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 832

System / cell line: cancer ✕ Clear

ATM variants 7271T>G and IVS10-6T>G among women with unilateral and bilateral breast cancer.

PMID 14562025 · PMC2394328 · British journal of cancer · 2003 · 8 claims · 4 setups

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Women with bilateral breast cancer show greater genetic predisposition (higher family history prevalence) than women with unilateral breast cancer

blood-derived blood random dhplc microsatellite duplicate
Detection of p53 mutations in precancerous gastric tissue.

PMID 14520466 · PMC2394306 · British journal of cancer · 2003 · 8 claims · 6 setups

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p53 mutations can be detected in precancerous gastritis and intestinal metaplasia tissue using the restriction site mutation (RSM) assay

gastric enzyme-resistant gastritis pylori-positive restriction sequencing electron
Characterization of mutations and loss of heterozygosity of p53 and K-ras2 in pancreatic cancer cell lines by immobilized polymerase chain reaction.

PMID 12877750 · PMC183853 · BMC biotechnology · 2003 · 6 claims · 5 setups

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Polony technology can detect intragenic mutations in well-defined hotspots of p53 (codons 175, 245, 248, 249, 273, 282) and K-ras2 (codons 12, 13, 61)

panc-1 aspc-1 capan-1 immobilized polony-based
GoMiner: a resource for biological interpretation of genomic and proteomic data.

PMID 12702209 · PMC154579 · Genome biology · 2003 · 8 claims · 4 setups

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GoMiner organizes 'interesting' gene lists (e.g., differentially expressed genes) into the Gene Ontology hierarchy for biological interpretation, displaying results as both a tree and a directed acyclic graph (DAG).

du145 gene gominer cdna flow category
Understanding the mechanisms of drug-associated interstitial lung disease.

PMID 15340376 · PMC2750813 · British journal of cancer · 2004 · 8 claims · 7 setups

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Apoptosis of alveolar/bronchial epithelial cells via Fas-FasL and mitochondrial (cytochrome c/caspase-9) pathways is a key mechanism underlying drug-, chemotherapy-, and radiation-associated lung injury and fibrosis

bronchial lung swiss mice immunohistochemistry toxicology pulmonary
Raf-1 activation disrupts its binding to keratins during cell stress.

PMID 15314064 · PMC2172217 · The Journal of cell biology · 2004 · 8 claims · 8 setups

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Raf-1 kinase associates directly with keratin K8 (not K18), independent of Raf kinase activity and independent of Ras-Raf interaction

ht29 transgenic bhk-21 bhk co-immunoprecipitation co-transfection oxidative
Protein expression patterns in primary carcinoma of the vagina.

PMID 15199389 · PMC2409807 · British journal of cancer · 2004 · 5 claims · 4 setups

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Cluster analysis of 2-DE proteomic data allows accurate discrimination between normal vaginal mucosa, primary vaginal carcinoma and primary cervical carcinoma

fresh-frozen excised normal same two-dimensional matrix-assisted hierarchical
Proteomic-based identification of haptoglobin-1 precursor as a novel circulating biomarker of ovarian cancer.

PMID 15199385 · PMC2364749 · British journal of cancer · 2004 · 7 claims · 7 setups

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Six serum protein spots (~40 kDa, pI 5.9–6.6) significantly overexpressed in grade 1, 2 and 3 ovarian cancer patients were identified by MALDI-TOFMS and n-ESIQ(q)TOFMS as isoforms of haptoglobin-1 precursor (HAP1)

serum tryptic 2de-separated paraffin-embedded two-dimensional affi-gel maldi-tofms
Bisulfite sequencing of chromatin immunoprecipitated DNA (BisChIP-seq) directly informs methylation status of histone-modified DNA.

PMID 22466171 · PMC3371705 · Genome research · 2012 · 8 claims · 8 setups

Has reproduction · 80

BisChIP-seq — bisulfite sequencing of chromatin immunoprecipitated DNA — enables direct genome-wide, base-resolution interrogation of DNA methylation on histone-modified DNA molecules

lncap sonicated adaptor-modified native bischip-seq chromatin chip-qpcr
Genetic and epigenetic analyses of MBD3 in colon and lung cancer.

PMID 15138480 · PMC2410281 · British journal of cancer · 2004 · 7 claims · 5 setups

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MBD3 is not a major target of genetic or epigenetic alteration in colon and lung cancer

colon normal pcr-sscp rt-pcr northern
Liver fatty acid binding protein expression in colorectal neoplasia.

PMID 15138477 · PMC2409459 · British journal of cancer · 2004 · 8 claims · 5 setups

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L-FABP is consistently lost/decreased in colorectal cancer compared with paired normal colon tissue

paired excised formalin-fixed normal gel maldi-tof immunohistochemistry
Interactome-transcriptome analysis reveals the high centrality of genes differentially expressed in lung cancer tissues.

PMID 16188928 · PMC4631381 · Bioinformatics (Oxford, England) · 2005 · 7 claims · 4 setups

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Genes upregulated in squamous cell lung cancer are highly connected (well-connected) nodes in the protein interactome

squamous ophid degs oligonucleotide interaction connectivity
Comparative proteome analysis of breast cancer and adjacent normal breast tissues in human.

