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 4

System / cell line: reference ✕ Assay: train ✕ Clear

Multi-omics feature engineering driven by biomedical foundation models improves drug response prediction for inflammatory bowel disease patients.

PMID 41844950 · PMC13129071 · Scientific reports · 2026 · 8 claims · 7 setups

Full-text index only

FM (MAMMAL)-derived drug-target binding affinity (BA) inference can be used to rank/select biologically relevant protein targets and their associated genes/SNPs for a drug of interest without knowledge of protein structure or active sites

reference top surgical snp-mutated inference gene genomic
Prediction of myeloid malignant cells in Fanconi anemia using machine learning.

PMID 41557613 · PMC12818649 · PloS one · 2026 · 6 claims · 7 setups

Full-text index only

A DNN classifier trained on AML scRNA-seq data accurately predicts AML-like transcriptional profiles at single-cell resolution

bone predicted-aml healthy scrna-seq reference-based stemnet
miRge 2.0 for comprehensive analysis of microRNA sequencing data.

PMID 30153801 · PMC6112139 · BMC bioinformatics · 2018 · 8 claims · 6 setups

Has reproduction · 89

An SVM-based novel miRNA detection model achieves an average MCC of 0.939 across 32 human cell datasets and outperforms miRDeep2 and miRAnalyzer on phylogenetic conservation of predicted miRNAs

unmapped pooled colon adipose small novel a-to-i
Integration of multi-omics and machine learning strategies identifies immune related candidate biomarkers in inflammation-associated hypertrophic cardiomyopathy.

PMID 41080564 · PMC12510942 · Frontiers in immunology · 2025 · 8 claims · 8 setups

Has reproduction · 85

Seven key immune-related genes (RNF165, SNCA, SRGN, MARCO, STEAP4, SIGLEC9, TKT) are associated with HCM by intersecting DEGs with MR-identified eQTLs

left eqtl degs merged bulk two-sample functional

Experiments

Multi-omics feature engineering driven by biomedical foundation models improves drug response prediction for inflammatory bowel disease patients.

Prediction of myeloid malignant cells in Fanconi anemia using machine learning.

miRge 2.0 for comprehensive analysis of microRNA sequencing data.

Integration of multi-omics and machine learning strategies identifies immune related candidate biomarkers in inflammation-associated hypertrophic cardiomyopathy.