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).

• Bayesian model accounting for within-class biological variability in Serial Analysis of Gene Expression (SAGE).

  PMID 15339345 · PMC517707 · BMC bioinformatics · 2004 · 7 claims · 5 setups

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  A Bayesian mixture model is proposed to account for within-class biological variability in SAGE/Digital-Northern/MPSS tag counting data.

  astrocytoma same sage classical beta-binomial

• Tumor suppressor in lung cancer 1 (TSLC1) alters tumorigenic growth properties and gene expression.

  PMID 16083501 · PMC1208945 · Molecular cancer · 2005 · 8 claims · 8 setups

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  Restoration of TSLC1 expression in A549 cells (yielding the 12.2 line) suppresses tumorigenic growth, markedly reducing cell expansion/proliferation rate.

  a549 nsclc expansion wst-1 flow

• 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

• The dietary bioflavonoid, quercetin, selectively induces apoptosis of prostate cancer cells by down-regulating the expression of heat shock protein 90.

  PMID 18726985 · PMC2826114 · The Prostate · 2008 · 7 claims · 8 setups

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  Quercetin treatment of prostate cancer cells decreases cell proliferation and viability in a dose-dependent manner

  pc-3 excised prostate viability difference nano

• scSNViz: visualization and analysis of cell-specific expressed SNVs.

  PMID 41533688 · PMC12866635 · Bioinformatics (Oxford, England) · 2026 · 7 claims · 7 setups

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  scSNViz is an R package for exploration, quantification, and visualization of expressed SNVs from cell-barcoded scRNA-seq data, supporting VAF estimation, SNV clustering, and 2D/3D visualization.

  prostate non-small cholangiocarcinoma neuroblastoma scrna-seq cell-level single-cell

• Brain-specific proteins decline in the cerebrospinal fluid of humans with Huntington disease.

  PMID 18984577 · PMC2649809 · Molecular & cellular proteomics : MCP · 2009 · 8 claims · 6 setups

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  Brain-specific proteins are 1.8 times more likely to be observed in CSF than in plasma

  csf brain normal 2d-dige label-free isotopic

• Quantitative mass spectrometry of diabetic kidney tubules identifies GRAP as a novel regulator of TGF-beta signaling.

  PMID 19836472 · PMC2829334 · Biochimica et biophysica acta · 2010 · 8 claims · 7 setups

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  Label-free 2D-LC-MS/MS quantitative proteomics identified 476 significantly differentially expressed proteins in kidney tubules of diabetic OVE26 mice versus control mice

  kidney hk11 list 2d-lc-ms immunoblot immunohistochemistry

• Single-cell transcriptome maps of myeloid blood cell lineages in Drosophila.

  PMID 32900993 · PMC7479620 · Nature communications · 2020 · 8 claims · 8 setups

  Has reproduction · 86

  Single-cell RNA-seq of developing Drosophila lymph glands resolves heterogeneity of hemocytes and identifies major and sub cell types.

  drosophila lymph single single-cell bulk gene

• Proteomics of the lysosome.

  PMID 18977398 · PMC2684028 · Biochimica et biophysica acta · 2009 · 8 claims · 8 setups

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  The mammalian lysosome has been shown to contain ~60 soluble luminal proteins and ~25 transmembrane proteins

  liver placenta brain conditioned lc-ms n-terminal man6-p

• Assessing individual differences in genome-wide gene expression in human whole blood: reliability over four hours and stability over 10 months.

  PMID 19653838 · PMC3819565 · Twin research and human genetics : the official journal of the International Society for Twin Studies · 2009 · 8 claims · 5 setups

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  A subset of probesets (3,414) shows 4-hour test-retest reliability exceeding r=0.70 for detecting individual differences in gene expression.

  blood edta reliably genome-wide twin sub-type