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: drug ✕ Assay: stratified ✕ Clear

Enhancing chemotherapy response prediction via matched colorectal tumor-organoid gene expression analysis and network-based biomarker selection.

PMID 39754813 · PMC11754497 · Translational oncology · 2025 · 6 claims · 8 setups

Has reproduction · 78

A consensus WGCNA approach combining matched tumor-organoid and independent organoid drug-response expression data identifies gene modules and hub genes predictive of 5-FU chemotherapy response

colorectal matched combined expression microarray rna-seq consensus
Structure of protein interaction networks and their implications on drug design.

PMID 19876376 · PMC2760708 · PLoS computational biology · 2009 · 8 claims · 6 setups

Full-text index only

Budding yeast and human PINs are scale-rich and configured as highly optimized tolerance (HOT) networks similar to Internet router-level topology, rather than scale-free networks formed by preferential attachment.

budding pin yeast protein-protein graph-theoretic gene
Novel heteroduplex method using small cytology specimens with a remarkably high success rate for analysing EGFR gene mutations with a significant correlation to gefitinib efficacy in non-small-cell lung cancer.

PMID 17047654 · PMC2360725 · British journal of cancer · 2006 · 7 claims · 5 setups

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LH-MSA enables EGFR mutation analysis using small numbers of cancer cells from cytology specimens with a remarkably high success rate

cytology excised nsclc gefitinib-treated lh-mobility pcr clinical
Dissection of multiple sclerosis genetics identifies B and CD4+ T cells as driver cell subsets.

PMID 35672799 · PMC9175345 · Genome biology · 2022 · 8 claims · 7 setups

Has reproduction

CD4+ T cells and B cells independently and significantly contribute to MS GWAS heritability enrichment, distinct from a merely shared immune regulatory landscape.

flow-sorted cd4+ hematopoietic gwas bulk atac-seq stratified
Therapy effect of either paclitaxel or cyclophosphamide combination treatment in patients with epithelial ovarian cancer and relation to TP53 gene status.

PMID 9703286 · PMC2063030 · British journal of cancer · 1998 · 6 claims · 4 setups

Full-text index only

Paclitaxel/cisplatin therapy produces a higher positive response rate than cyclophosphamide/cisplatin therapy in advanced ovarian cancer

patients frozen genomic clinically randomized rt-pcr temporal
Ordered subsets linkage analysis of antisocial behavior in substance use disorder among participants in the Collaborative Study on the Genetics of Alcoholism.

PMID 18496835 · PMC4248599 · American journal of medical genetics. Part B, Neuropsychiatric genetics : the official publication of the International Society of Psychiatric Genetics · 2008 · 8 claims · 5 setups

Full-text index only

Prior to OSA, modest evidence for linkage to SUD was found on chromosomes 8 and 17.

extended coga genome-wide ordered genotyping
Molecular and Clinical Relevance of ZBTB38 Expression Levels in Prostate Cancer.

PMID 32365491 · PMC7281456 · Cancers · 2020 · 8 claims · 8 setups

Has reproduction · 35

ZBTB38 mRNA expression is significantly lower in prostate cancer than in normal/benign prostate tissue, and further reduced in metastatic versus localised tumours

localised tcga taylor metastatic microarray rna-sequencing clinico-pathological
Construction and Validation of an Immune Infiltration-Related Gene Signature for the Prediction of Prognosis and Therapeutic Response in Breast Cancer.

PMID 33986754 · PMC8110914 · Frontiers in immunology · 2021 · 7 claims · 8 setups

Has reproduction · 51

A higher immune infiltration-related risk score (IRS) indicates worse prognosis and lower sensitivity to immunotherapy in breast cancer patients

tcga candidate cancer univariate weighted lasso
Deubiquitination enzyme USP35 negatively regulates MAVS signaling to inhibit anti-tumor immunity.

PMID 40016186 · PMC11868397 · Cell death & disease · 2025 · 8 claims · 8 setups

Has reproduction · 81

USP35 interacts with MAVS and removes its K63-linked polyubiquitin chains, inhibiting viral-induced MAVS-TBK1-IRF3 activation and downstream inflammatory gene expression

tumor melanoma tcga-skcm hek293t bioinformatics geo kaplan-meier
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
Extension of type 2 diabetes genome-wide association scan results in the diabetes prevention program.

PMID 18544707 · PMC2518503 · Diabetes · 2008 · 8 claims · 4 setups

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None of the selected GWAS-identified SNPs individually were associated with increased diabetes incidence in the DPP cohort

dpp snp cox oral
The pharmacogenomics of membrane transporters project: research at the interface of genomics and transporter pharmacology.

PMID 19940846 · PMC2923224 · Clinical pharmacology and therapeutics · 2010 · 8 claims · 8 setups

Full-text index only

PMT identified sequence variants in 129 membrane transporter genes in the SLC and ABC superfamilies, discovering over 3100 SNPs

sophie mammalian xenopus lymphoblastoid resequencing cellular heterologous
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

Full-text index only

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

Enhancing chemotherapy response prediction via matched colorectal tumor-organoid gene expression analysis and network-based biomarker selection.

Structure of protein interaction networks and their implications on drug design.

Novel heteroduplex method using small cytology specimens with a remarkably high success rate for analysing EGFR gene mutations with a significant correlation to gefitinib efficacy in non-small-cell lung cancer.

Dissection of multiple sclerosis genetics identifies B and CD4+ T cells as driver cell subsets.

Therapy effect of either paclitaxel or cyclophosphamide combination treatment in patients with epithelial ovarian cancer and relation to TP53 gene status.

Ordered subsets linkage analysis of antisocial behavior in substance use disorder among participants in the Collaborative Study on the Genetics of Alcoholism.

Molecular and Clinical Relevance of ZBTB38 Expression Levels in Prostate Cancer.

Construction and Validation of an Immune Infiltration-Related Gene Signature for the Prediction of Prognosis and Therapeutic Response in Breast Cancer.

Deubiquitination enzyme USP35 negatively regulates MAVS signaling to inhibit anti-tumor immunity.

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

Extension of type 2 diabetes genome-wide association scan results in the diabetes prevention program.

The pharmacogenomics of membrane transporters project: research at the interface of genomics and transporter pharmacology.

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