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Proteomic analysis in the insoluble fraction of α-syn PFF treated M83 neurons. A M83 neurons treated with α-syn PFFs or PBS for 14± 1 and 21± 1 days were sequentially extracted with 1% Triton X-100 followed by 2% SDS. Western blot analysis showed significant enrichment of pS129 α-syn in the Triton X-100 insoluble fraction from PFF treated neuron samples. With PBS treatment, α-syn was extracted in 1% Triton X-100 fraction. B Insoluble fractions analyzed by Mass spectrometry <t>identified</t> 92 proteins that were changed in the total proteome with PFF treatment at logFC cutoff of ≥ 0.25. An enrichment analysis using metascape for these 92 proteins was performed, which identified membrane/vesicle trafficking, autophagy, endocytosis, and exocytosis mechanisms. C Based on a stringent cutoff of 0.999 in CPDB, a first order network of these 92 proteins including 1640 proteins and 4,738 interactors was generated. Based on this, a zero-order network was established using the internally developed network-based visual <t>analytics</t> <t>tool</t> to identify enriched pathways which are shown in the figure. The most enriched pathways in this network included the mitochondrial pathway, translation, ubiquitin related, lysosome, unfolded protein response, vesicle trafficking and mRNA splicing
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Proteomic analysis in the insoluble fraction of α-syn PFF treated M83 neurons. A M83 neurons treated with α-syn PFFs or PBS for 14± 1 and 21± 1 days were sequentially extracted with 1% Triton X-100 followed by 2% SDS. Western blot analysis showed significant enrichment of pS129 α-syn in the Triton X-100 insoluble fraction from PFF treated neuron samples. With PBS treatment, α-syn was extracted in 1% Triton X-100 fraction. B Insoluble fractions analyzed by Mass spectrometry <t>identified</t> 92 proteins that were changed in the total proteome with PFF treatment at logFC cutoff of ≥ 0.25. An enrichment analysis using metascape for these 92 proteins was performed, which identified membrane/vesicle trafficking, autophagy, endocytosis, and exocytosis mechanisms. C Based on a stringent cutoff of 0.999 in CPDB, a first order network of these 92 proteins including 1640 proteins and 4,738 interactors was generated. Based on this, a zero-order network was established using the internally developed network-based visual <t>analytics</t> <t>tool</t> to identify enriched pathways which are shown in the figure. The most enriched pathways in this network included the mitochondrial pathway, translation, ubiquitin related, lysosome, unfolded protein response, vesicle trafficking and mRNA splicing
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Proteomic analysis in the insoluble fraction of α-syn PFF treated M83 neurons. A M83 neurons treated with α-syn PFFs or PBS for 14± 1 and 21± 1 days were sequentially extracted with 1% Triton X-100 followed by 2% SDS. Western blot analysis showed significant enrichment of pS129 α-syn in the Triton X-100 insoluble fraction from PFF treated neuron samples. With PBS treatment, α-syn was extracted in 1% Triton X-100 fraction. B Insoluble fractions analyzed by Mass spectrometry <t>identified</t> 92 proteins that were changed in the total proteome with PFF treatment at logFC cutoff of ≥ 0.25. An enrichment analysis using metascape for these 92 proteins was performed, which identified membrane/vesicle trafficking, autophagy, endocytosis, and exocytosis mechanisms. C Based on a stringent cutoff of 0.999 in CPDB, a first order network of these 92 proteins including 1640 proteins and 4,738 interactors was generated. Based on this, a zero-order network was established using the internally developed network-based visual <t>analytics</t> <t>tool</t> to identify enriched pathways which are shown in the figure. The most enriched pathways in this network included the mitochondrial pathway, translation, ubiquitin related, lysosome, unfolded protein response, vesicle trafficking and mRNA splicing
