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 10

System / cell line: validation ✕ Assay: image ✕ Clear

Boosting accuracy of automated classification of fluorescence microscope images for location proteomics.

PMID 15207009 · PMC449699 · BMC bioinformatics · 2004 · 8 claims · 8 setups

Full-text index only

New classifiers (SVMs, ensembles) and new wavelet-derived (Gabor, Daubechies) features improve recognition of protein subcellular location patterns over the previous neural network approach

hela automated stepwise training-set-size
Smart spatial omics (S2-omics) optimizes region of interest selection to capture molecular heterogeneity in diverse tissues.

PMID 41298871 · PMC12662399 · Nature cell biology · 2025 · 7 claims · 6 setups

Has reproduction · 100

S2-omics is an end-to-end workflow that automatically selects ROIs from H&E histology images to maximize molecular information content for spatial omics profiling.

gastric colorectal additional breast xenium visium histology
Synaptic proteins linked to HIV-1 infection and immunoproteasome induction: proteomic analysis of human synaptosomes.

PMID 19693676 · PMC2824116 · Journal of neuroimmune pharmacology : the official journal of the Society on NeuroImmune Pharmacology · 2010 · 8 claims · 7 setups

Full-text index only

Proteomic screening of human synaptosomes identifies a set of proteins differentially expressed in HIV/AIDS brain

frontal excised synaptosome paraffin-embedded 2d-page maldi-tof western
MatchMiner: a tool for batch navigation among gene and gene product identifiers.

PMID 12702208 · PMC154578 · Genome biology · 2003 · 8 claims · 3 setups

Full-text index only

MatchMiner's LookUp function automates batch translation of an input list of gene identifiers into a matching list of a different identifier type.

nci-60 fish-mapped random batch fish-mapped cross-validation
LOCATE: a mammalian protein subcellular localization database.

PMID 17986452 · PMC2238969 · Nucleic acids research · 2008 · 8 claims · 6 setups

Full-text index only

LOCATE is a curated, web-accessible database housing membrane organization and subcellular localization data for mouse and human proteins.

hela proteome indirect automated computational
Potential biomarkers of human salivary function: a modified proteomic approach.

PMID 18804197 · PMC2633945 · Archives of oral biology · 2009 · 6 claims · 6 setups

Full-text index only

Two SDS-PAGE bands, identified by MS-MS as statherin and a truncated (N-terminal 8-aa-missing) cystatin S, are the strongest and most consistent predictors of HAA/LAA group membership and clinical/microbiological outcomes

resting pooled saliva quantified preparative sds-page western
Artificial Intelligence Meets Whole Slide Images: Deep Learning Model Shapes an Immune-Hot Tumor and Guides Precision Therapy in Bladder Cancer.

PMID 36245985 · PMC9553530 · Journal of oncology · 2022 · 8 claims · 8 setups

Has reproduction

A three-class WSI cluster (C0/C1/C2) derived via mini batch K-means clustering on Inception V3-extracted image features is significantly associated with overall survival and is an independent prognostic predictor in BLCA.

tcga-blca gse32894 deep transfer machine
TNF-⍺-mediated myeloid-instructed CD14(+)CD4(+) T cells are associated with poor survival in lung adenocarcinoma.

PMID 41666923 · PMC12923953 · Cell reports. Medicine · 2026 · 8 claims · 5 setups

Full-text index only

Tumors stratify into lymphoid-enriched, myeloid-enriched, and mixed immune-infiltrated subtypes independent of oncogenic driver status

resected luad cd4+ multiplex spatial image
Single-cell dissection of chronic lung allograft dysfunction reveals convergent and distinct fibrotic mechanisms.

PMID 41122970 · PMC12581678 · JCI insight · 2025 · 8 claims · 8 setups

Has reproduction · 75

CLAD exhibits specific cellular subsets including Fibro.AT2 cells, exhausted CD8+ T cells, and superactivated macrophages

clad covid-19 million formalin-fixed single-cell single-nucleus integrated
A global proteomics approach identifies novel phosphorylated signaling proteins in GPVI-activated platelets: involvement of G6f, a novel platelet Grb2-binding membrane adapter.

PMID 16941570 · PMC1869047 · Proteomics · 2006 · 8 claims · 7 setups

Full-text index only

96 proteins undergo post-translational modification (phosphorylation) in response to CRP stimulation of human platelets, including 11 proteins not previously identified in platelets

washed 293t g6f-transfected hek phosphotyrosine 2-de western

Experiments

Boosting accuracy of automated classification of fluorescence microscope images for location proteomics.

Smart spatial omics (S2-omics) optimizes region of interest selection to capture molecular heterogeneity in diverse tissues.

Synaptic proteins linked to HIV-1 infection and immunoproteasome induction: proteomic analysis of human synaptosomes.

MatchMiner: a tool for batch navigation among gene and gene product identifiers.

LOCATE: a mammalian protein subcellular localization database.

Potential biomarkers of human salivary function: a modified proteomic approach.

Artificial Intelligence Meets Whole Slide Images: Deep Learning Model Shapes an Immune-Hot Tumor and Guides Precision Therapy in Bladder Cancer.

TNF-⍺-mediated myeloid-instructed CD14(+)CD4(+) T cells are associated with poor survival in lung adenocarcinoma.

Single-cell dissection of chronic lung allograft dysfunction reveals convergent and distinct fibrotic mechanisms.

A global proteomics approach identifies novel phosphorylated signaling proteins in GPVI-activated platelets: involvement of G6f, a novel platelet Grb2-binding membrane adapter.