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).

Publications 1.3k Datasets 392.5k Experiments 8

System / cell line: models ✕ Assay: organoid ✕ Clear

Olfactory epithelium organoid models identify Ddit3 as a potential therapeutic target against inflammation-related olfactory sensory neuronal loss and functional deficit.

PMID 42088417 · PMC13137857 · International journal of biological sciences · 2026 · 8 claims · 8 setups

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Three inflammatory OE organoid models (LPS instillation, TNFα treatment, doxycycline induction) were established and mimic impaired cell proliferation and neuronal genesis seen in olfactory inflammation

organoid organoids ddit3 olfactory organoid bulk aav-shrna
An in vivo and in vitro spatiotemporal profile of human midbrain development.

PMID 41633979 · PMC12877092 · Nature communications · 2026 · 8 claims · 6 setups

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By 22 post-conceptional weeks (PCW), fetal ventral midbrain tissue exhibits structural complexity comparable to adult tissue

fetal ipsc-derived dopamine immunohistochemistry immunofluorescence droplet-based
Patient-derived orthotopic xenograft models recapitulate the peritoneal dissemination of pancreatic cancer and delineate its transcriptional and regulatory programs.

PMID 41673768 · PMC12998334 · Journal of experimental & clinical cancer research : CR · 2026 · 6 claims · 8 setups

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Organoids derived from malignant effusions of PDAC patients reproducibly generate peritoneal metastases after orthotopic implantation into the pancreas of immunodeficient mice

pdac organoids frozen pdox orthotopic single-nucleus single-cell
Bayesian inference of RNA velocity incorporating timepoints, lineage bifurcations, and count data.

PMID 41860983 · PMC13021174 · PLoS computational biology · 2026 · 8 claims · 8 setups

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VeloVAE significantly outperforms previous RNA velocity methods in data fit, accuracy of inferred differentiation directions, and transcription rate estimation.

pancreas developing induced embryo scrna-seq
COVID-19 lung disease shares driver AT2 cytopathic features with Idiopathic pulmonary fibrosis.

PMID 35870428 · PMC9297827 · EBioMedicine · 2022 · 8 claims · 8 setups

Has reproduction · 85

COVID-19 lung disease resembles IPF at a fundamental level, recapitulating ViP/IPF gene expression patterns, an IL15-centric cytokine storm, and AT2 cytopathic changes (injury, DNA damage, transient progenitor-state arrest, senescence/SASP).

lung covid-19 interaction pre-clinical composite single-cell kaplan-meier
Epigenome screening highlights that JMJD6 confers an epigenetic vulnerability and mediates sunitinib sensitivity in renal cell carcinoma.

PMID 33634984 · PMC7882098 · Clinical and translational medicine · 2021 · 8 claims · 8 setups

Has reproduction · 85

JMJD6 is identified as a potent epigenetic vulnerability/fitness gene in RCC by integrating GeCK CRISPR screening data with TCGA-KIRC epigenetic regulator survival analysis

pan-cancer tcga-kirc rcc balb crispr rna-seq mtt
A Plastic EMP1+ to LGR5+ Cell State Conversion as a Bypass to KRASG12D Pharmacologic Inhibition in Metastatic Colorectal Cancer.

PMID 41128661 · PMC12877754 · Cancer discovery · 2026 · 8 claims · 8 setups

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RMC-9945 exerts durable antitumor activity in early-stage liver metastasis but has diminished therapeutic effect in advanced metastatic disease

aktp colorectal drug single-cell rnascope
Characterizing Neutrophil Subtypes in Cancer Using scRNA Sequencing Demonstrates the Importance of IL1β/CXCR2 Axis in Generation of Metastasis-specific Neutrophils.

PMID 38358352 · PMC10903300 · Cancer research communications · 2024 · 8 claims · 7 setups

Has reproduction · 64

Two main neutrophil subtypes exist in primary tumors: an activated subtype sharing transcriptomic signatures with healthy neutrophils, and a tumor-specific subtype.

colorectal sorted integrated neutrophil scrna-seq bulk immunohistochemistry

Experiments

Olfactory epithelium organoid models identify Ddit3 as a potential therapeutic target against inflammation-related olfactory sensory neuronal loss and functional deficit.

An in vivo and in vitro spatiotemporal profile of human midbrain development.

Patient-derived orthotopic xenograft models recapitulate the peritoneal dissemination of pancreatic cancer and delineate its transcriptional and regulatory programs.

Bayesian inference of RNA velocity incorporating timepoints, lineage bifurcations, and count data.

COVID-19 lung disease shares driver AT2 cytopathic features with Idiopathic pulmonary fibrosis.

Epigenome screening highlights that JMJD6 confers an epigenetic vulnerability and mediates sunitinib sensitivity in renal cell carcinoma.

A Plastic EMP1+ to LGR5+ Cell State Conversion as a Bypass to KRASG12D Pharmacologic Inhibition in Metastatic Colorectal Cancer.

Characterizing Neutrophil Subtypes in Cancer Using scRNA Sequencing Demonstrates the Importance of IL1β/CXCR2 Axis in Generation of Metastasis-specific Neutrophils.