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Proteomic analysis in the insoluble fraction of α-syn PFF treated M83 neurons. A M83 neurons treated with α-syn PFFs or PBS for 14± 1 and 21± 1 days were sequentially extracted with 1% Triton X-100 followed by 2% SDS. Western blot analysis showed significant enrichment of pS129 α-syn in the Triton X-100 insoluble fraction from PFF treated neuron samples. With PBS treatment, α-syn was extracted in 1% Triton X-100 fraction. B Insoluble fractions analyzed by Mass spectrometry <t>identified</t> 92 proteins that were changed in the total proteome with PFF treatment at logFC cutoff of ≥ 0.25. An enrichment analysis using metascape for these 92 proteins was performed, which identified membrane/vesicle trafficking, autophagy, endocytosis, and exocytosis mechanisms. C Based on a stringent cutoff of 0.999 in CPDB, a first order network of these 92 proteins including 1640 proteins and 4,738 interactors was generated. Based on this, a zero-order network was established using the internally developed network-based visual <t>analytics</t> <t>tool</t> to identify enriched pathways which are shown in the figure. The most enriched pathways in this network included the mitochondrial pathway, translation, ubiquitin related, lysosome, unfolded protein response, vesicle trafficking and mRNA splicing
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Proteomic analysis in the insoluble fraction of α-syn PFF treated M83 neurons. A M83 neurons treated with α-syn PFFs or PBS for 14± 1 and 21± 1 days were sequentially extracted with 1% Triton X-100 followed by 2% SDS. Western blot analysis showed significant enrichment of pS129 α-syn in the Triton X-100 insoluble fraction from PFF treated neuron samples. With PBS treatment, α-syn was extracted in 1% Triton X-100 fraction. B Insoluble fractions analyzed by Mass spectrometry <t>identified</t> 92 proteins that were changed in the total proteome with PFF treatment at logFC cutoff of ≥ 0.25. An enrichment analysis using metascape for these 92 proteins was performed, which identified membrane/vesicle trafficking, autophagy, endocytosis, and exocytosis mechanisms. C Based on a stringent cutoff of 0.999 in CPDB, a first order network of these 92 proteins including 1640 proteins and 4,738 interactors was generated. Based on this, a zero-order network was established using the internally developed network-based visual <t>analytics</t> <t>tool</t> to identify enriched pathways which are shown in the figure. The most enriched pathways in this network included the mitochondrial pathway, translation, ubiquitin related, lysosome, unfolded protein response, vesicle trafficking and mRNA splicing
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Proteomic analysis in the insoluble fraction of α-syn PFF treated M83 neurons. A M83 neurons treated with α-syn PFFs or PBS for 14± 1 and 21± 1 days were sequentially extracted with 1% Triton X-100 followed by 2% SDS. Western blot analysis showed significant enrichment of pS129 α-syn in the Triton X-100 insoluble fraction from PFF treated neuron samples. With PBS treatment, α-syn was extracted in 1% Triton X-100 fraction. B Insoluble fractions analyzed by Mass spectrometry <t>identified</t> 92 proteins that were changed in the total proteome with PFF treatment at logFC cutoff of ≥ 0.25. An enrichment analysis using metascape for these 92 proteins was performed, which identified membrane/vesicle trafficking, autophagy, endocytosis, and exocytosis mechanisms. C Based on a stringent cutoff of 0.999 in CPDB, a first order network of these 92 proteins including 1640 proteins and 4,738 interactors was generated. Based on this, a zero-order network was established using the internally developed network-based visual <t>analytics</t> <t>tool</t> to identify enriched pathways which are shown in the figure. The most enriched pathways in this network included the mitochondrial pathway, translation, ubiquitin related, lysosome, unfolded protein response, vesicle trafficking and mRNA splicing
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visual bibliographic pubmed-based search tool vizit  (Biovista Inc)
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Major elements of the workflow applied to the analysis of pharmacovigilance reports and its subsequent linking with the basic biological knowledge. a Mood and cognitive MedDRA terms used for the selection of mood- and cognitive-related AEs. b Graphical representation of the two approaches used to identify the pathways and mechanisms of action leading to Mood and Cognitive AEs. Expert curation was carried out using <t>PubMed</t> and <t>the</t> <t>Biovista</t> Vizit tool
Visual Bibliographic Pubmed Based Search Tool Vizit, supplied by Biovista Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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Image Search Results


