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network-based analytics  (Applied Bioinformatics)

 
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    Applied Bioinformatics network-based analytics
    Network Based Analytics, supplied by Applied Bioinformatics, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/network-based+analytics/network+based+analytics/pm28965360-1943-34-30
    Average 90 stars, based on 1 article reviews
    network-based analytics - by Bioz Stars, 2026-10
    90/100 stars

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    Related Articles

    Gene Expression:

    Article Title: The 68th Annual Meeting of the American Association for the Study of Liver Diseases: The Liver Meeting 2017.
    Article Snippet: Methods: To identify shared pathogenesis and molecular connectivity among BA, PBC and PSC, we built a comprehensive platform of published data on gene variants, gene expression and functional studies, and applied bioinformatics algorithms and network-based analytics in search for shared molecular circuits .

    Functional Assay:

    Article Title: The 68th Annual Meeting of the American Association for the Study of Liver Diseases: The Liver Meeting 2017.
    Article Snippet: Methods: To identify shared pathogenesis and molecular connectivity among BA, PBC and PSC, we built a comprehensive platform of published data on gene variants, gene expression and functional studies, and applied bioinformatics algorithms and network-based analytics in search for shared molecular circuits .



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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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    network-based analytics  (Applied Bioinformatics)
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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 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