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).

• DNA methylation analysis by digital bisulfite genomic sequencing and digital MethyLight.

  PMID 18628296 · PMC2504308 · Nucleic acids research · 2008 · 8 claims · 6 setups

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  Digital PCR compartmentalizes individual bisulfite-converted DNA template molecules into separate wells, enabling single-molecule DNA methylation analysis

  fresh-frozen same sssi-methylated mixture digital conventional classic

• CD74 deficiency protects against doxorubicin cardiotoxicity through RRM2-mediated regulation of ferroptosis.

  PMID 42180553 · PMC13198236 · Acta pharmaceutica Sinica. B · 2026 · 8 claims · 8 setups

  Has reproduction · 29

  CD74 levels are elevated in plasma of DOX-exposed breast cancer patients and in DOX-challenged mouse hearts and cardiomyocytes

  plasma cd74− cardiomyocytes hearts elisa echocardiography cardiomyocyte

• New perspectives on an old disease: proteomics in cancer research.

  PMID 17472735 · PMC1895992 · Genome biology · 2007 · 8 claims · 8 setups

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  The HUPO Plasma Proteome Project has catalogued over 3,020 non-redundant gene products (>7,000 proteins/isoforms) in human plasma, many originating from tissues/organs rather than being plasma-intrinsic.

  plasma breast tumor genetically shotgun proteomics glycopeptide

• A mouse plasma peptide atlas as a resource for disease proteomics.

  PMID 18522751 · PMC2481425 · Genome biology · 2008 · 8 claims · 6 setups

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  A publicly available, high-quality mouse plasma peptide/protein repository (mouse PeptideAtlas) was built from 568 LC-MS/MS runs on four reference plasma pools.

  plasma peptides fully tissues lc-ms anion database

• Polymorphic repeat in AIB1 does not alter breast cancer risk.

  PMID 11056690 · PMC13920 · Breast cancer research : BCR · 2000 · 7 claims · 3 setups

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  AIB1 alleles with 26 or fewer glutamine repeats are not associated with increased breast cancer risk in the general population

  peripheral cohort plasma pcr nested plasma

• Implementing the reuse of public DIA proteomics datasets: from the PRIDE database to Expression Atlas.

  PMID 35701420 · PMC9197839 · Scientific data · 2022 · 8 claims · 5 setups

  Has reproduction · 50

  An open, containerised, Nextflow-orchestrated reanalysis pipeline combining metadata annotation, SWATH-MS analysis, statistical analysis, and Expression Atlas integration was developed for public DIA data.

  pooled datasets pxd014194 technical swath-ms dda-based differential

• miEAA 2.0: integrating multi-species microRNA enrichment analysis and workflow management systems.

  PMID 32374865 · PMC7319446 · Nucleic acids research · 2020 · 8 claims · 3 setups

  Has reproduction · 61

  miEAA 2.0 supports miRNA/precursor enrichment input from ten frequently investigated organisms, expanding beyond the human-only first release.

  kidney breast blood mirna-seq mirna small

• 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

• Nutritional genomics, polyphenols, diets, and their impact on dietetics.

  PMID 18954579 · PMC2692306 · Journal of the American Dietetic Association · 2008 · 8 claims · 8 setups

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  Nutrient-gene interactions, exemplified by the MTHFR C677T polymorphism, modulate individual metabolic responses (e.g., homocysteine metabolism) and can be offset by adjusting nutrient intake such as folate

  mammary embryonic subjects rats gene histone carcinogen-induced