular and immune heterogeneity, complicating risk assessment and treatment. Here, we define three distinct transcriptional subtypes (C1, C2, C3) through integrative transcriptomic and immunogenomic profiling. C1 is characterized by hypoxia-driven pathways and an immunosuppressive microenvironment, correlating with poor prognosis. C2 exhibits a highly inflamed immune landscape with robust CD8+ T cell infiltration, suggesting potential sensitivity to immunotherapy. C3 is enriched in metabolic reprogramming pathways and displays intermediate clinical outcomes. Genetic analysis reveals subtype-specific mutational patterns, with pseudohypoxic driver mutations (SDHB, VHL, SDHA, SDHD) predominant in C1 and C3, while kinase pathway alterations (NF1, RET) define C2. Single-nucleus RNA sequencing further delineates immune ecosystem diversity. Notably, we identify ANGPT2, PCSK1N, and GPX3 as key subtype-specific biomarkers, with ANGPT2 driving tumor progression in C1 and emerging as a potential therapeutic target. Our findings provide a refined molecular classification integrating immune and genomic features, offering a framework for improved prognostication and precision therapies in PPGLs.

cancer biology↗

bioRxiv2025

The China Brain Multi-omics Atlas Project (CBMAP)

The China Brain Multi-omics Atlas Project (CBMAP) aims to generate a comprehensive molecular reference map of over 1,000 human brains (Phase I), spanning a broad age range and multiple regions in China, to address the underrepresentation of East Asian populations in brain research. By integrating genome, epigenome, transcriptome, proteome (including multiple post-translational modifications), and metabolome data, CBMAP is set to provide a rich and invaluable resource for investigating the molecular underpinnings of aging-related brain phenotypes and neuropsychiatric disorders. Leveraging high-throughput omics data and advanced technologies, such as spatial transcriptomics, proteomics, and single-nucleus 3D chromatin structure analysis, this atlas will serve as a crucial resource for the brain science community, illuminating disease mechanisms and enhancing the utility of data from genome-wide association studies (GWAS). CBMAP is also poised to accelerate drug discovery and precision medicine for brain disorders.

neuroscience↗

bioRxiv2025

Experimental galactose-1 phosphate uridylyltransferase (GALT) mRNA therapy improves motor-related phenotypes in a mouse model of Classic Galactosemia

Despite life-saving newborn screening programs and a life-long galactose-restricted diet, many patients with Classic Galactosemia continue to develop long-term debilitating neurological deficits, speech dyspraxia, and primary ovarian insufficiency (POI). Earlier, we showed that administration of an experimental human GALT mRNA predominantly expressed in the liver of the GalT gene-trapped mouse model augmented the expression of hepatic GALT activity, which reduced build-up of galactose and its toxic metabolites not only in the liver, but also in the peripheral tissues. Moreover, we showed that administration of GALT mRNA in the mutant mice restored whole-body galactose oxidation (WBGO), a functional biomarker. In this study, we extended our proof-of-concept (POC) efficacy studies to a disease-relevant phenotype, motor impairment. We found that a biweekly dosing regimen at 2mg/kg for 2 months could improve the motor performance of the animals in Rotarod and Composite Phenotype Scoring tests.

genetics↗

bioRxiv2025

Nonlinear modulation of human exploration by distinct sources of uncertainty

Decision-making in uncertain environments requires balancing exploration and exploitation, with exploration typically assumed to increase monotonically with uncertainty. Challenging this prevailing assumption, we demonstrate a more complex relationship by decomposing environmental uncertainty into volatility (systematic change in reward contingencies, learnable) and stochasticity (random noise in observations, unlearnable). Across two behavioral experiments (N=1001, N=747) using a probabilistic reward task, we find a robust U-shaped relationship between the volatility-to-stochasticity (v/s) ratio and exploratory behavior, with participants exploring more when either stochasticity or volatility dominates. Remarkably, this pattern extends to real-world financial behavior, as demonstrated through analysis of five years of S&P 500 stock market data, where portfolio diversity (a proxy for exploration) shows the same U-shaped relationship with market volatility (systematic price movements driven by fundamental factors, e.g., economic shifts) relative to trading noise (random fluctuations from trading activity unrelated to fundamentals). These findings reveal how humans adaptively modulate exploration strategies based on the qualitative composition of uncertainty, with optimal performance occurring at intermediate uncertainty ratios. This nonlinear relationship has important implications for understanding decision-making across domains where uncertainty arises from multiple sources.

