Whole-transcriptome sequencing revealed differentially expressed mRNAs and non-coding RNAs played crucial roles in NiONPs-induced liver fibrosis

Li, Kun; Zheng, Jiyue; Liu, Han; Gao, Qing; Tang, Jiang; Wang, Hui; Li, Sheng; Sun, Yuhao; Chang, Xuhong

doi:10.1016/j.ecoenv.2022.114308

Cited by 4 publications

(2 citation statements)

References 102 publications

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“…156 Inhalation exposure of rats to NiO NPs caused systemic toxicity. 85 Intratracheal instillation of Ni or NiO NPs induced activation of peripheral blood monocytes and neutrophils, 126,129 and induced liver toxicity, 157 hepatocyte apoptosis, 158 hepatic fibrosis, 159,160 disturbance of bile acid metabolism, 161 and reproductive toxicity. 162 Intraperitoneal injection of Ni or NiO NPs caused toxicity in the rodent liver, 163 kidneys, 164 brain, 165,166 spleen, 167 heart, 168 and reproductive system.…”

Section: Extra-pulmonary Effects Of Nicontaining Npsmentioning

confidence: 99%

The pulmonary effects of nickel-containing nanoparticles: cytotoxicity, genotoxicity, carcinogenicity, and their underlying mechanisms

Mo,

Zhang,

Zhang

2024

Environ. Sci.: Nano

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Section: Extra-pulmonary Effects Of Nicontaining Npsmentioning

confidence: 99%

The pulmonary effects of nickel-containing nanoparticles: cytotoxicity, genotoxicity, carcinogenicity, and their underlying mechanisms

Mo,

Zhang,

Zhang

2024

Environ. Sci.: Nano

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“…The advancement and decreasing costs of molecular measurement technologies have enabled the diverse profiling of disease molecular features, spanning the genome, transcriptome, proteome, metabolome, single-cell sequencing, or cytokinome [ 22 , 23 ]. Whole-transcriptome analyses have revealed that a substantial portion of the human genome undergoes transcription, generating non-coding (nc) transcripts, such as long noncoding RNAs (lncRNAs), microRNAs (miRNAs), and circular RNAs (circRNAs) [ 24 ].…”

Section: Introductionmentioning

confidence: 99%

Multi-omics approaches for drug-response characterization in primary biliary cholangitis and autoimmune hepatitis variant syndrome

Yang,

Zhou,

Shen

et al. 2024

J Transl Med

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Background Primary biliary cholangitis (PBC) and autoimmune hepatitis (AIH) variant syndrome (VS) exhibit a complex overlap of AIH features with PBC, leading to poorer prognoses than those with PBC or AIH alone. The biomarkers associated with drug response and potential molecular mechanisms in this syndrome have not been fully elucidated. Methods Whole-transcriptome sequencing was employed to discern differentially expressed (DE) RNAs within good responders (GR) and poor responders (PR) among patients with PBC/AIH VS. Subsequent gene ontology (GO) analysis and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis were conducted for the identified DE RNAs. Plasma metabolomics was employed to delineate the metabolic profiles distinguishing PR and GR groups. The quantification of immune cell profiles and associated cytokines was achieved through flow cytometry and immunoassay technology. Uni- and multivariable logistic regression analyses were conducted to construct a predictive model for insufficient biochemical response. The performance of the model was assessed by computing the area under the receiver operating characteristic (AUC) curve, sensitivity, and specificity. Findings The analysis identified 224 differentially expressed (DE) mRNAs, 189 DE long non-coding RNAs, 39 DE circular RNAs, and 63 DE microRNAs. Functional pathway analysis revealed enrichment in lipid metabolic pathways and immune response. Metabolomics disclosed dysregulated lipid metabolism and identified PC (18:2/18:2) and PC (16:0/20:3) as predictors. CD4+ T helper (Th) cells, including Th2 cells and regulatory T cells (Tregs), were upregulated in the GR group. Pro-inflammatory cytokines (IFN-γ, TNF-α, IL-9, and IL-17) were downregulated in the GR group, while anti-inflammatory cytokines (IL-10, IL-4, IL-5, and IL-22) were elevated. Regulatory networks were constructed, identifying CACNA1H and ACAA1 as target genes. A predictive model based on these indicators demonstrated an AUC of 0.986 in the primary cohort and an AUC of 0.940 in the validation cohort for predicting complete biochemical response. Conclusion A combined model integrating genomic, metabolic, and cytokinomic features demonstrated high accuracy in predicting insufficient biochemical response in patients with PBC/AIH VS. Early recognition of individuals at elevated risk for insufficient response allows for the prompt initiation of additional treatments.

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Whole-Transcriptome Analysis Reveals the RNA Profiles in Mouse Bone Marrow Mesenchymal Stem Cells or Zebrafish Embryos After Exposure to Environmental Level of Tributyltin

Li,

Chen,

Liu

et al. 2024

Bull Environ Contam Toxicol

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Whole-transcriptome sequencing revealed differentially expressed mRNAs and non-coding RNAs played crucial roles in NiONPs-induced liver fibrosis

Cited by 4 publications

References 102 publications

The pulmonary effects of nickel-containing nanoparticles: cytotoxicity, genotoxicity, carcinogenicity, and their underlying mechanisms

The pulmonary effects of nickel-containing nanoparticles: cytotoxicity, genotoxicity, carcinogenicity, and their underlying mechanisms

Multi-omics approaches for drug-response characterization in primary biliary cholangitis and autoimmune hepatitis variant syndrome

Whole-Transcriptome Analysis Reveals the RNA Profiles in Mouse Bone Marrow Mesenchymal Stem Cells or Zebrafish Embryos After Exposure to Environmental Level of Tributyltin

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