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).

• Mass spectrometry for proteomics.

  PMID 18718552 · PMC2642903 · Current opinion in chemical biology · 2008 · 8 claims · 8 setups

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  New instrumentation (Orbitrap) and new fragmentation methods (ETD) have enabled exciting new areas of proteomic application

  digested intact yeast large shotgun top-down quantitative

• Proteomics technologies and challenges.

  PMID 17893073 · PMC5054093 · Genomics, proteomics & bioinformatics · 2007 · 8 claims · 8 setups

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  The proteome reflects the dynamic state of a cell, tissue, or organism more accurately than the genome, so proteomics is expected to yield better disease markers for diagnosis and therapy monitoring.

  serum myeloid formalin-fixed general maldi-tof phage maldi

• Mass spectrometry-based biomarker discovery: toward a global proteome index of individuality.

  PMID 20636062 · PMC3140421 · Annual review of analytical chemistry (Palo Alto, Calif.) · 2009 · 8 claims · 4 setups

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  Very few large-scale longitudinal MS-based proteomics studies have been performed to establish analytical variability relative to true biological variability.

  normal plasma longitudinal bottom-up top-down

• Omics Playground: a comprehensive self-service platform for visualization, analytics and exploration of Big Omics Data.

  PMID 33575569 · PMC7671354 · NAR genomics and bioinformatics · 2020 · 8 claims · 5 setups

  Has reproduction · 61

  Omics Playground is a user-friendly, interactive self-service bioinformatics platform for in-depth analysis, visualization and interpretation of transcriptomics and proteomics data without coding

  transcriptomics contrast rna-seq lc-ms single-cell

• Integrated analysis of post-transcriptional regulations reveals insights into acute myeloid leukemia.

  PMID 41407883 · PMC12712020 · Communications biology · 2025 · 8 claims · 8 setups

  Has reproduction · 32

  PTRs are highly conserved across 44 AML samples and 30 different human tissues, indicating broadly conserved post-transcriptional mechanisms

  blasts aml impaired top integrative proteomics sequencing

• KEGG spider: interpretation of genomics data in the context of the global gene metabolic network.

  PMID 19094223 · PMC2646283 · Genome biology · 2008 · 8 claims · 8 setups

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  KEGG spider, using a global 'pathway-free' metabolic network framework, provides deeper insight into metabolism variations than existing enrichment-based methods.

  diffuse-type liver renal anaplastic differential proteomic proteomics

• ZAP targets aberrant mRNA transcripts encoding proteins with defective signal peptides for degradation.

  PMID 41820617 · PMC13084044 · The EMBO journal · 2026 · 8 claims · 7 setups

  Has reproduction · 50

  ZAP (ZC3HAV1/PARP13) is a key component of the RAPP quality control pathway

  k562 zap-s rt-qpcr western immunofluorescence