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 9

System / cell line: prognostic ✕ Assay: machine ✕ Clear

Machine learning-driven transcriptomic and single-cell profiling of programed cell death patterns in colon cancer.

PMID 41854308 · PMC13009810 · Science progress · 2026 · 8 claims · 8 setups

Full-text index only

Disulfidptosis and anoikis are consistently identified as the most robust prognostic PCD patterns in colon cancer across six independent machine learning algorithms

colon coad ssgsea-based machine differential
Machine learning-based identification of biomarkers and drugs in immunologically cold and hot pancreatic adenocarcinomas.

PMID 39152432 · PMC11328457 · Journal of translational medicine · 2024 · 7 claims · 8 setups

Has reproduction · 42

PAAD tumors can be consensus-clustered into immunologically hot and cold subtypes based on CIBERSORT-derived immune cell fractions, with significantly different survival outcomes.

paad degs bulk consensus tumor
Spatial-reprogramming derived GPNMB(+) macrophages interact with COL6A3(+) fibroblasts to enhance vascular fibrosis in glioblastoma.

PMID 41174767 · PMC12577258 · Genome medicine · 2025 · 8 claims · 8 setups

Has reproduction · 64

COL6A3+ TAFs are a distinct matrix-fibroblast subset significantly enriched in non-responders to neoadjuvant antiangiogenic+ICB combination therapy

gbm ffpe col6a3+ thp-1 scrna-seq spatial multiplex
Clustering and machine learning-based integration identify cancer associated fibroblasts genes' signature in head and neck squamous cell carcinoma.

PMID 37065499 · PMC10098459 · Frontiers in genetics · 2023 · 8 claims · 8 setups

Has reproduction · 63

Clustering of 31 CAFs genes across 868 HNSCC samples identifies two distinct molecular patterns (C1, C2) with different survival outcomes

hnscc combined gse164690 tcga-hnsc ssgsea unsupervised immune
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
Endothelial-derived PANoptosis factor IL33 is a potential immunotherapy in breast cancer.

PMID 42095097 · PMC13141053 · iScience · 2026 · 8 claims · 8 setups

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NMF clustering of PANoptosis-related gene expression stratifies breast cancer patients into three distinct molecular clusters (C1, C2, C3)

tcga-brca meta-cohort training breast nmf univariate gsva
Integrated Single Cell Spatial Analysis Reveals Dysregulated Basal Progenitor Cells in Ulcerative Colitis Pathogenesis: A Multi Omics Study.

PMID 41542331 · PMC12802566 · Health science reports · 2026 · 7 claims · 8 setups

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BPC differentiation is significantly altered in UC, driven by a FABP1-led functional gene matrix

colorectal colon patients bulk single-cell spatial bulk
Glutamine-mediated crosstalk between M2 macrophages and tumor cells via the SLC38A5/FOXM1/CNIH4 axis promotes oral squamous cell carcinoma progression.

PMID 41715179 · PMC13020291 · Journal of translational medicine · 2026 · 8 claims · 8 setups

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Glutamine secretion from M2 macrophages to tumor cells via SLC38A5 is the core mCCC pathway upregulated in metastatic OSCC lesions compared to primary lesions.

oscc epithelial tcga-oscc hsc-3 scrna-seq hdwgcna bulk
A cross-scale multimodal framework identifies clinically actionable immunotherapy biomarkers in melanoma through bulk to single-cell and spatial transcriptomics integration.

PMID 41840725 · PMC13104449 · Human genomics · 2026 · 7 claims · 8 setups

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Multi-omics consensus clustering (MOVICS) identifies two distinct SKCM molecular subtypes, CS1 and CS2

tcga-skcm meta-geo gtex melanoma multi-omics bulk transcriptome-wide

Experiments

Machine learning-driven transcriptomic and single-cell profiling of programed cell death patterns in colon cancer.

Machine learning-based identification of biomarkers and drugs in immunologically cold and hot pancreatic adenocarcinomas.

Spatial-reprogramming derived GPNMB(+) macrophages interact with COL6A3(+) fibroblasts to enhance vascular fibrosis in glioblastoma.

Clustering and machine learning-based integration identify cancer associated fibroblasts genes' signature in head and neck squamous cell carcinoma.

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

Endothelial-derived PANoptosis factor IL33 is a potential immunotherapy in breast cancer.

Integrated Single Cell Spatial Analysis Reveals Dysregulated Basal Progenitor Cells in Ulcerative Colitis Pathogenesis: A Multi Omics Study.

Glutamine-mediated crosstalk between M2 macrophages and tumor cells via the SLC38A5/FOXM1/CNIH4 axis promotes oral squamous cell carcinoma progression.

A cross-scale multimodal framework identifies clinically actionable immunotherapy biomarkers in melanoma through bulk to single-cell and spatial transcriptomics integration.