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 190

System / cell line: carcinoma ✕ Clear

Urinary proteomic profiling for diagnostic bladder cancer biomarkers.

PMID 19811072 · PMC3422861 · Expert review of proteomics · 2009 · 8 claims · 8 setups

Full-text index only

Single protein biomarkers (e.g., NMP-22, BTA) suffer from high false-positive rates and none have replaced cystoscopy or cytology for bladder cancer detection.

urine page gel 2d-dige
93rd Annual Meeting of the American Association for Cancer Research, San Francisco, CA, USA, 6-10 April 2002.

PMID 12100742 · PMC138737 · Breast cancer research : BCR · 2002 · 8 claims · 8 setups

Full-text index only

Serial analysis of gene expression identifies genes preferentially expressed in ductal carcinoma in situ

breast laser serum bladder cdna western seldi-tof
In vivo induction of activin A-producing alveolar macrophages supports the progression of lung cell carcinoma.

PMID 36650150 · PMC9845242 · Nature communications · 2023 · 8 claims · 8 setups

Has reproduction · 96

AMs accumulate in human lung cancer tissue and support cancer cell proliferation, contributing to unfavourable outcome

normal llc lung c57bl immunohistochemistry count flow
Differential Infiltration of Key Immune T-Cell Populations Across Malignancies Varying by Immunogenic Potential and the Likelihood of Response to Immunotherapy.

PMID 39682743 · PMC11640164 · Cells · 2024 · 8 claims · 5 setups

Has reproduction

Estimated T-cell infiltration differs significantly across melanoma, bladder, ovarian, and pancreatic cancers, tracking known immunogenic potential.

tumor melanoma orien bulk gene kaplan-meier
p53 mutations in cervical carcinogenesis--low frequency and lack of correlation with human papillomavirus status.

PMID 8142262 · PMC1968818 · British journal of cancer · 1994 · 7 claims · 6 setups

Full-text index only

Somatic mutation in the p53 gene hotspot regions occurs infrequently in cervical carcinomas

cervical tumour paired hpv-positive immunocytochemistry pcr sequencing
The promoter and the enhancer region of the KLK 3 (prostate specific antigen) gene is frequently mutated in breast tumours and in breast carcinoma cell lines.

PMID 10188912 · PMC2362704 · British journal of cancer · 1999 · 7 claims · 5 setups

Full-text index only

No mutations were found in the protein-coding exons of the PSA gene in breast tumours or cell lines

breast genomic immunofluorometric receptor pcr
Genomic structure and alterations of homeobox gene CDX2 in colorectal carcinomas.

PMID 10027310 · PMC2362430 · British journal of cancer · 1999 · 8 claims · 6 setups

Full-text index only

CDX2 expression is decreased in colorectal carcinomas in prior studies

genomic sporadic hnpcc carcinoma standard pcr-sscp cloning
Inactivation of O6-methylguanine-DNA methyltransferase by promoter CpG island hypermethylation in gastric cancers.

PMID 12085181 · PMC2375420 · British journal of cancer · 2002 · 6 claims · 8 setups

Full-text index only

Loss of MGMT expression in gastric carcinomas frequently results from promoter CpG island hypermethylation.

gastric consecutive snu-620 methylation-specific immunohistochemistry western
Use of genomic data in risk assessment.

PMID 11983054 · PMC139345 · Genome biology · 2002 · 8 claims · 4 setups

Full-text index only

New genomic technologies (CGH, SNP analysis, restriction landmark genome scanning, spectral karyotyping, transcript profiling) can be applied to improve risk assessment accuracy

glioma lung animal genome sensitivity expression snp
Comparing protein abundance and mRNA expression levels on a genomic scale.

PMID 12952525 · PMC193646 · Genome biology · 2003 · 8 claims · 8 setups

Full-text index only

Correlations between mRNA expression and protein abundance are generally poor or limited across most studies reviewed, including in yeast and human cancers

yeast laser-dissected serum myeloid two-dimensional seldi-tof isotope-coded
TP53 engagement with the genome occurs in distinct local chromatin environments via pioneer factor activity.

PMID 25391375 · PMC4315292 · Genome research · 2015 · 8 claims · 8 setups

Has reproduction · 80

TP53 binding events fall into three distinct categories defined by the local chromatin environment: TSS (H3K4me3+), enhancer (H3K4me1+/H3K4me3-), and distal (H3K4me1-/H3K4me3-) peaks.

imr90 hct116 chip-seq rna-seq atac-seq
Similarities and Differences in Gene Expression Networks Between the Breast Cancer Cell Line Michigan Cancer Foundation-7 and Invasive Human Breast Cancer Tissues.

PMID 34056582 · PMC8155268 · Frontiers in artificial intelligence · 2021 · 8 claims · 6 setups

Has reproduction · 92

MCF-7 cell lines and human breast cancer tissues show only minimal similarity in biological processes, though some fundamental functions like cell cycle are conserved.

mcf-7 breast wgcna-derived top bulk microarray rsem-normalized
SurvConvMixer: robust and interpretable cancer survival prediction based on ConvMixer using pathway-level gene expression images.

