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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Full-text index only
Transcription dynamics.
PMID 19782025 · PMC6326382 · Molecular cell · 2009 · 8 claims · 8 setups
Transcription factors locate their sparse specific binding sites via a 3D scanning mechanism combining rapid nuclear diffusion with frequent, very transient (seconds-scale) nonspecific chromatin interactions.
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Has reproduction · 81
Mitochondrial volume fraction and translation duration impact mitochondrial mRNA localization and protein synthesis.
PMID 32762840 · PMC7413667 · eLife · 2020 · 8 claims · 8 setups
mRNA localization to mitochondria is condition-dependent: ATP3 mRNA switches from low (diffuse) association in fermentative conditions to strong mitochondrial association in respiratory conditions, while TIM50 is constitutively localized and TOM22 is diffuse.
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Has reproduction · 89
Competitive binding of STATs to receptor phospho-Tyr motifs accounts for altered cytokine responses.
PMID 33871355 · PMC8099432 · eLife · 2021 · 8 claims · 8 setups
IL-27 induces more sustained and higher-amplitude STAT1 phosphorylation than HypIL-6, while both induce comparable STAT3 phosphorylation
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Has reproduction · 71
Spatial organization shapes the turnover of a bacterial transcriptome.
PMID 27198188 · PMC4874777 · eLife · 2016 · 7 claims · 6 setups
The E. coli transcriptome is spatially organized genome-wide: mRNAs encoding inner-membrane proteins are enriched at the membrane, while mRNAs encoding cytoplasmic, periplasmic and outer-membrane proteins are distributed throughout the cytoplasm.
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Has reproduction · 100
Lipopolysaccharide distinctively alters human microglia transcriptomes to resemble microglia from Alzheimer's disease mouse models.
PMID 36254682 · PMC9612871 · Disease models & mechanisms · 2022 · 8 claims · 8 setups
iPSC-microglia show a shared core transcriptional response to ATPγS and to LPS+IFN-γ, suggesting a convergent mechanism of action
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Has reproduction · 88
Enteroendocrine cell lineages that differentially control feeding and gut motility.
PMID 36810133 · PMC10032656 · eLife · 2023 · 6 claims · 8 setups
Vil1-p2a-FlpO knock-in mice combined with lineage-specific Cre lines enable highly selective intersectional genetic access to major enteroendocrine cell lineages (serotonin/enterochromaffin, GLP1, CCK, somatostatin, GIP) in vivo
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Has reproduction · 79
Epigenetic loss of heterogeneity from low to high grade localized prostate tumours.
PMID 34911933 · PMC8674326 · Nature communications · 2021 · 7 claims · 4 setups
Shared chromatin accessibility features among low-grade (Gleason pattern 3) prostate cancer cells are lost in high-grade (Gleason pattern 4) tumours.
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Has reproduction · 72
Single-cell transcriptomics identifies Keap1-Nrf2 regulated collective invasion in a Drosophila tumor model.
PMID 36321803 · PMC9708074 · eLife · 2022 · 7 claims · 5 setups
Follicle cell-specific Lgl knockdown (Lgl-KD) causes loss of apical-basal polarity and invasive multilayering of the follicular epithelium without long-distance metastasis
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Has reproduction · 59
Single-cell transcriptomics reveals maturation of transplanted stem cell-derived retinal pigment epithelial cells toward native state.
PMID 37339216 · PMC10293804 · Proceedings of the National Academy of Sciences of the United States of America · 2023 · 8 claims · 8 setups
Subretinally transplanted stem cell-derived RPE (ESC- and iPSC-derived) retain RPE identity and survive in vivo for at least 30 days in immunocompetent rabbit eyes
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Has reproduction · 67
Sequencing mRNA from cryo-sliced Drosophila embryos to determine genome-wide spatial patterns of gene expression.
PMID 23951250 · PMC3741199 · PloS one · 2013 · 8 claims · 8 setups
Cryosectioning single blastoderm-stage D. melanogaster embryos along the A–P axis and sequencing mRNA from each slice yields reliable genome-wide spatial expression patterns.
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Has reproduction · 64
Spatial-reprogramming derived GPNMB(+) macrophages interact with COL6A3(+) fibroblasts to enhance vascular fibrosis in glioblastoma.
PMID 41174767 · PMC12577258 · Genome medicine · 2025 · 7 claims · 8 setups
A distinct subset of COL6A3+ tumor-associated fibroblasts (TAFs) with matrix-fibroblast characteristics exists in GBM and is significantly enriched in non-responders to neoadjuvant combination therapy.
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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 · 65
comBO: A combined human bone and lympho-myeloid bone marrow organoid for preclinical modeling of hematopoietic disorders.
PMID 41734765 · PMC7618947 · Cell stem cell · 2026 · 8 claims · 8 setups
comBO is a single iPSC differentiation generating lymphoid, myeloid, vascular, mesenchymal stromal, and functional osteo/adipogenic lineages within one organoid
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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.
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Has reproduction · 91
Hippo signaling differentially regulates distal progenitor subpopulations and their transitional states to construct the mammalian lungs.
PMID 41932885 · PMC13219436 · Nature communications · 2026 · 8 claims · 8 setups
A fraction (15-50%) of the distal SOX9+ tip progenitor subdomain is sufficient to direct lung outgrowth through branch bifurcation, providing a mechanism for lung size control
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Has reproduction
Different approaches to Imaging Mass Cytometry data analysis.
PMID 37092034 · PMC10115470 · Bioinformatics advances · 2023 · 8 claims · 5 setups
Imaging Mass Cytometry (IMC) is a high-multiplexing imaging platform capable of simultaneously detecting and visualizing up to 40 different protein targets in tissue sections.
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Has reproduction · 78
Spns1-dependent endocardial lysosomal function drives valve morphogenesis through Notch1-signaling.
PMID 39720516 · PMC11667069 · iScience · 2024 · 7 claims · 8 setups
Autophagosomal, autolysosomal, and lysosomal vesicles significantly accumulate in the atrioventricular canal (AVC) and outflow tract (OFT)/bulboventricular regions and their developing valves during zebrafish heart development.
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No association of factor XIII Val34Leu polymorphism with primary intracerebral hemorrhage and healthy controls in Korean population.
PMID 11961312 · PMC3054847 · Journal of Korean medical science · 2002 · 5 claims · 4 setups
FXIII Val34Leu polymorphism is absent or rare in both PICH patients and healthy controls among Koreans
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Has reproduction
Pre-implantation embryo metabolism identified by PEMA reveals endogenous lactate insufficiency contributes to pre-implantation development arrest.
PMID 42272466 · PMC13247451 · Fundamental research · 2026 · 7 claims · 7 setups
PEMA, a Ribo-seq-weighted computational framework, characterizes metabolic states of human and mouse pre-implantation embryos more accurately than Compass
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Quality control of highly multiplexed proteomic immunostaining with quantum dots: correcting for crosstalk.
PMID 19963937 · PMC5859565 · Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference · 2009 · 8 claims · 5 setups
Crosstalk between multiplexed QD-antibody reporters occurs and can be on the same order of magnitude as the intended signal, varying by tissue and reagent.