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).

• Critical evaluation of drug response prediction models with DrEval.

  PMID 42120410 · PMC13168506 · Nature communications · 2026 · 8 claims · 6 setups

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  DrEval is a living open-source benchmarking pipeline for unbiased, biologically meaningful evaluation of cancer drug response prediction models, integrating standardized preprocessing, hyperparameter tuning, statistically rigorous evaluation, cross-study benchmarks, and ablation studies.

  ctrpv2 ccle beataml2 pdx_bruna viability drug pdx

• Experimental identification and in silico prediction of bacterivory in green algae.

  PMID 33649548 · PMC8245530 · The ISME journal · 2021 · 7 claims · 6 setups

  Has reproduction · 93

  Five prasinophyte strains (Pterosperma cristatum NIES626, Pyramimonas parkeae CCMP726, Pyramimonas parkeae NIES254, Nephroselmis pyriformis RCC618, Dolichomastix tenuilepis CCMP3274) ingest live fluorescently labeled bacteria, detected by microscopy and/or flow cytometry

  prasinophyte same green pelagibaca flow epifluorescence gene-based

• Broad network-based predictability of Saccharomyces cerevisiae gene loss-of-function phenotypes.

  PMID 18053250 · PMC2246260 · Genome biology · 2007 · 8 claims · 4 setups

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  Loss-of-function phenotypes in yeast are predictable from a gene's connections in a functional gene network via guilt-by-association.

  saccharomyces guilt-by-association comparison network-guided

• Functional redundancy of exon 12 of BRCA2 revealed by a comprehensive analysis of the c.6853A>G (p.I2285V) variant.

  PMID 19795481 · PMC3501199 · Human mutation · 2009 · 7 claims · 8 setups

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  BRCA2 c.6853A>G (p.I2285V) co-occurs in trans with the deleterious founder mutation c.5946delT, supporting classification as a neutral variant

  lymphocytes brca2 brca2-null ashkenazi rt-pcr splicing allelic

• Sequence and chemical specificity define the functional landscape of intrinsically disordered regions.

  PMID 41688823 · PMC12904797 · Nature cell biology · 2026 · 8 claims · 8 setups

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  IDR function depends on two distinct but related properties: sequence specificity (motifs) and chemical specificity (distributed multivalent chemistry)

  cerevisiae orthologous abf1 fus1-163 plasmid anti-flag proteome-wide

• TGF-β-mediated activation of fibroblasts in cervical cancer: implications for tumor microenvironment and prognosis.

  PMID 40124621 · PMC11929507 · PeerJ · 2025 · 8 claims · 8 setups

  Has reproduction · 79

  TGF-β signaling pathway activity is significantly increased in fibroblasts from cervical cancer samples compared to normal samples and correlates with tumor proliferation and differentiation.

  cervical tcga-cesc hela scrna-seq scrna-seq wgcna cox

• Targeted and personalized immunotherapy in lung adenocarcinoma: single-cell RNA sequencing of MAFF+ tumor cells and the therapeutic potential of FOS.

  PMID 40936936 · PMC12420628 · Frontiers in immunology · 2025 · 7 claims · 8 setups

  Has reproduction · 71

  A highly stem-like C0 MAFF+ tumor cell subtype dominates invasive LUAD, producing chemokines and activating lipid metabolism

  luad tumor a549 single-cell infercnv pseudotime

• Comprehensive analysis of peroxisome proliferator-activated receptors to predict the drug resistance, immune microenvironment, and prognosis in stomach adenocarcinomas.

  PMID 38529307 · PMC10962337 · PeerJ · 2024 · 8 claims · 8 setups

  Has reproduction · 58

  PPARA, PPARD and PPARG are more abnormally expressed in STAD samples and cell lines compared to most of 32 cancer types in TCGA

  cancer tcga-stad stomach ges1 rna-seq pearson gsva

• 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