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 15

System / cell line: enriched ✕ Assay: proliferation ✕ Clear

Metabolic quiescence of naive-like memory T cells precedes and maintains antigen-specific T cell memory.

PMID 41735532 · PMC12956582 · Nature immunology · 2026 · 8 claims · 8 setups

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CD8+ T cells upregulate glycolysis to fuel anabolic needs for proliferation but predominantly use oxidative phosphorylation (OXPHOS) for energy production during the acute phase (days 7-28) after YFV vaccination

peripheral cd8+ ns4b+ antigen-specific flow scrna-seq cite-seq
Airway injury induces alveolar epithelial responses mediated by macrophages.

PMID 41579370 · PMC13090803 · Cell reports · 2026 · 8 claims · 8 setups

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Club cell injury (naphthalene) induces transient proliferation of distal AT2 progenitor cells

lung bronchoalveolar club alveolar-enriched single-cell immunofluorescence flow
NUSAP1 Could be a Potential Target for Preventing NAFLD Progression to Liver Cancer.

PMID 35431924 · PMC9010788 · Frontiers in pharmacology · 2022 · 7 claims · 8 setups

Has reproduction · 45

NUSAP1 is a hub gene linking NAFLD fibrosis progression and NAFLD-associated HCC

liver common hl-7702 c57bl deg kegg rt-pcr
Report on the Molecular Approaches to Osteoarthritis Symposium, Imperial College London, UK, 18-20 April 2004.

PMID 15380034 · PMC546282 · Arthritis research & therapy · 2004 · 8 claims · 8 setups

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OA cartilage and synovium show an 'IL-1 signature' of upregulated inflammatory cytokines/chemokines, with peripheral blood leukocytes possibly activated by trafficking through affected joints

cartilage knee mesenchymal chondrocytes transcriptional clinical overexpression
A P4HA2 hypoxia signature derived from single cell atlas stratifies conserved subtypes with prognostic significance in cervical squamous cell carcinoma.

PMID 41559646 · PMC12910786 · BMC cancer · 2026 · 6 claims · 8 setups

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A tumor cell metaprogram (MP7) identified from scRNA-seq of CSCC shows elevated hypoxia, invasion, metastasis, proliferation, and angiogenesis scores compared to other metaprograms.

cscc tcga-cscc mp7 siha single-cell bulk gene
Exploring the mechanism of action of abemaciclib in breast cancer through circulating chromatin fragments.

PMID 41845059 · PMC13149665 · Communications medicine · 2026 · 8 claims · 5 setups

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cfDNA concentrations are significantly higher in breast cancer patients than healthy donors and decline following abemaciclib therapy

serum t47d edger-normalized cfdna proliferation pathway
Genomic studies of mood disorders -- the brain as a muscle?

PMID 15833130 · PMC1088952 · Genome biology · 2005 · 7 claims · 5 setups

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FGF family members and receptors (notably FGF1, FGF2, FGFR2, FGFR3) are down-regulated in postmortem prefrontal cortex of subjects with major depressive disorder but not in bipolar or control subjects.

postmortem brain rodent hippocampus affymetrix quantification gene
Gene Dosage Analysis on the Single-Cell Transcriptomes Linking Cotranslational Protein Targeting to Metastatic Triple-Negative Breast Cancer.

PMID 34577617 · PMC8472593 · Pharmaceuticals (Basel, Switzerland) · 2021 · 8 claims · 7 setups

Has reproduction · 53

A computational framework mapping single-cell Z-score expression to matched patient-level CNV data can identify recurrent, cross-cell-type copy-number-driven expression (dosage) events.

tnbc independent cng-up breast single-cell gene network
Multi-scale integrative analyses identify THBS2(+) cancer-associated fibroblasts as a key orchestrator promoting aggressiveness in early-stage lung adenocarcinoma.

PMID 35547750 · PMC9065207 · Theranostics · 2022 · 8 claims · 8 setups

Has reproduction · 68

THBS2 is a tumor size-independent biomarker that robustly predicts post-surgical OS and RFS in multiple independent early-stage LUAD cohorts

tcga paired thbs2+ scrna-seq wgcna scrna-seq gsea
The rates of adult neurogenesis and oligodendrogenesis are linked to cell cycle regulation through p27-dependent gene repression of SOX2.

