Macrophage profiling in atherosclerosis: understanding the unstable plaque

Basic Research in Cardiology, Год журнала: 2024, Номер 119(1), С. 35 - 56

Опубликована: Янв. 20, 2024

Язык: Английский

---

OmicVerse: a framework for bridging and deepening insights across bulk and single-cell sequencing

Nature Communications, Год журнала: 2024, Номер 15(1)

Опубликована: Июль 16, 2024

Abstract Single-cell sequencing is frequently affected by “omission” due to limitations in throughput, yet bulk RNA-seq may contain these ostensibly “omitted” cells. Here, we introduce the single cell trajectory blending from Bulk (BulkTrajBlend) algorithm, a component of OmicVerse suite that leverages Beta-Variational AutoEncoder for data deconvolution and graph neural networks discovery overlapping communities. This approach effectively interpolates restores continuity cells within single-cell RNA datasets. Furthermore, provides an extensive toolkit both analysis, offering seamless access diverse methodologies, streamlining computational processes, fostering exquisite visualization, facilitating extraction significant biological insights advance scientific research.

Язык: Английский

---

Deciphering and advancing CAR T-cell therapy with single-cell sequencing technologies

Molecular Cancer, Год журнала: 2023, Номер 22(1)

Опубликована: Май 6, 2023

Abstract Chimeric antigen receptor (CAR) T-cell therapy has made remarkable progress in cancer immunotherapy, but several challenges with unclear mechanisms hinder its wide clinical application. Single-cell sequencing technologies, the powerful unbiased analysis of cellular heterogeneity and molecular patterns at unprecedented resolution, have greatly advanced our understanding immunology oncology. In this review, we summarize recent applications single-cell technologies CAR therapy, including biological characteristics, latest response adverse events, promising strategies that contribute to development target selection. Generally, propose a multi-omics research mode guide potential future on therapy.

Язык: Английский

---

Cardiovascular diseases and depression: A meta-analysis and Mendelian randomization analysis

Molecular Psychiatry, Год журнала: 2025, Номер unknown

Опубликована: Апрель 17, 2025

Язык: Английский

---

Single-cell transcriptomics reveal distinctive patterns of fibroblast activation in heart failure with preserved ejection fraction

Basic Research in Cardiology, Год журнала: 2024, Номер unknown

Опубликована: Сен. 23, 2024

Inflammation, fibrosis and metabolic stress critically promote heart failure with preserved ejection fraction (HFpEF). Exposure to high-fat diet nitric oxide synthase inhibitor N[w]-nitro-l-arginine methyl ester (L-NAME) recapitulate features of HFpEF in mice. To identify disease-specific traits during adverse remodeling, we profiled interstitial cells early murine using single-cell RNAseq (scRNAseq). Diastolic dysfunction perivascular were accompanied by an activation cardiac fibroblast macrophage subsets. Integration fibroblasts from two models for reduced (HFrEF) identified a catalog conserved phenotypes across mouse models. Moreover, HFpEF-specific characteristics included induced metabolic, hypoxic inflammatory transcription factors pathways, including enhanced expression Angiopoietin-like 4 (Angptl4) next basement membrane compounds, such as collagen IV (Col4a1). Fibroblast was further dissected into transcriptional compositional shifts thereby highly responsive cell states each HF model identified. In contrast HFrEF, where myofibroblast matrifibrocyte crucial features, found that these played subsidiary role HFpEF. These signatures corroborated human myocardial bulk transcriptomes. Furthermore, potential cross-talk between macrophages via SPP1 TNFɑ estimated target genes Col4a1 Angptl4. Treatment recombinant ANGPTL4 ameliorated the phenotype diastolic reducing deposition vivo vitro. line, ANGPTL4, elevated plasma samples patients particularly high levels associated global-longitudinal strain. Taken together, our study provides comprehensive characterization molecular patterns HFpEF, well identification central mechanistic regulator protective effects.

Язык: Английский

---

Paris saponin VII inhibits triple-negative breast cancer by targeting the MEK/ERK/STMN1 signaling axis

Phytomedicine, Год журнала: 2024, Номер 130, С. 155746 - 155746

Опубликована: Май 15, 2024

Triple-negative breast cancer (TNBC) is a category of characterized with high molecular heterogeneity. Owing to the lack effective therapeutic strategies, patients TNBC have poor prognosis. Paris saponin VII (PSⅦ), steroidal extracted from rhizome Trichillium tschonoskii Maxim, exhibits excellent anti-cancer activity in variety solid tumors. However, role and potential mechanism PSⅦ against remain unexplored.

Язык: Английский

---

A review of innovative electrochemical strategies for bioactive molecule detection and cell imaging: Current advances and challenges

Analytica Chimica Acta, Год журнала: 2023, Номер 1285, С. 341920 - 341920

Опубликована: Окт. 19, 2023

Язык: Английский

---

Revealing the crucial roles of suppressive immune microenvironment in cardiac myxoma progression

Signal Transduction and Targeted Therapy, Год журнала: 2024, Номер 9(1)

Опубликована: Авг. 2, 2024

Abstract Cardiac myxoma is a commonly encountered tumor within the heart that has potential to be life-threatening. However, cellular composition of this condition still not well understood. To fill gap, we analyzed 75,641 cells from cardiac tissues based on single-cell sequencing. We defined population cells, which exhibited resemblance fibroblasts, yet they were distinguished by an increased expression phosphodiesterases and genes associated with cell proliferation, differentiation, adhesion. The clinical relevance populations indicated higher proportion M2-like macrophage infiltration, along their enhanced spatial interaction, found significantly contribute occurrence embolism. immune surrounding exhibit inhibitory characteristics, impaired function T characterized GZMK TOX , substantial infiltration tumor-promoting macrophages expressed growth factors such as PDGFC . Furthermore, in vitro co-culture experiments showed promoted significantly. In summary, study presents comprehensive atlas myxoma, highlighting heterogeneity collaborative impact cells. These findings shed light complex pathobiology present targets for intervention.

Язык: Английский

---

Exosomal miRNA reprogramming in pyroptotic macrophage drives silica-induced fibroblast-to-myofibroblast transition and pulmonary fibrosis

Journal of Hazardous Materials, Год журнала: 2024, Номер 483, С. 136629 - 136629

Опубликована: Ноя. 22, 2024

Язык: Английский

---

OmicVerse: A single pipeline for exploring the entire transcriptome universe

bioRxiv (Cold Spring Harbor Laboratory), Год журнала: 2023, Номер unknown

Опубликована: Июнь 8, 2023

Abstract Single-cell sequencing is frequently marred by “interruptions” due to limitations in throughput, yet bulk RNA-seq may harbor these ostensibly “interrupted” cells. In response, we introduce the single cell trajectory blending from Bulk (BulkTrajBlend) algorithm, a component of OmicVerse suite that leverages Beta-Variational AutoEncoder for data deconvolution and graph neural networks discovery overlapping community. This approach proficiently interpolates restores continuity cells within single-cell RNA dataset. Furthermore, provides an extensive toolkit analysis, offering uniform access diverse methodologies, streamlining computational processes, fostering exquisite visualization, facilitating extraction novel biological insights advance scientific research.

Язык: Английский

---