neuroscience↗

bioRxiv2025

How infant brains fold: Sulcal deepening is linked to development of sulcal span, thickness, curvature, and microstructure

Cortical folding begins in utero as sulci emerge and continues postnatally as sulci deepen. However, the timeline and mechanisms underlying postnatal sulcal development remain unknown. Using structural and quantitative magnetic resonance imaging in infants from birth to one year of age, we longitudinally measured macroanatomical and microstructural development in major sulci that emerge in utero between the 16th and 31st gestational weeks. We find that sulci that emerge earlier in utero are deeper at birth and deepen at a slower rate postnatally than later emerging sulci. Sulci also become wider, thicker, and microstructurally denser, while their curvature decreases. Notably, mean sulcal depth is predicted by a weighted sum of sulcal span, thickness, curvature, and tissue microstructure, with differential weights across sulci. Analysis of local depth along the sulcus also reveals that deeper portions of sulci (fundi) have higher curvature and higher microstructural density than the surrounding sulcal walls. These data reveal that postnatal sulcal deepening is nonuniform and depends on the time of emergence in utero, tissue microstructure, and multiple macroanatomical factors. Together, these findings have important ramifications for theories of cortical folding and elucidating neurodevelopmental disorders and delays.

neuroscience↗

bioRxiv2025

Integrative Single-Cell RNA and ATAC Sequencing Reveals the Impact of Chronic Cigarette Smoking on Lung Epithelial Responses to Influenza and Hyperoxia

Cigarette smoke (CS) is a significant risk factor for developing acute respiratory distress syndrome (ARDS), but the cellular and molecular mechanisms linking smoking to ARDS susceptibility remain unclear. Our goal was to improve our understanding of these mechanisms. To address this, we established a mouse model comparing long-term CS exposure to non-smoking controls, examining responses to influenza infection and hyperoxia-induced lung injury. The mice were divided into six groups (n=1 per group): control (CON), cigarette smoke (CS), hyperoxia (HYP), influenza infection (FLU), cigarette smoke plus hyperoxia (CS+HYP), and cigarette smoke plus influenza infection (CS+FLU). Single-cell RNA sequencing (scRNA-seq) and single-cell ATAC sequencing (scATAC-seq) were performed on lung tissues. Quality control analysis using Seurat (v5.1.0) and Signac (v1.13.1) retained 78,402 cells from scRNA-seq and 84,144 cells from scATAC-seq, with 32,305 matched cells identified across both datasets. Differential gene expression analysis revealed significant smoking-associated alterations in cellular responses to influenza infection and hyperoxia exposure. Pathway enrichment indicated heightened immune responses, inflammatory signaling, and cellular survival pathways in smoking-exposed animals. Integration of scRNA-seq and scATAC-seq identified key transcription factors (TFs), including those involved in immune regulation, tissue repair, and chromatin remodeling mediating these responses. Overall, this study underscores the role of chronic cigarette smoke exposure in exacerbating pathways critical to ARDS pathogenesis, providing potential targets for therapeutic intervention.

bioinformatics↗

bioRxiv2025

Ab-trapping - a peripheral staining artifact in antibody-based microscopy and genomics

