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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Onto-Tools: new additions and improvements in 2006.
PMID 17584796 · PMC1933142 · Nucleic acids research · 2007 · 8 claims · 3 setups
OE2GO enables functional profiling for organisms lacking public-domain annotations by allowing users to supply custom GO-format annotation files and OBO-format ontology files
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A big circuit model.
PMID 12940284 · PMC1316925 · Environmental health perspectives · 2003 · 8 claims · 8 setups
In early prostate carcinogenesis, apoptosis signals are primarily suppressed rather than growth rate being increased.
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Response rate of fibrosarcoma cells to cytotoxic drugs on the expression level correlates to the therapeutic response rate of fibrosarcomas and is mediated by regulation of apoptotic pathways.
PMID 16001973 · PMC1183194 · BMC cancer · 2005 · 6 claims · 5 setups
The number of significantly differentially expressed probesets induced by each drug correlates with the known clinical therapeutic response rate of that drug in fibrosarcoma
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Has reproduction · 100
Generic injuries are sufficient to induce ectopic Wnt organizers in Hydra.
PMID 33779545 · PMC8049744 · eLife · 2021 · 8 claims · 6 setups
The initial transcriptional and chromatin response to mid-gastric bisection is identical at oral and aboral wounds at 3 hpa and only diverges by 8 hpa.
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The molecular characterization and clinical management of multiple myeloma in the post-genome era.
PMID 19657360 · PMC3686133 · Leukemia · 2009 · 8 claims · 8 setups
GEP identifies distinct molecular subgroups of MM associated with differing clinical features and survival outcomes
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Has reproduction · 71
Transcriptome and machine learning analysis of the impact of COVID-19 on mitochondria and multiorgan damage.
PMID 38295140 · PMC10830027 · PloS one · 2024 · 6 claims · 7 setups
Potential cardiac, hepatic, and renal impairments in COVID-19 are associated with ACE2, inflammatory cytokine storms, and mitochondrial pathways.
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Has reproduction · 73
A gene signature related to programmed cell death to predict immunotherapy response and prognosis in colon adenocarcinoma.
PMID 39950044 · PMC11823652 · PeerJ · 2025 · 8 claims · 8 setups
COAD patients can be divided into two molecular subtypes (S1, S2) based on 21 prognostic PCD-related genes, with S1 showing worse prognosis and immunosuppressive microenvironment, S2 showing better prognosis and stronger anti-tumor immunity
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Has reproduction · 98
Systems spatiotemporal dynamics of traumatic brain injury at single-cell resolution reveals humanin as a therapeutic target.
PMID 35951114 · PMC9372016 · Cellular and molecular life sciences : CMLS · 2022 · 8 claims · 8 setups
Coordinated gene expression patterns across cell types are disrupted and re-organized by mTBI with distinct regional, cellular, and temporal (24-h vs 7-day) specificity.
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Involvement of HTLV-I Tax and CREB in aneuploidy: a bioinformatics approach.
PMID 16822311 · PMC1553470 · Retrovirology · 2006 · 8 claims · 6 setups
CTLL cells stably expressing wild-type Tax (CTLL/WT) show higher aneuploidy than a CREB-transactivation-deficient Tax clone (CTLL/703)
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PRIDE: a public repository of protein and peptide identifications for the proteomics community.
PMID 16381953 · PMC1347500 · Nucleic acids research · 2006 · 8 claims · 6 setups
PRIDE is a PSI-compliant public repository for protein and peptide identifications, associated post-translational modifications, and supporting mass spectra from the scientific literature.
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Has reproduction · 55
Single cell analysis reveals the roles and regulatory mechanisms of type-I interferons in Parkinson's disease.
PMID 38566100 · PMC10985960 · Cell communication and signaling : CCS · 2024 · 8 claims · 8 setups
Microglia, endothelial cells, and pericytes exhibit the highest type I interferon (IFN-I) activity among PD midbrain cell types, with microglia showing markedly higher activity in PD.
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Has reproduction · 73
Expression of neurofibromin 1 in colorectal cancer and cetuximab resistance.
PMID 34779495 · PMC8611403 · Oncology reports · 2022 · 8 claims · 8 setups
NF1 is highly expressed in cetuximab-sensitive CRC cell lines and minimally expressed in cetuximab-resistant ones
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Phosphoproteomic analysis of human embryonic stem cells.
PMID 19664994 · PMC2726933 · Cell stem cell · 2009 · 8 claims · 6 setups
MDLC-MS/MS phosphoproteomics identified 2546 phosphorylation sites on 1602 phosphoproteins in undifferentiated hESCs and their differentiated derivatives
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Mathematical models in mammalian cell biology.
PMID 18638360 · PMC2530880 · Genome biology · 2008 · 8 claims · 8 setups
A point mutation in the circadian Per2 gene causes familial advanced sleep phase syndrome (FASPS) via a phosphorylation defect that alters PER2 stability and subcellular localization.