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).
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Expression Atlas in 2026: enabling FAIR and open expression data through community collaboration and integration.
PMID 41370097 · PMC12807774 · Nucleic acids research · 2026 · 8 claims · 8 setups
Expression Atlas has expanded to >4500 studies from 67 species, with increased proteomics coverage and updated GTEx tissue profiles
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Has reproduction · 66
Liver-specific paraoxonase-1 alleviates regulatory T cell-driven immunosuppression via metabolic reprogramming in hepatocellular carcinoma.
PMID 41387425 · PMC12701056 · Nature communications · 2025 · 8 claims · 8 setups
PON1 expression is downregulated in HCC tumor tissue and low PON1 is associated with worse prognosis
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Temporal multiomics gene expression data across human embryonic stem cell-derived polyhormonal cell differentiation.
PMID 41545424 · PMC12920657 · Scientific data · 2026 · 8 claims · 8 setups
Generated a high-resolution, time-resolved multi-omics dataset (RNA-seq, ribosome profiling, and quantitative proteomics) tracking mRNA, translation, and protein dynamics across hESC differentiation into definitive endoderm and polyhormonal pancreatic cells
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Has reproduction · 50
Implementing the reuse of public DIA proteomics datasets: from the PRIDE database to Expression Atlas.
PMID 35701420 · PMC9197839 · Scientific data · 2022 · 8 claims · 8 setups
Introduced an open, containerised, Nextflow-orchestrated reanalysis pipeline for public SWATH-MS/DIA datasets covering metadata curation, data analysis, statistics, and Expression Atlas integration.
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Gpc3 selectively suppresses subcutaneous adipogenesis in diet-induced obesity.
PMID 41779769 · PMC12978566 · PLoS biology · 2026 · 8 claims · 8 setups
Gpc3 is an obesity-responsive gene exhibiting reciprocal expression patterns between subcutaneous and visceral adipose depots in mice and humans
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Long-read sequencing and proteomics reveal blood transcriptome and protein expression profiles in multiple primary lung cancers.
PMID 41761147 · PMC13059216 · BMC cancer · 2026 · 6 claims · 7 setups
MPC patients exhibit significantly increased blood transcript complexity, with higher numbers of DEGs, DETs, and DTU events than OPLC and HC groups
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Frag'n'Flow: automated workflow for large-scale quantitative proteomics in high performance computing environments.
PMID 41486154 · PMC12828970 · BMC bioinformatics · 2026 · 8 claims · 8 setups
Frag'n'Flow is a Nextflow-based pipeline that encapsulates FragPipe, automating manifest/workflow generation, tool dependency management, and downstream analysis for HPC/cloud/cluster environments.
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Omics-aided design genome editing strategy for challenging human immortalized cell models.
PMID 41678468 · PMC12900285 · PloS one · 2026 · 6 claims · 4 setups
Omics profiling identifies bottlenecks associated with poor precise KI efficiency in hard-to-engineer cells
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The Aging Microenvironment Is a Determinant of Immune Exclusion and Metastatic Fate in Pancreatic Cancer.
PMID 41202211 · PMC12768431 · Cancer research · 2026 · 8 claims · 8 setups
Organismal aging accelerates PDAC progression and metastatic burden in an age-relevant syngeneic orthotopic mouse model