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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Has reproduction · 84
Tbx5 drives Aldh1a2 expression to regulate a RA-Hedgehog-Wnt gene regulatory network coordinating cardiopulmonary development.
PMID 34643182 · PMC8555986 · eLife · 2021 · 8 claims · 8 setups
Tbx5 directly maintains Aldh1a2 expression in the foregut lateral plate mesoderm/pSHF via an evolutionarily conserved intronic enhancer.
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Has reproduction · 63
RummaGEO: Automatic mining of human and mouse gene sets from GEO.
PMID 39569206 · PMC11573963 · Patterns (New York, N.Y.) · 2024 · 8 claims · 7 setups
RummaGEO is a gene expression signature search engine built from automatically mined human and mouse RNA-seq perturbation studies in GEO
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Has reproduction · 62
CASK loss of function differentially regulates neuronal maturation and synaptic function in human induced cortical excitatory neurons.
PMID 36262316 · PMC9574418 · iScience · 2022 · 7 claims · 8 setups
CASK LOF increases neuronal complexity (neurite overgrowth) in developing/immature human excitatory neurons
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Has reproduction · 59
CD14(lo)CD301b(+) macrophages gathering as a proangiogenic marker in adipose tissues.
PMID 39645040 · PMC11745947 · Journal of lipid research · 2025 · 8 claims · 8 setups
Cd14−/− mice exhibit a leaner body shape and are protected from HFD-induced obesity compared to WT mice
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Has reproduction · 73
FRMD8 inhibits tumor metastasis in BRCA1-associated TNBC by negatively regulating tmTNF-α.
PMID 40619383 · PMC12229025 · Cellular & molecular biology letters · 2025 · 8 claims · 8 setups
Low FRMD8 expression in BRCA1-mutant breast cancer cells significantly enhances metastatic potential to various organs
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Has reproduction · 50
Vascular adhesion protein-1 defines a unique subpopulation of human hematopoietic stem cells and regulates their proliferation.
PMID 34719737 · PMC8629906 · Cellular and molecular life sciences : CMLS · 2021 · 7 claims · 8 setups
VAP-1 is expressed on a subset of human HSC and on bone marrow vasculature, forming a hematogenic niche.
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Has reproduction · 100
Identification of a PRDM1-regulated T cell network to regulate atherosclerotic plaque inflammation.
PMID 41039608 · PMC12490039 · Genome medicine · 2025 · 6 claims · 7 setups
A distinct gene co-expression module with a prominent T cell signature is enriched in unstable plaques and distinguishes high-risk from low-risk lesions.
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Has reproduction · 100
Charting and probing the activity of ADARs in human development and cell-fate specification.
PMID 39537590 · PMC11561244 · Nature communications · 2024 · 8 claims · 7 setups
RNA editing (AEI) and ADAR enzyme expression follow tissue-specific temporal dynamics across human organs from fetal to adult stages, with ADARB1 dynamics tracking AEI increase in hindbrain development.
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Has reproduction · 84
The seeker R package: simplified fetching and processing of transcriptome data.
PMID 36389425 · PMC9648347 · PeerJ · 2022 · 8 claims · 4 setups
seeker is an R package that wraps existing tools to fetch and process RNA-seq and microarray data, providing a standard interface, simple parallelization, and detailed logging
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Has reproduction · 95
TFAP2 paralogs facilitate chromatin access for MITF at pigmentation and cell proliferation genes.
PMID 35580127 · PMC9159589 · PLoS genetics · 2022 · 8 claims · 8 setups
Pigmentation genes are only expressed in mitfa-expressing zebrafish melanocyte-lineage cells that also express tfap2 paralogs
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Has reproduction · 78
Tumor methionine metabolism drives T-cell exhaustion in hepatocellular carcinoma.
PMID 33674593 · PMC7935900 · Nature communications · 2021 · 8 claims · 8 setups
A transcriptome-derived T-cell exhaustion score (ES) is prognostic for HCC patient survival independent of known clinical/molecular factors
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Full-text index only
One-pot shotgun quantitative mass spectrometry characterization of histones.
PMID 19764812 · PMC2798817 · Journal of proteome research · 2009 · 8 claims · 8 setups
One-pot propionylation and trypsin digestion of unfractionated bulk histones enables quantitative Bottom Up MS characterization of histone PTMs without prior off-line HPLC or SDS-PAGE purification
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Has reproduction · 78
Purinergic adipocyte-macrophage crosstalk promotes degeneration of thermogenic brown adipose tissue.
PMID 41261284 · PMC12715258 · EMBO reports · 2025 · 8 claims · 8 setups
Imbalanced sympathetic/thermogenic activation (via UCP1 deficiency or pharmacological futile thermogenesis) causes BAT inflammation, fibrosis and degeneration
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Has reproduction · 96
In vivo induction of activin A-producing alveolar macrophages supports the progression of lung cell carcinoma.
PMID 36650150 · PMC9845242 · Nature communications · 2023 · 8 claims · 9 setups
Alveolar macrophages support lung cancer cell proliferation and contribute to unfavourable outcomes.
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Has reproduction · 54
Single-Cell Transcriptome Analysis Revealed Heterogeneity and Identified Novel Therapeutic Targets for Breast Cancer Subtypes.
PMID 37190091 · PMC10137100 · Cells · 2023 · 8 claims · 8 setups
Single-cell transcriptomic analysis of EPCAM+Lin- epithelial cells identified unique gene signatures/markers that distinguish ER+, HER2+, ER+HER2+, and TNBC molecular subtypes
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Has reproduction · 83
Mural cell-derived chemokines provide a protective niche to safeguard vascular macrophages and limit chronic inflammation.
PMID 37652021 · PMC10588993 · Immunity · 2023 · 7 claims · 8 setups
Mural cell-derived chemokines CCL2 and MIF preserve vascular macrophage survival and homeostatic function, generating a protective niche.