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 24

System / cell line: lung ✕ Assay: association ✕ Clear

Statistical challenges in preprocessing in microarray experiments in cancer.

PMID 18829474 · PMC3529914 · Clinical cancer research : an official journal of the American Association for Cancer Research · 2008 · 8 claims · 7 setups

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Choice of pre-processing method materially changes which features are found significantly associated with survival in the Beer et al. lung cancer microarray dataset

lung beer individual outlier expression rank-covariance quality-control
The impact of new research technologies on our understanding of environmental causes of disease: the concept of clinical vulnerability.

PMID 19948053 · PMC2793242 · Environmental health : a global access science source · 2009 · 8 claims · 8 setups

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GWAS-identified genetic variants confer only modest relative risks (1.15-1.5), comparable in magnitude to weak/contested environmental exposures

polish cohort nonsmokers low genome-wide biomarker epidemiological
An integrative approach to reveal driver gene fusions from paired-end sequencing data in cancer.

PMID 19881495 · PMC3086882 · Nature biotechnology · 2009 · 8 claims · 8 setups

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A 'concept signature' (ConSig) score algorithm ranks genes by association with molecular concepts characteristic of fusion or mutation cancer genes, nominating biologically important fusions from large candidate sets.

lung known leukemia tumor paired-end computational snp
Partial correlation network analysis identifies coordinated gene expression within a regional cluster of COPD genome-wide association signals.

PMID 39418301 · PMC11521246 · PLoS computational biology · 2024 · 7 claims · 4 setups

Has reproduction · 23

COPD GWAS loci are more spatially clustered across the genome than expected by chance, with significant enrichment on chromosome 4q.

lung sakornsakolpat string bulk microarray gwas
SNPs in cancer research and treatment.

PMID 14970847 · PMC2410167 · British journal of cancer · 2004 · 8 claims · 8 setups

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SNPs and haplotype-tagging SNPs (ht-SNPs) provide a resource for investigating genetic contributions to cancer susceptibility and outcome while reducing genotyping burden versus testing every SNP

lung bladder colon prostate candidate snp-based haplotype
Genetics and proteomics: deciphering gene association studies in critical illness.

PMID 16934133 · PMC1750993 · Critical care (London, England) · 2006 · 8 claims · 8 setups

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Most critical illnesses are complex traits (multifactorial), unlike single-gene Mendelian diseases.

severe families caucasian tnf genetic linkage microarray
Social and ethical implications of genomics, race, ethnicity, and health inequities.

PMID 19000599 · PMC2892396 · Seminars in oncology nursing · 2008 · 8 claims · 5 setups

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Race and ethnicity are increasingly viewed as genetic surrogates for predicting disease risk and treatment response, though directly assessing genomic and environmental factors is more accurate.

population prostate non-small-cell breast genome-wide gene somatic
Integrated bioinformatics analysis screened the key genes and pathways of idiopathic pulmonary fibrosis.

PMID 40280949 · PMC12032202 · Scientific reports · 2025 · 8 claims · 8 setups

Has reproduction · 93

5328 differentially expressed transcripts (4083 genes) were identified in GSE173355 by limma, with 4012 transcripts (3206 genes) confirmed by both limma and edgeR (logFC>1, FDR<0.05)

ipf degs differentially bleomycin-induced bulk methylation kegg
Predicting survival within the lung cancer histopathological hierarchy using a multi-scale genomic model of development.

PMID 16800721 · PMC1483910 · PLoS medicine · 2006 · 8 claims · 8 setups

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Multi-scale genomic similarities exist between four human lung cancer subtypes and the developing mouse lung, and these similarities are prognostically meaningful.

perfused lung microarray principal wilcoxon
Coding and non-coding roles of MOCCI (C15ORF48) coordinate to regulate host inflammation and immunity.

PMID 33837217 · PMC8035321 · Nature communications · 2021 · 8 claims · 8 setups

Has reproduction · 68

MOCCI (encoded by C15ORF48) is a mito-SEP upregulated during inflammation and infection that promotes host-protective resolution

aortic failing colon hek293t ribo-seq wgcna-gsea gene
Use of genomic data in risk assessment.

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

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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
Correlations of EGFR mutations and increases in EGFR and HER2 copy number to gefitinib response in a retrospective analysis of lung cancer patients.

PMID 17626639 · PMC1952070 · BMC cancer · 2007 · 7 claims · 4 setups

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EGFR mutations (exon 19 deletions, exon 21 L858R) did not correlate with gefitinib response in this cohort

microdissected formalin-fixed archival clinical pcr fluorescence laser
Expression and mutation analysis of the discoidin domain receptors 1 and 2 in non-small cell lung carcinoma.

PMID 17299390 · PMC2360060 · British journal of cancer · 2007 · 8 claims · 6 setups

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DDR1 is significantly upregulated in NSCLC tumour tissue compared with matched normal lung tissue

nsclc matched lung quantitative pcr genomic
Epidemiology of doublet/multiplet mutations in lung cancers: evidence that a subset arises by chronocoordinate events.

