Notebook Artifact Registry

Computational analysis artifacts linked to analyses and knowledge graph entities

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Mitochondrial Dysfunction as a Driver of Neurodegeneration

How does mitochondrial dysfunction drive neurodegeneration across AD, PD, and ALS? Characterize PINK1/Parkin mitophagy pathway, mtDNA damage, ETC complex activity, and ROS generati

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Created: 2026-04-12

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Tau Pathology Propagation in Tauopathies — Mechanistic Dissection

How does misfolded tau spread through the brain in tauopathies? Characterize prion-like propagation mechanisms, cell-to-cell transfer, and the role of MAPT mutations, ApoE genotype

[]

Created: 2026-04-12

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Neuroinflammation and microglial priming in early Alzheimer's Disease — Analysis Notebook

Mechanistic links between early microglial priming states, neuroinflammatory signaling, and AD progression. Forge-powered analysis with 14 hypotheses, 105 KG edges, and PubMed cita

showcase forge-tools neuroinflammation neurodegeneration

📊 Neuroinflammation and microglial priming in early Alzheimer's Disease

Created: 2026-04-11

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Gene expression changes in aging mouse brain predicting neurodegenerative vulnerability — Analysis Notebook

Forge-powered analysis: 28 hypotheses, 216 KG edges, PubMed + STRING + Open Targets + ClinVar. 10 code cells, 5 plots.

showcase forge-tools transcriptomics neurodegeneration

📊 Gene expression changes in aging mouse brain predicting neurodegenerative vulnerability

Created: 2026-04-11

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CRISPR-based therapeutic approaches for neurodegenerative diseases — Analysis Notebook

CRISPR-based therapeutic approaches for neurodegenerative diseases (Alzheimer, Parkinson, Huntington). Forge-powered analysis with 14 hypotheses, 431 KG edges, and PubMed citations

showcase forge-tools gene-editing neurodegeneration

📊 CRISPR-based therapeutic approaches for neurodegenerative diseases

Created: 2026-04-11

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All Notebooks (6) (filtered by: knowledge-gap)

TREM2 agonism vs antagonism in DAM microglia

Analysis ID: SDA-2026-04-01-gap-001

knowledge-gap microglia neurodegeneration

📊 TREM2 agonism vs antagonism in DAM microglia (neurodegeneration)

Created: 2026-04-01

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Selective vulnerability of entorhinal cortex layer II neurons in AD

Analysis ID: SDA-2026-04-01-gap-004

knowledge-gap neurodegeneration statistics

📊 Selective vulnerability of entorhinal cortex layer II neurons in AD (neurodegeneration)

Created: 2026-04-01

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4R-tau strain-specific spreading patterns in PSP vs CBD

Analysis ID: SDA-2026-04-01-gap-005

knowledge-gap microglia neurodegeneration statistics

📊 4R-tau strain-specific spreading patterns in PSP vs CBD (neurodegeneration)

Created: 2026-04-01

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TREM2 agonism vs antagonism in DAM microglia

Analysis ID: SDA-2026-04-01-gap-001 Date: 2026-04-01 Domain: neurodegeneration Key Hypotheses: - TREM2-Dependent Microglial Senescence Transition (score: 0.705) - Cell-Type Specific TREM

SEA-AD gene-expression hypothesis-analysis knowledge-gap microglia

📊 TREM2 agonism vs antagonism in DAM microglia (neurodegeneration)

Created: 2026-04-01

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Selective vulnerability of entorhinal cortex layer II neurons in AD

Analysis ID: SDA-2026-04-01-gap-004 Date: 2026-04-01 Domain: neurodegeneration Hypotheses Generated: 7 Knowledge Graph Edges: 83

SEA-AD gene-expression hypothesis-analysis knowledge-gap microglia

📊 Selective vulnerability of entorhinal cortex layer II neurons in AD (neurodegeneration)

Created: 2026-04-01

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4R-tau strain-specific spreading patterns in PSP vs CBD

Analysis ID: SDA-2026-04-01-gap-005 Date: 2026-04-01 Domain: neurodegeneration Hypotheses Generated: 7 Knowledge Graph Edges: 112

SEA-AD gene-expression hypothesis-analysis knowledge-gap microglia

📊 4R-tau strain-specific spreading patterns in PSP vs CBD (neurodegeneration)

Created: 2026-04-01

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