PMID 36627412 · PMC9832098 · Cellular and molecular life sciences : CMLS · 2023 · 8 claims · 8 setups

Has reproduction · 59

p27 restricts residual CDK activity after mitogen withdrawal to antagonize cell cycling, but is not essential for cell cycle exit per se

sez-derived computational nsc npc atac-seq bulk lisa
Integrative analysis of RUNX1 downstream pathways and target genes.

PMID 18671852 · PMC2529319 · BMC genomics · 2008 · 7 claims · 8 setups

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Integrating gene expression profiles from three independent RUNX1 perturbation platforms (FPD-AML patient cell lines, RUNX1/CBFβ overexpression in HeLa cells, Runx1 knockout mouse embryos) identifies RUNX1-regulated genes and downstream pathways

lymphoblastic hela runx1 aml cdna microarray affymetrix
Heritable ER stress impairs mitochondrial metabolism and maintenance of hematopoietic stem cells after low-dose irradiation.

PMID 41675062 · PMC12886522 · iScience · 2026 · 8 claims · 8 setups

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Proliferating 20 mGy-irradiated HSC exhibit oxidative stress and altered metabolism with increased mitochondrial ROS and mitochondrial Ca2+ overload compared to non-irradiated HSC

cd45.1 hsc hspc-enriched bone flow carbonylation
Increased IL4I1 expression predicts poor survival and modulates the immune microenvironment in acute myeloid leukemia.

PMID 41680858 · PMC12910993 · Journal of translational medicine · 2026 · 8 claims · 8 setups

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IL4I1 mRNA expression is significantly elevated in AML compared to normal controls

tcga-laml bone thp-1-derived thp-1 bulk kaplan-meier deg
A platelet-related signature for predicting the prognosis and immunotherapy benefit in bladder cancer based on machine learning combinations.

PMID 39280688 · PMC11399026 · Translational andrology and urology · 2024 · 8 claims · 8 setups

Has reproduction · 51

An Enet (alpha=0.4) machine-learning algorithm built from 10 platelet-related genes yields the optimal platelet-related signature (PRS) for bladder cancer prognosis, with average C-index 0.73

bladder tcga bulk univariate integrative
CLK1 Promotes Myeloid-Derived Suppressor Cell Trafficking and Reprograms the Tumor Microenvironment by Activating Hippo/YAP Signaling in Colorectal Cancer.

PMID 41686262 · PMC13136879 · Cancer immunology research · 2026 · 8 claims · 8 setups

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CLK1 is markedly upregulated in immune-cold colorectal tumors and correlates with increased MDSC infiltration and CD8+ T-cell exclusion

colorectal tcga-coad ct26 tumor scrna-seq bulk multiplex

Experiments

Metabolic quiescence of naive-like memory T cells precedes and maintains antigen-specific T cell memory.

Airway injury induces alveolar epithelial responses mediated by macrophages.

NUSAP1 Could be a Potential Target for Preventing NAFLD Progression to Liver Cancer.

Report on the Molecular Approaches to Osteoarthritis Symposium, Imperial College London, UK, 18-20 April 2004.

A P4HA2 hypoxia signature derived from single cell atlas stratifies conserved subtypes with prognostic significance in cervical squamous cell carcinoma.

Exploring the mechanism of action of abemaciclib in breast cancer through circulating chromatin fragments.

Genomic studies of mood disorders -- the brain as a muscle?

Gene Dosage Analysis on the Single-Cell Transcriptomes Linking Cotranslational Protein Targeting to Metastatic Triple-Negative Breast Cancer.

Multi-scale integrative analyses identify THBS2(+) cancer-associated fibroblasts as a key orchestrator promoting aggressiveness in early-stage lung adenocarcinoma.

The rates of adult neurogenesis and oligodendrogenesis are linked to cell cycle regulation through p27-dependent gene repression of SOX2.

Integrative analysis of RUNX1 downstream pathways and target genes.

Heritable ER stress impairs mitochondrial metabolism and maintenance of hematopoietic stem cells after low-dose irradiation.

Increased IL4I1 expression predicts poor survival and modulates the immune microenvironment in acute myeloid leukemia.

A platelet-related signature for predicting the prognosis and immunotherapy benefit in bladder cancer based on machine learning combinations.

CLK1 Promotes Myeloid-Derived Suppressor Cell Trafficking and Reprograms the Tumor Microenvironment by Activating Hippo/YAP Signaling in Colorectal Cancer.