Notebook Artifact Registry

Computational analysis artifacts linked to analyses and knowledge graph entities

AllAPOE4AgingAllen InstituteAlzheimer'sCRISPRCircuit AnalysisCross-Age AnalysisEpigeneticsGene ExpressionImmune ResponseMicrogliaMouse ModelNeural DynamicsNeurodegenerationNeuroinflammationProtein PropagationSEA-ADSenescent CellsSenolyticsStructural BiologyTauTherapeutics[]agingallen-brainallen-brain-atlasallen-institutealzheimersanalysisartifactastrocytesautobiomarkerscell-atlascell-typescidemodraftepigeneticsforge-toolsgene-editinggene-expressiongohypotheseshypothesis-analysiskeggknowledge-gaplipid-raftsmicroglianeurodegenerationneuroinflammationneuronsnotebookpathway-enrichmentreactomescanpysea-adseededsenescenceshowcasesingle-cellstatisticsstubtautemplatetesttranscriptomicstsneumapwalkthrough

🌟 Spotlight Notebooks

Gene Expression Changes in Aging Mouse Brain Predicting Neurodegenerative Vulnerability

Real Forge-powered analysis: PubMed search, STRING PPI, Reactome pathways, gene annotations for aging mouse brain transcriptomics.

showcase forge-tools transcriptomics neurodegeneration
📊 Gene expression changes in aging mouse brain predicting neurodegenerative vulnerability
Created: 2026-04-16
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Neuroinflammation and Microglial Priming in Early Alzheimer's Disease

Real Forge-powered analysis: PubMed search, STRING PPI, Reactome pathways, gene annotations for microglial priming in early AD.

showcase forge-tools neuroinflammation neurodegeneration
📊 Neuroinflammation and microglial priming in early Alzheimer's Disease
Created: 2026-04-16
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CRISPR-Based Therapeutic Approaches for Neurodegenerative Diseases

Real Forge-powered analysis: PubMed search, STRING PPI, Reactome pathways, gene annotations for CRISPR neurodegeneration therapy research.

showcase forge-tools gene-editing neurodegeneration
📊 CRISPR-based therapeutic approaches for neurodegenerative diseases
Created: 2026-04-16
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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: 2026-04-13
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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: 2026-04-13
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All Notebooks (1) (filtered by: kegg)

Pathway Enrichment for Top Hypothesis Gene Targets

Pathway enrichment analysis (KEGG, Reactome, GO) for gene targets from highest-scoring SciDEX hypotheses across Alzheimer's disease, ALS, and Parkinson's disease.

pathway-enrichment kegg reactome go demo
TREM2 APOE SOD1 TDP43 FUS
Created: 2026-04-23
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