Antibodies (Ab) are essential for detecting specific epitopes in microscopy and genomics, but can produce artifacts leading to erroneous interpretations. Here, we characterize a novel artifact, Ab-trapping, in which antibodies bind at the periphery of a cellular structure and do not diffuse further into its interior. This causes anomalous peripheral staining for multiple critical targets, including endogenous or ectopically expressed nuclear proteins like nucleolar proteins, histone variants and their modifications like H3K9me2. Ab-trapping can affect any assay relying on Ab diffusion, including immunofluorescence microscopy and recent genomics approaches like CUT&Tag. Critically, computational modeling and experimental validation reveal that Ab-trapping is caused by high epitope abundance, high Ab affinity, and low diffusion rates. Consequently, its effects can be mitigated by using alternative Abs and optimizing incubation conditions. Ab-trapping is therefore a considerable artifact that should be considered when designing experiments and interpreting results.

cell biology↗

bioRxiv2025

Single-cell RNA Sequencing Analysis of Sputum Cell Transcriptomes Reveals Pathways and Communication Networks That Contribute to the Pathogenesis of Asthma

BackgroundAsthma is driven by complex interactions amongst structural airway cells, cells of the immune system, and the environmental. While sputum cell characterization has been instrumental in studying asthma pathogenesis and refining treatment strategies, the nuances of cellular transcriptomes and intercellular communication in asthmatic sputum remain poorly understood. MethodsWe employed single-cell RNA sequencing to analyze cells isolated form the sputum from 16 asthma patients and 8 non-asthmatic controls. Cell identities were established using curated marker genes and SingleR annotation. We compared cell-specific gene expression and communication networks between asthmatic and control groups, correlating findings with distinct pathways that were dysregulated in asthma. Findings37,565 cellular transcriptomes were captured and analyzed. 15 distinct cell populations were identified, including various macrophages, monocytes, dendritic cells, and lymphocytes, along with rare cell types such as mast cells, innate lymphoid cells, bronchial epithelial cells, and eosinophils. Intercellular communication analysis indicated heightened signaling activity in asthma compared to controls, particularly in CD4+ T cells and dendritic cells which exhibited the most significant increases in RNA expression of outgoing signaling molecules. Notably, the ADAM12-SDC4 and CCL22-CCR4 ligand-receptor pathways demonstrated the strongest shifts between asthma and control subjects, particularly between dendritic cells and CD4 lymphocytes. InterpretationSC RNA seq profiling the asthma cellular transcriptome analysis of sputum highlights both innate and adaptive immune mechanisms that are significantly amplified in asthma. The elevated expression of ADAM12-SCD4 and CCL22-CC4 point to their critical role in asthma pathogenesis, suggesting potential avenues for targeted therapies and improved management of this chronic condition. Research in contextO_ST_ABSEvidence Before This StudyC_ST_ABSAsthma is a chronic inflammatory disease of the airways driven by intricate interactions between airway structural and immune cells. Previous transcriptomic studies have focused on bulk RNA samples from the airway, leaving significant gaps in our understanding of the cellular dynamics that characterize the disease. Added Value of This StudyThis study pioneers the use of single-cell RNA sequencing on sputum samples from patients with asthma, revealing a detailed landscape of cell phenotypes and dynamic communication patterns that distinguish asthmatic individuals from those without the disease. Notably, heightened intercellular communication was observed in asthma, particularly between CD4+ T cells and dendritic cells, confirming that there is a robust network of interactions between immune and structural cells. The notable increase of ADAM12-CCR4 communication from dendritic cells to other cell populations further emphasizes the dysregulation present in asthma. Implications of All Available EvidenceOur transcriptomic profiling illuminates distinct and amplified communication pathways involving CD4+ T cells and dendritic cells, aligning with established paradigms of both adaptive and innate immune responses in asthma pathogenesis. The identification of ADAM12 and CCR4 pathway dysregulation adds a critical layer to our understanding of the molecular mechanisms underpinning asthma, paving the way for potential therapeutic targets and personalized treatment strategies. Single cell profiling of the sputum has the capacity to characterize the breadth of cellular phenotypes, their functional status, and the communication in the airway at a level not previously attainable.

genomics↗