PMID 19005564 · PMC2579325 · PloS one · 2008 · 8 claims · 7 setups

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Doublet mutations are significantly more frequent in EGFR (6.0%) and TP53 (2.3%) in human lung cancer than spontaneous doublets in mouse lacI (0.7%), about 8-fold and 3-fold higher respectively.

egfr tp53 laci lung literature comparative statistical
Surfactant protein B gene variations enhance susceptibility to squamous cell carcinoma of the lung in German patients.

PMID 12107845 · PMC2376109 · British journal of cancer · 2002 · 8 claims · 1 setups

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The SP-B intron 4 gene variant is significantly more frequent in squamous cell lung carcinoma (SCC) patients (25.0%) than in matched controls, OR=3.2, P=0.016

peripheral allele-specific
CLC-2 single nucleotide polymorphisms (SNPs) as potential modifiers of cystic fibrosis disease severity.

PMID 15507145 · PMC526769 · BMC medical genetics · 2004 · 8 claims · 7 setups

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PCR amplification and sequencing of CLC-2 revealed 1 SNP in the promoter, 4 SNPs in intron 1, and none in exon 20

nasal genomic ib3-1 western pcr fisher's
MRPS18CP2 alleles and DEFA3 absence as putative chromosome 8p23.1 modifiers of hearing loss due to mtDNA mutation A1555G in the 12S rRNA gene.

PMID 18154640 · PMC2233610 · BMC medical genetics · 2007 · 8 claims · 6 setups

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Chromosome 8p23.1 has previously been proposed as a nuclear modifier locus for A1555G-associated hearing loss phenotype

blood a1555g lymphoblastoid nuclear pcr-rflp direct rt-pcr
Identification of genes associated with multiple cancers via integrative analysis.

PMID 19919702 · PMC2785840 · BMC genomics · 2009 · 8 claims · 8 setups

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Mc.TGD (Multi-cancer Threshold Gradient Descent) is the first regularized approach to conduct two-dimensional selection of genes with joint effects on cancer development across multiple cancers.

breast kidney liver lung gene wilcoxon
Toll-like receptor 1 polymorphisms affect innate immune responses and outcomes in sepsis.

PMID 18635889 · PMC2556453 · American journal of respiratory and critical care medicine · 2008 · 7 claims · 5 setups

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The TLR1 −7202A/G (rs5743551) G allele is associated with elevated TLR1-mediated cytokine production ex vivo

blood expressing intensive patients tlr-agonist nf-κb surface
BHD mutations, clinical and molecular genetic investigations of Birt-Hogg-Dubé syndrome: a new series of 50 families and a review of published reports.

PMID 18234728 · PMC2564862 · Journal of medical genetics · 2008 · 8 claims · 7 setups

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BHD germline mutation detection rate was 88% (51/58 families) using direct DNA sequencing

peripheral blood-derived folliculin chest direct subcloning sequence

Experiments

Statistical challenges in preprocessing in microarray experiments in cancer.

The impact of new research technologies on our understanding of environmental causes of disease: the concept of clinical vulnerability.

An integrative approach to reveal driver gene fusions from paired-end sequencing data in cancer.

Partial correlation network analysis identifies coordinated gene expression within a regional cluster of COPD genome-wide association signals.

SNPs in cancer research and treatment.

Genetics and proteomics: deciphering gene association studies in critical illness.

Social and ethical implications of genomics, race, ethnicity, and health inequities.

Integrated bioinformatics analysis screened the key genes and pathways of idiopathic pulmonary fibrosis.

Predicting survival within the lung cancer histopathological hierarchy using a multi-scale genomic model of development.

Coding and non-coding roles of MOCCI (C15ORF48) coordinate to regulate host inflammation and immunity.

Use of genomic data in risk assessment.

Correlations of EGFR mutations and increases in EGFR and HER2 copy number to gefitinib response in a retrospective analysis of lung cancer patients.

Expression and mutation analysis of the discoidin domain receptors 1 and 2 in non-small cell lung carcinoma.

Epidemiology of doublet/multiplet mutations in lung cancers: evidence that a subset arises by chronocoordinate events.

Surfactant protein B gene variations enhance susceptibility to squamous cell carcinoma of the lung in German patients.

CLC-2 single nucleotide polymorphisms (SNPs) as potential modifiers of cystic fibrosis disease severity.

MRPS18CP2 alleles and DEFA3 absence as putative chromosome 8p23.1 modifiers of hearing loss due to mtDNA mutation A1555G in the 12S rRNA gene.

Identification of genes associated with multiple cancers via integrative analysis.

Toll-like receptor 1 polymorphisms affect innate immune responses and outcomes in sepsis.

BHD mutations, clinical and molecular genetic investigations of Birt-Hogg-Dubé syndrome: a new series of 50 families and a review of published reports.