Proteomic analysis in the insoluble fraction of α-syn PFF treated M83 neurons. A M83 neurons treated with α-syn PFFs or PBS for 14± 1 and 21± 1 days were sequentially extracted with 1% Triton X-100 followed by 2% SDS. Western blot analysis showed significant enrichment of pS129 α-syn in the Triton X-100 insoluble fraction from PFF treated neuron samples. With PBS treatment, α-syn was extracted in 1% Triton X-100 fraction. B Insoluble fractions analyzed by Mass spectrometry identified 92 proteins that were changed in the total proteome with PFF treatment at logFC cutoff of ≥ 0.25. An enrichment analysis using metascape for these 92 proteins was performed, which identified membrane/vesicle trafficking, autophagy, endocytosis, and exocytosis mechanisms. C Based on a stringent cutoff of 0.999 in CPDB, a first order network of these 92 proteins including 1640 proteins and 4,738 interactors was generated. Based on this, a zero-order network was established using the internally developed network-based visual analytics tool to identify enriched pathways which are shown in the figure. The most enriched pathways in this network included the mitochondrial pathway, translation, ubiquitin related, lysosome, unfolded protein response, vesicle trafficking and mRNA splicing

Journal: Molecular Brain

Article Title: Broad proteomics analysis of seeding-induced aggregation of α-synuclein in M83 neurons reveals remodeling of proteostasis mechanisms that might contribute to Parkinson’s disease pathogenesis

doi: 10.1186/s13041-024-01099-1

Figure Lengend Snippet: Proteomic analysis in the insoluble fraction of α-syn PFF treated M83 neurons. A M83 neurons treated with α-syn PFFs or PBS for 14± 1 and 21± 1 days were sequentially extracted with 1% Triton X-100 followed by 2% SDS. Western blot analysis showed significant enrichment of pS129 α-syn in the Triton X-100 insoluble fraction from PFF treated neuron samples. With PBS treatment, α-syn was extracted in 1% Triton X-100 fraction. B Insoluble fractions analyzed by Mass spectrometry identified 92 proteins that were changed in the total proteome with PFF treatment at logFC cutoff of ≥ 0.25. An enrichment analysis using metascape for these 92 proteins was performed, which identified membrane/vesicle trafficking, autophagy, endocytosis, and exocytosis mechanisms. C Based on a stringent cutoff of 0.999 in CPDB, a first order network of these 92 proteins including 1640 proteins and 4,738 interactors was generated. Based on this, a zero-order network was established using the internally developed network-based visual analytics tool to identify enriched pathways which are shown in the figure. The most enriched pathways in this network included the mitochondrial pathway, translation, ubiquitin related, lysosome, unfolded protein response, vesicle trafficking and mRNA splicing

Article Snippet: Visualization of this network containing 1328 proteins and 3621 interactions using internally developed network-based visual analytics tool identified modules involved in proteostasis.

Techniques: Western Blot, Mass Spectrometry, Membrane, Generated, Ubiquitin Proteomics

Major elements of the workflow applied to the analysis of pharmacovigilance reports and its subsequent linking with the basic biological knowledge. a Mood and cognitive MedDRA terms used for the selection of mood- and cognitive-related AEs. b Graphical representation of the two approaches used to identify the pathways and mechanisms of action leading to Mood and Cognitive AEs. Expert curation was carried out using PubMed and the Biovista Vizit tool

Journal: Archives of Toxicology

Article Title: Molecular basis of mood and cognitive adverse events elucidated via a combination of pharmacovigilance data mining and functional enrichment analysis

doi: 10.1007/s00204-020-02788-1

Figure Lengend Snippet: Major elements of the workflow applied to the analysis of pharmacovigilance reports and its subsequent linking with the basic biological knowledge. a Mood and cognitive MedDRA terms used for the selection of mood- and cognitive-related AEs. b Graphical representation of the two approaches used to identify the pathways and mechanisms of action leading to Mood and Cognitive AEs. Expert curation was carried out using PubMed and the Biovista Vizit tool

Article Snippet: Biovista Vizit is a visual bibliographic PubMed-based search tool that helps researchers and medical practitioners explore the existing knowledge of a biomedical domain, discover non-obvious links between entities (e.g. genes, pathways, drugs, etc.), visualize biological interconnections and communicate findings with peers ( https://www.biovista.com/vizit/ ).

Techniques: Selection