PMID 38539106 · PMC10967213 · BMC bioinformatics · 2024 · 6 claims · 5 setups

Has reproduction · 77

SurvConvMixer, using pathway-level gene expression images and ConvMixer, achieves strong internal validation AUC for overall survival prediction, especially on larger datasets like LUAD

luad lusc skcm trained deep benchmark model
PD-1 and TIGIT coexpression identifies a circulating CD8 T cell subset predictive of response to anti-PD-1 therapy.

PMID 33188038 · PMC7668369 · Journal for immunotherapy of cancer · 2020 · 7 claims · 6 setups

Has reproduction · 75

The frequency of circulating PD-1+TIGIT+ (DPOS) CD8+ T cells after 1 month of anti-PD-1 therapy is associated with clinical response and overall survival

pbmcs sorted expanded cancer multiparameter receptor targeted
CIRCprimerXL: Convenient and High-Throughput PCR Primer Design for Circular RNA Quantification.

PMID 36304334 · PMC9580850 · Frontiers in bioinformatics · 2022 · 8 claims · 5 setups

Has reproduction · 88

CIRCprimerXL is a high-throughput, user-friendly circRNA RT-qPCR primer design pipeline available as both a web tool and a standalone Nextflow/Docker pipeline

synthetic sw480 circrnas rt-qpcr circrna primer
Fingerprinting cancer development.

PMID 14694892 · PMC1241638 · Environmental health perspectives · 2003 · 8 claims · 6 setups

Full-text index only

Protein microarrays can detect phosphoprotein fingerprints that identify early-stage cancer or monitor drug toxicity.

prostate blood model genes microarray proteomic gene
A big circuit model.

PMID 12940284 · PMC1316925 · Environmental health perspectives · 2003 · 8 claims · 8 setups

Full-text index only

In early prostate carcinogenesis, apoptosis signals are primarily suppressed rather than growth rate being increased.

prostate blood model genes microarray proteomic gene
Mutations in the ST7/RAY1/HELG locus rarely occur in primary colorectal, gastric, and hepatocellular carcinomas.

PMID 12799635 · PMC2741100 · British journal of cancer · 2003 · 7 claims · 4 setups

Full-text index only

ST7 gene mutations are rare in primary colorectal, gastric, and hepatocellular carcinomas

colorectal pcr same clinicopathological pcr-single-strand direct microsatellite
Array-based analysis of genomic DNA methylation patterns of the tumour suppressor gene p16INK4A promoter in colon carcinoma cell lines.

PMID 15860770 · PMC1087791 · Nucleic acids research · 2005 · 8 claims · 4 setups

Full-text index only

A Geniom One-synthesized oligonucleotide microarray can determine the methylation status of individual CpG dinucleotides in parallel, combining high throughput with single-base resolution

hct116 p16 genomic methylation-specific combined oligonucleotide
Implication of BRCA2 -26G>A 5' untranslated region polymorphism in susceptibility to sporadic breast cancer and its modulation by p53 codon 72 Arg>Pro polymorphism.

PMID 17945002 · PMC2242669 · Breast cancer research : BCR · 2007 · 8 claims · 7 setups

Full-text index only

-26G>A polymorphism in the BRCA2 5' UTR is functional: the A allele drives roughly twice the reporter gene expression of the G allele in MCF-7 and HeLa cells

mcf-7 hela brca2 peripheral luciferase transcription genotyping

Experiments

Urinary proteomic profiling for diagnostic bladder cancer biomarkers.

93rd Annual Meeting of the American Association for Cancer Research, San Francisco, CA, USA, 6-10 April 2002.

In vivo induction of activin A-producing alveolar macrophages supports the progression of lung cell carcinoma.

Differential Infiltration of Key Immune T-Cell Populations Across Malignancies Varying by Immunogenic Potential and the Likelihood of Response to Immunotherapy.

p53 mutations in cervical carcinogenesis--low frequency and lack of correlation with human papillomavirus status.

The promoter and the enhancer region of the KLK 3 (prostate specific antigen) gene is frequently mutated in breast tumours and in breast carcinoma cell lines.

Genomic structure and alterations of homeobox gene CDX2 in colorectal carcinomas.

Inactivation of O6-methylguanine-DNA methyltransferase by promoter CpG island hypermethylation in gastric cancers.

Use of genomic data in risk assessment.

Comparing protein abundance and mRNA expression levels on a genomic scale.

TP53 engagement with the genome occurs in distinct local chromatin environments via pioneer factor activity.

Similarities and Differences in Gene Expression Networks Between the Breast Cancer Cell Line Michigan Cancer Foundation-7 and Invasive Human Breast Cancer Tissues.

SurvConvMixer: robust and interpretable cancer survival prediction based on ConvMixer using pathway-level gene expression images.

PD-1 and TIGIT coexpression identifies a circulating CD8 T cell subset predictive of response to anti-PD-1 therapy.

CIRCprimerXL: Convenient and High-Throughput PCR Primer Design for Circular RNA Quantification.

Fingerprinting cancer development.

A big circuit model.

Mutations in the ST7/RAY1/HELG locus rarely occur in primary colorectal, gastric, and hepatocellular carcinomas.

Array-based analysis of genomic DNA methylation patterns of the tumour suppressor gene p16INK4A promoter in colon carcinoma cell lines.

Implication of BRCA2 -26G>A 5' untranslated region polymorphism in susceptibility to sporadic breast cancer and its modulation by p53 codon 72 Arg>Pro polymorphism.