PMID 17127214 · PMC5054074 · Genomics, proteomics & bioinformatics · 2006 · 8 claims · 7 setups

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15 differential protein spots were detected in 11 of 12 (91.7%) breast cancer tissue samples compared with adjacent normal tissue

breast spots 2d-page stained sds-page 2d-page maldi-tof
HapMap-based study of the 17q21 ERBB2 amplicon in susceptibility to breast cancer.

PMID 17117180 · PMC2360759 · British journal of cancer · 2006 · 6 claims · 5 setups

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Common genetic variation (tSNPs and haplotypes) across the 400-kb 17q21 ERBB2 amplicon is not associated with breast cancer risk in British women.

white same hapmap snp haplotype tagging
Joint association of polymorphism of the FGFR4 gene and mutation TP53 gene with bladder cancer prognosis.

PMID 17088904 · PMC2360734 · British journal of cancer · 2006 · 8 claims · 5 setups

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No clear correlation was found between the FGFR4 Gly388Arg genotype and risk of developing bladder cancer.

blood bladder rflp manual genechip
MMASS: an optimized array-based method for assessing CpG island methylation.

PMID 17041235 · PMC1635254 · Nucleic acids research · 2006 · 8 claims · 7 setups

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MMASS-v2 (optimized AciI/HinP1I/HpyCH4IV/HpaII enzyme combination with McrBC digestion) offers improved sensitivity and statistical power for microarray-based CpG island methylation detection compared to MMASS-v1, MMASS-sub and the Nouzova method

hct116 sssi-methylated hcgi12k methylation spike-in cobra
The role of MYH and microsatellite instability in the development of sporadic colorectal cancer.

PMID 17031395 · PMC2360566 · British journal of cancer · 2006 · 8 claims · 8 setups

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MYH-associated colorectal cancers can develop through either a chromosomal instability pathway or a microsatellite instability (MSI) pathway, contradicting the assumption that these are mutually exclusive.

lymphocyte colorectal tumour msi-positive pcr restriction microsatellite
Analysis of the prostate cancer cell line LNCaP transcriptome using a sequencing-by-synthesis approach.

PMID 17010196 · PMC1592491 · BMC genomics · 2006 · 8 claims · 7 setups

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High-throughput 454 sequencing-by-synthesis of LNCaP cDNA can profile transcript abundance across the transcriptome

lncap lncap-derived r1881-treated massively blast blat
CD70 (TNFSF7) is expressed at high prevalence in renal cell carcinomas and is rapidly internalised on antibody binding.

PMID 16892042 · PMC2360640 · British journal of cancer · 2006 · 6 claims · 6 setups

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CD70 was identified by proteomic analysis of plasma membrane preparations as highly expressed in A498 and SW839 RCC-derived cell lines

a498 frozen normal proteomics flow immunohistochemistry
Does tumorigenesis select for or against mutations of the DNA repair-associated genes BRCA2 and MRE11?: considerations from somatic mutations in microsatellite unstable (MSI) gastrointestinal cancers.

PMID 16417627 · PMC1382246 · BMC genetics · 2006 · 8 claims · 7 setups

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Heterozygous truncating BRCA2 mutations occur in 47% (7/15) of gastrointestinal MSI cancer cell lines/xenografts, a higher rate than previously reported

gastrointestinal ls174t pl3 msi gene rt-pcr rad51

Experiments

ATM variants 7271T>G and IVS10-6T>G among women with unilateral and bilateral breast cancer.

Detection of p53 mutations in precancerous gastric tissue.

Characterization of mutations and loss of heterozygosity of p53 and K-ras2 in pancreatic cancer cell lines by immobilized polymerase chain reaction.

GoMiner: a resource for biological interpretation of genomic and proteomic data.

Understanding the mechanisms of drug-associated interstitial lung disease.

Raf-1 activation disrupts its binding to keratins during cell stress.

Protein expression patterns in primary carcinoma of the vagina.

Proteomic-based identification of haptoglobin-1 precursor as a novel circulating biomarker of ovarian cancer.

Bisulfite sequencing of chromatin immunoprecipitated DNA (BisChIP-seq) directly informs methylation status of histone-modified DNA.

Genetic and epigenetic analyses of MBD3 in colon and lung cancer.

Liver fatty acid binding protein expression in colorectal neoplasia.

Interactome-transcriptome analysis reveals the high centrality of genes differentially expressed in lung cancer tissues.

Comparative proteome analysis of breast cancer and adjacent normal breast tissues in human.

HapMap-based study of the 17q21 ERBB2 amplicon in susceptibility to breast cancer.

Joint association of polymorphism of the FGFR4 gene and mutation TP53 gene with bladder cancer prognosis.

MMASS: an optimized array-based method for assessing CpG island methylation.

The role of MYH and microsatellite instability in the development of sporadic colorectal cancer.

Analysis of the prostate cancer cell line LNCaP transcriptome using a sequencing-by-synthesis approach.

CD70 (TNFSF7) is expressed at high prevalence in renal cell carcinomas and is rapidly internalised on antibody binding.

Does tumorigenesis select for or against mutations of the DNA repair-associated genes BRCA2 and MRE11?: considerations from somatic mutations in microsatellite unstable (MSI) gastrointestinal cancers.