A cost-effective machine learning-based method for preeclampsia risk assessment and driver genes discovery

Cell & Bioscience, Journal Year: 2023, Volume and Issue: 13(1)

Published: Feb. 28, 2023

The placenta, as a unique exchange organ between mother and fetus, is essential for successful human pregnancy fetal health. Preeclampsia (PE) caused by placental dysfunction contributes to both maternal infant morbidity mortality. Accurate identification of PE patients plays vital role in the formulation treatment plans. However, traditional clinical methods have high misdiagnosis rate.Here, we first designed computational biology method that used single-cell transcriptome (scRNA-seq) healthy (38 wk) early-onset (28-32 identify pathological cell subpopulations predict risk. Based on machine learning feature selection techniques, observed Tuning ReliefF (TURF) score hybrid with XGBoost (TURF_XGB) achieved optimal performance, 92.61% accuracy 92.46% recall classifying nine placentas. Biological landscapes placenta heterogeneity could be mapped 110 marker genes screened TURF_XGB, which revealed superiority TURF mining. Moreover, processed dataset LASSO obtain 497 biomarkers. Integration analysis above two gene sets dendritic cells were closely associated PE, C1QB C1QC might drive preeclampsia mediating inflammation. In addition, an ensemble model-based risk stratification card was developed classify patients, its area under receiver operating characteristic curve (AUC) reach 0.99. For broader accessibility, accessible online web server ( http://bioinfor.imu.edu.cn/placenta ).Single-cell transcriptome-based assessment using framework valuable asset decision-making. may involved development progression affecting complement coagulation cascades pathway mediate inflammation, has important implications better understanding pathogenesis PE.

Language: Английский

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Genetic Associations of Circulating Cardiovascular Proteins With Gestational Hypertension and Preeclampsia

JAMA Cardiology, Journal Year: 2024, Volume and Issue: 9(3), P. 209 - 209

Published: Jan. 3, 2024

Hypertensive disorders of pregnancy (HDPs), including gestational hypertension and preeclampsia, are important contributors to maternal morbidity mortality worldwide. In addition, women with HDPs face an elevated long-term risk cardiovascular disease.

Language: Английский

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Methods and clinical biomarker discovery for targeted proteomics using Olink technology

PROTEOMICS - CLINICAL APPLICATIONS, Journal Year: 2024, Volume and Issue: 18(5)

Published: May 10, 2024

Abstract Purpose This paper is to offer insights for designing research utilizing Olink technology identify biomarkers and potential therapeutic targets disease treatment. Experimental Design We discusses the application of in oncology, cardiovascular, respiratory immune‐related diseases, Outlines advantages limitations technology. Results simplifies search targets, advances proteomics research, reveals pathogenesis ultimately helps patients develop precision treatments. Conclusions Although has been rapidly developed recent years, each method its own disadvantages, so future more methods should be selected combined verify other.

Language: Английский

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Behind the Curtain of Abnormal Placentation in Pre-Eclampsia: From Molecular Mechanisms to Histological Hallmarks

International Journal of Molecular Sciences, Journal Year: 2024, Volume and Issue: 25(14), P. 7886 - 7886

Published: July 18, 2024

Successful human pregnancy needs several highly controlled steps to guarantee an oocyte’s fertilization, the embryo’s pre-implantation development, and its subsequent implantation into uterine wall. The placenta development ensures adequate fetal nutrition oxygenation, with trophoblast being first cell lineage differentiate during this process. sustains growth of fetus by providing it oxygen nutrients removing waste products. It is not surprising that issues early can lead common disorders, such as recurrent miscarriage, restriction, pre-eclampsia, stillbirth. Understanding normal essential for recognizing contextualizing any pathological aberrations may occur. effects these become apparent until later in pregnancy, mid or advanced stages. This review discusses process embryo phase, molecular mechanisms involved, abnormalities those are thought contribute pre-eclampsia. also covers histological hallmarks pre-eclampsia found examination placental tissue from patients.

Language: Английский

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Olink Profiling of Intestinal Tissue Identifies Novel Biomarkers For Colorectal Cancer

Journal of Proteome Research, Journal Year: 2025, Volume and Issue: 24(2), P. 599 - 611

Published: Jan. 6, 2025

Comprehensive protein profiling in intestinal tissues provides detailed information about the pathogenesis of colorectal cancer (CRC). This study quantified expression levels 92 oncology-related proteins tumors, paired para-carcinoma tissues, and remote normal from a cohort 52 CRC patients utilizing Olink technology. The proteomic profile closely resembled that while distinctly differing tumors. Among 68 differentially expressed (DEPs) identified between tumor WISP-1, ESM-1, TFPI-2 showed most pronounced alterations exhibited relatively strong correlations. These markers also presented highest AUC values for distinguishing tissue types. Bioinformatic analysis DEPs revealed plasma membrane PI3K-AKT signaling pathway were among enriched GO terms KEGG pathways. Furthermore, although is typically recognized as suppressor, both enzyme linked immunosorbent assay (ELISA) analyses have demonstrated its significantly elevated tumors compared with tissues. To best our knowledge, this first to proteome using work offers valuable insights into potential biomarkers therapeutic targets CRC, complementing circulating proteins.

