Experiments

Searchable full-text extractions: founding hypothesis, core claims, experimental setups, key results and statistics — pulled out of each paper as structure. Search a cell line, an assay or an entity (e.g. HUH7) and find every paper that worked with it. This corpus stands on its own: most entries carry no reproduction assessment (yet).

Publications 1.3k Datasets 392.5k Experiments 4

System / cell line: prostate ✕ Assay: inference ✕ Clear

Topologically inferring pathway activity toward precise cancer classification via integrating genomic and metabolomic data: prostate cancer as a case.

PMID 26286638 · PMC4541321 · Scientific reports · 2015 · 6 claims · 6 setups

Has reproduction · 76

DRW-GM evaluates gene topological importance by directed random walk on a global gene–metabolite pathway graph integrating gene expression and metabolomic profiles to infer pathway activities

prostate matched gse8511 gene metabolomic pathway
Identification of gene interactions associated with disease from gene expression data using synergy networks.

PMID 18234101 · PMC2258206 · BMC systems biology · 2008 · 8 claims · 4 setups

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Synergy of a gene pair with respect to disease, defined as I(G1,G2;C) - [I(G1;C)+I(G2;C)], identifies gene pairs that interact cooperatively with respect to a phenotype rather than independently.

prostate simulated microarray simulated permutation
Unveiling the NEFH+ malignant cell subtype: Insights from single-cell RNA sequencing in prostate cancer progression and tumor microenvironment interactions.

PMID 39759507 · PMC11695424 · Frontiers in immunology · 2024 · 8 claims · 8 setups

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A malignant cell subtype in PCa with high expression of NEFH was identified, located at the differentiation terminal, showing higher malignancy and association with advanced tumor lesions.

pca malignant tcga mda single-cell infercnv pseudotime
Integrative bulk and single-cell transcriptomics link EZH2 to immunosuppressive programs and tumor-Treg crosstalk in castration-resistant prostate cancer.

PMID 41710887 · PMC12909565 · Frontiers in immunology · 2026 · 8 claims · 8 setups

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Higher EZH2 expression is associated with adverse clinical outcomes in bulk PCa/CRPC cohorts

tcga-prad su2c gse264573 gse137829 bulk scrna-seq ligand-receptor

Experiments

Topologically inferring pathway activity toward precise cancer classification via integrating genomic and metabolomic data: prostate cancer as a case.

Identification of gene interactions associated with disease from gene expression data using synergy networks.

Unveiling the NEFH+ malignant cell subtype: Insights from single-cell RNA sequencing in prostate cancer progression and tumor microenvironment interactions.

Integrative bulk and single-cell transcriptomics link EZH2 to immunosuppressive programs and tumor-Treg crosstalk in castration-resistant prostate cancer.