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).

• Integrated proteomic and transcriptomic profiling of mouse lung development and Nmyc target genes.

  PMID 17486137 · PMC2673710 · Molecular systems biology · 2007 · 8 claims · 7 setups

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  Global MudPIT-based proteomic profiling across six mouse lung developmental time points (E13.5–P56) identifies thousands of proteins and captures developmental/cell-biological expression patterns.

  lung analysis embryonic homologues shotgun microarray k-nearest

• Ligilactobacillus salivarius regulating translocation of core bacteria to enrich mouse intrinsic microbiota of heart and liver in defense of heat stress.

  PMID 40276518 · PMC12018310 · Frontiers in immunology · 2025 · 7 claims · 6 setups

  Has reproduction

  Intrinsic microbiota (chiefly genera Burkholderia and Ralstonia) reside in the heart and liver of SPF mice, with the heart having lower bacterial abundance than the liver

  spf heart ileum metagenomic culturomics 16s

• Of mice and men: comparative proteomics of bronchoalveolar fluid.

  PMID 20032019 · PMC3049194 · The European respiratory journal · 2010 · 8 claims · 8 setups

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  Comparative shotgun proteomics of human and mouse BALF identifies conserved pathways (immunity, defence response, protease activity) alongside species-specific divergent pathways.

  pooled oxidative unpooled balf shotgun functional protein-protein

• Network-assisted protein identification and data interpretation in shotgun proteomics.

  PMID 19690572 · PMC2736651 · Molecular systems biology · 2009 · 7 claims · 7 setups

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  Confidently identified proteins in a sample form tightly connected sub-networks in the protein interaction network, with significantly higher clustering coefficients than random or topology-matched random sub-networks.

  yeast organs mammary organ shotgun clique-enrichment microarray

• The selection of software and database for metagenomics sequence analysis impacts the outcome of microbial profiling and pathogen detection.

  PMID 37027361 · PMC10081788 · PloS one · 2023 · 7 claims · 7 setups

  Has reproduction · 86

  Obtaining an accurate species-level microbial profile using current direct-read metagenomics profiling software is still a challenging task.

  simulated kidney biological extracted shotgun taxonomic pathogen

• 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

• Diagnostic proteomics: serum proteomic patterns for the detection of early stage cancers.

  PMID 15258335 · PMC3851082 · Disease markers · 2003 · 8 claims · 8 setups

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  Proteomic pattern analysis of serum mass spectra, without identifying the underlying proteins, can distinguish cancer patients from healthy controls with high sensitivity and specificity.

  serum frozen ig-depleted clinical seldi-tof maldi lc-ms