Language: Английский

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Large-scale plasma proteomics uncovers novel targets linking ambient air pollution and depression

Molecular Psychiatry, Journal Year: 2025, Volume and Issue: unknown

Published: March 19, 2025

Language: Английский

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Targeted plasma proteomics reveals organ damage signatures of AIDS- and noncommunicable disease-related deaths in people with HIV

Nature Communications, Journal Year: 2025, Volume and Issue: 16(1)

Published: April 24, 2025

Antiretroviral therapy (ART) is shifting the primary driver of mortality for people with HIV (PWH) from opportunistic infections to noncommunicable diseases (NCDs). Protein biomarkers differentiating both AIDS-related and NCDs-related deaths PWH may help early precise risk prediction intervention. We conduct a nested case-control study where 126 deaths, 162 age-sex-matched survivors 152 HIV-negative controls are analyzed 92 protein Olink Organ Damage panel by proximity extension assays (PEA). Using LASSO regression, logistic ROC analysis, twelve proteins significantly associated death, which six (SIRT5, PPM1B, PSMA1, GALNT10, VEGFC, PTN) specifically two (RCOR1, SERPINA9) four (CA12, CA14, RARRES1, EDIL3) both. Three these replicable in external validation sample. The adjusted panels consisting selected through regression model well predicted death (AUC = 0.970) 0.960) PWH. also displayed significant correlation traditional NCDs among (P < 0.05). potential clinical utility could shed light on pathogenesis end-stage organ dysfunction

Language: Английский

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Identification of Serum Inflammatory Markers in House Dust Mite‐Induced Allergic Rhinitis Using the Olink Proteomics

International Forum of Allergy & Rhinology, Journal Year: 2025, Volume and Issue: unknown

Published: May 6, 2025

Language: Английский

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Seasonal Proteomic Variations and Biomarkers in Seasonal Allergic Rhinitis: Insights from Olink Inflammation Profiling

Journal of Inflammation Research, Journal Year: 2025, Volume and Issue: Volume 18, P. 6191 - 6202

Published: May 1, 2025

Seasonal allergic rhinitis (SAR) is a prevalent inflammatory condition, yet its molecular mechanisms and reliable biomarkers remain incompletely understood. This study aimed to identify key inflammation-related proteins pathways associated with SAR by investigating seasonal proteomic profile variations their correlations symptoms. Serum samples were collected from nineteen patients during both allergy (in-season, IS) non-allergy (out-of-season, OS) periods. Differentially expressed (DEPs) identified using the Olink Target 96 Inflammation panel, which further analyzed through Gene Ontology (GO) Kyoto Encyclopedia of Genes Genomes (KEGG) pathway enrichment analyses. Spearman correlation analysis was conducted explore associations between DEPs symptoms, including sneezing, rhinorrhea, nasal blockage, itchy nose, eye. A total 36 identified, all significantly upregulated in season. Notable such as glial cell line-derived neurotrophic factor (GDNF), interleukin-18 receptor 1 (IL-18R1), interleukin-15 alpha (IL-15RA) showed strong Sneezing IL-2 beta (IL-2RB) (r = 0.415, p 0.013), rhinorrhea FMS-related tyrosine kinase 3 ligand (Flt3L) 0.455, 0.004), blockage osteoprotegerin (OPG) 0.493, 0.002). GO revealed enrichments Ras signaling small GTPase pathways, while KEGG highlighted immune-related PI3K-Akt cytokine-cytokine interactions. that vary seasonally SAR, offering insights into potential therapeutic targets for management. Further studies are recommended validate these findings larger more diverse populations.

Language: Английский

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Proteome-Based Maternal Plasma and Serum Biomarkers for Preeclampsia: A Systematic Review and Meta-Analysis

Life, Journal Year: 2025, Volume and Issue: 15(5), P. 776 - 776

Published: May 13, 2025

Proteomics has emerged as a transformative tool in biomedical research, enabling comprehensive characterization of protein profiles complex biological systems. In preeclampsia (PE) quantitative proteomic analyses plasma and serum have revealed critical insights into disease mechanisms potential biomarkers. Through systematic review 17 studies (2009–2024), we identified 561 differentially expressed plasma/serum proteins (p < 0.05) PE patients versus healthy controls, with 122 consistently replicated across ≥2 independent studies. Stratified analysis by clinical subtype (early-vs. late-onset PE) demonstrated both concordant divergent expression patterns, reflecting heterogeneity pathophysiology, methodological variations (e.g., sample processing, platforms), differences between discovery-phase targeted validation The trimester-specific biomarker panels proposed here offer framework for future large-scale, multicenter validation. By integrating advanced technologies standardized preanalytical analytical protocols, these findings advance opportunities early prediction (first-trimester signatures); mechanistic insight (complement system involvement); personalized management (subtype-specific therapeutic targets). This work underscores the proteomics to reshape from molecular discovery translation, ultimately improving outcomes this leading cause maternal perinatal morbidity.

Language: Английский

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