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 13

System / cell line: brain ✕ Assay: subtype ✕ Clear

A unified framework for correcting batch effects and integrating multi-omics data.

PMID 41786846 · PMC13079841 · Scientific reports · 2026 · 7 claims · 6 setups

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MoDAmix, a four-stage domain adaptation framework (pre-training, single-omics adversarial adaptation, multi-omics adversarial alignment, semi-supervised class alignment), unifies batch correction across multiple omics layers.

brain aml same single-cell bulk k-means
Single cell profiling reveals malignant states and immune landscapes in PCNSL and systemic DLBCL.

PMID 42023148 · PMC13097095 · iScience · 2026 · 8 claims · 8 setups

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PCNSL and sDLBCL contain five distinct malignant B-cell subtypes (B0-B4) with discrete differentiation trajectories

pcnsl malignant bulk sdlbcl scrna-seq infercnv cytotrace2
Early onset familial Alzheimer Disease with spastic paraparesis, dysarthria, and seizures and N135S mutation in PSEN1.

PMID 18580586 · PMC2750842 · Alzheimer disease and associated disorders · 2008 · 8 claims · 8 setups

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The PSEN1 N135S mutation causes EOFAD with an atypical phenotype including spastic dysarthria, limb spasticity, and seizures in addition to typical cognitive deficits

archival medulla cortex hippocampus immunohistochemistry thioflavin-s pcr
Single-cell profiling reveals distinct populations of tumor-associated macrophages and metastatic tumor cells in breast cancer brain metastasis.

PMID 42034645 · PMC13247122 · Cell death & disease · 2026 · 8 claims · 8 setups

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Single-cell profiling of BCBM identifies 12 tumor-associated macrophage (TAM) subtypes and 5 metastatic tumor cell (MTC) subtypes with distinct transcriptional profiles

brain breast scrna-seq tams scrna-seq bulk copy
Endothelial Adgrl2 Expression and Alternative Splicing Controls the Cerebrovasculature.

PMID 41876233 · PMC13108381 · The Journal of neuroscience : the official journal of the Society for Neuroscience · 2026 · 8 claims · 5 setups

Has reproduction · 75

Endothelial cell-specific deletion of Adgrl2 impairs cerebrovascular integrity in mice

wild-type cortex brain single-molecule single-cell immunohistochemistry
Single-cell sequencing analysis and machine learning model reveal aberrant TIM-3 expression in microglia during Alzheimer's disease progression.

PMID 41580850 · PMC12911240 · Journal of translational medicine · 2026 · 7 claims · 8 setups

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A TIM-3+ microglial subset drives AD pathogenesis through a dual mechanism: sustained neuroinflammation via TNF-α/NF-κB and IL-6/JAK/STAT3 signaling, and impaired amyloid-β clearance linked to PI3K-AKT and FcγR pathways

brain overlapping transcriptomic patients single-cell bulk kegg
scTWAS: a powerful statistical framework for single-cell transcriptome-wide association studies.

PMID 41820391 · PMC13121454 · Nature communications · 2026 · 8 claims · 5 setups

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scTWAS uses a latent-variable expression-measurement model combined with a moment-based regression to more accurately estimate genetic regulation of gene expression from single-cell data, improving GReX prediction across cell types and datasets

onek1k-derived onek1k-based immune brain simulated two-sample stage
Base barrier cells provide compartmentalization of choroid plexus, brain and CSF.

PMID 41680326 · PMC12971494 · Nature neuroscience · 2026 · 8 claims · 8 setups

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A distinct fibroblast population, ChP base barrier cells (BBCs, formerly type II fibroblasts), exists at the base of the choroid plexus, separate from ChP stromal (type I) fibroblasts

lateral brain mesp1-cre chp scrna-seq multiplex immunofluorescence
Divide and conquer: progress in the molecular stratification of cancer.

PMID 19718393 · PMC2730607 · Yonsei medical journal · 2009 · 8 claims · 8 setups

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Cancers exhibit significant clinical, histopathologic, and molecular heterogeneity between individual patients

breast nsclc colon early-stage immunohistochemistry gene comparative
A cellular epigenetic classification system for glioblastoma.

PMID 41499453 · PMC13128495 · Neuro-oncology · 2026 · 8 claims · 8 setups

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ITHresolveGBM, a hierarchical two-step NMF method, deconvolutes bulk GBM DNA methylation profiles into three non-malignant (immune, glial, neuronal) and three malignant components

gbm healthy pseudo-bulk tcga illumina single-cell deconvolution
Tachykinin signaling defines distinct populations of glia in the enteric nervous system.

PMID 41512855 · PMC12832054 · Neuron · 2026 · 8 claims · 8 setups

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Mucosal and muscularis glia are transcriptionally distinct populations, with mucosal glia resembling microglia and muscularis glia resembling satellite glia/astrocytes

ileum gfp+ intestinal intestine bulk scrna-seq bayesprism
A longitudinal single-cell and spatial multiomic atlas of pediatric high-grade glioma.

PMID 42030938 · PMC13198283 · Cell reports. Medicine · 2026 · 8 claims · 8 setups

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A multiomic (snRNA-seq, snATAC-seq, WGS, CODEX) atlas defines a core set of pHGG neoplastic cell states shared across molecular subtypes

phgg neoplastic fetal single-nucleus whole-genome codex
Holliday junction recognition protein (HJURP) could reflect the clinical outcomes of lung adenocarcinoma patients, and impact the choice of precision therapy.

PMID 39649097 · PMC11621083 · Frontiers in genetics · 2024 · 7 claims · 8 setups

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HJURP is a significant prognostic biomarker in LUAD, with high expression associated with increased risk of overall survival death across four independent cohorts

tcga-luad best brain advanced bulk kaplan-meier pearson

Experiments

A unified framework for correcting batch effects and integrating multi-omics data.

Single cell profiling reveals malignant states and immune landscapes in PCNSL and systemic DLBCL.

Early onset familial Alzheimer Disease with spastic paraparesis, dysarthria, and seizures and N135S mutation in PSEN1.

Single-cell profiling reveals distinct populations of tumor-associated macrophages and metastatic tumor cells in breast cancer brain metastasis.

Endothelial Adgrl2 Expression and Alternative Splicing Controls the Cerebrovasculature.

Single-cell sequencing analysis and machine learning model reveal aberrant TIM-3 expression in microglia during Alzheimer's disease progression.

scTWAS: a powerful statistical framework for single-cell transcriptome-wide association studies.

Base barrier cells provide compartmentalization of choroid plexus, brain and CSF.

Divide and conquer: progress in the molecular stratification of cancer.

A cellular epigenetic classification system for glioblastoma.

Tachykinin signaling defines distinct populations of glia in the enteric nervous system.

A longitudinal single-cell and spatial multiomic atlas of pediatric high-grade glioma.

Holliday junction recognition protein (HJURP) could reflect the clinical outcomes of lung adenocarcinoma patients, and impact the choice of precision therapy.