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 61

System / cell line: confirmed ✕ Clear

Complex landscapes of somatic rearrangement in human breast cancer genomes.

PMID 20033038 · PMC3398135 · Nature · 2009 · 8 claims · 6 setups

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There are more somatic rearrangements in some breast cancers than previously appreciated by cytogenetic methods.

breast subset confirmed paired-end fish exon-exon
Glucosidase-beta variations and Lewy body disorders.

PMID 18829375 · PMC2970615 · Parkinsonism & related disorders · 2009 · 8 claims · 1 setups

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GBA pathogenic mutations were found in 3% of LBD cases versus 1% of controls, a non-significant difference (OR 3.0, 95% CI 0.3–29, p=0.3)

post-mortem long-range
The indirect effect of mRNA-based COVID-19 vaccination on healthcare workers' unvaccinated household members.

PMID 35246536 · PMC8897446 · Nature communications · 2022 · 5 claims · 4 setups

Has reproduction

mRNA-based COVID-19 vaccination of healthcare workers is associated with reduced SARS-CoV-2 infections among their unvaccinated adult household members (indirect effectiveness).

vaccinated unvaccinated double observational
Dog Y chromosomal DNA sequence: identification, sequencing and SNP discovery.

PMID 17026745 · PMC1630699 · BMC genetics · 2006 · 8 claims · 6 setups

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Identified 32 male-specific Y-chromosome sequences totaling 24159 bp via combined Blast (human Y chromosome match, absence from female dog genome) and PCR male-specificity screening of a male poodle shotgun genome.

poodle dogs y-chromosome blast pcr nested
Novel mutations in TARDBP (TDP-43) in patients with familial amyotrophic lateral sclerosis.

PMID 18802454 · PMC2527686 · PLoS genetics · 2008 · 8 claims · 6 setups

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Three heterozygous missense mutations (p.M337V, p.N345K, p.I383V) in exon 6 of TARDBP were identified in familial ALS patients

patients nd10588 lymphoblastoid neuroglioma sanger taqman copy-number
Preselection of cases through expert clinical and radiological review significantly increases mutation detection rate in multiple epiphyseal dysplasia.

PMID 17133256 · PMC2670452 · European journal of human genetics : EJHG · 2007 · 7 claims · 3 setups

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Expert clinical-radiological preselection significantly increases mutation detection rate in MED

patients genomic single clinical pcr
Risk of pancreatic cancer in families with Lynch syndrome.

PMID 19861671 · PMC4091624 · JAMA · 2009 · 7 claims · 3 setups

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Families with germline MMR gene mutations (Lynch Syndrome) have an 8.6-fold increased risk of pancreatic cancer compared to the general U.S. population.

individuals extracted same modified germline proportional
CD155/PVR plays a key role in cell motility during tumor cell invasion and migration.

PMID 15471548 · PMC524493 · BMC cancer · 2004 · 8 claims · 8 setups

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A FALI-coupled scFv antibody library screen identifies CD155 (poliovirus receptor) as a mediator of tumor cell invasion

ht1080 u87mg normal 96-well transwell immunoblot
Short-term genome evolution of Listeria monocytogenes in a non-controlled environment.

PMID 19014550 · PMC2642827 · BMC genomics · 2008 · 6 claims · 6 setups

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The 2000 listeriosis outbreak was likely caused by an L. monocytogenes strain that persisted in the food processing facility for at least 12 years since 1988

monocytogenes additional food j774 whole-genome comparative pcr
Phenotypic and Genotypic Characteristics of Shiga Toxin-Producing Escherichia coli Isolated from Surface Waters and Sediments in a Canadian Urban-Agricultural Landscape.

PMID 27092297 · PMC4820441 · Frontiers in cellular and infection microbiology · 2016 · 7 claims · 7 setups

Has reproduction · 89

STEC are prevalent in surface waters of four Lower Mainland BC watersheds, recovered from 21.6, 23.2, 19.5, and 9.2% of samples across sites, with seasonal variation (13.3% in fall to 34.3% in winter).

surface coli presumptive confirmed hydrophobic sandwich monoplex
Accurate splice site prediction using support vector machines.

PMID 18269701 · PMC2230508 · BMC bioinformatics · 2007 · 8 claims · 5 setups

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Weighted degree (WD) kernel SVMs outperform Markov Chains, GeneSplicer and SpliceMachine for genome-wide splice site recognition

nn269 dgsplicer caenorhabditis arabidopsis svm genome-wide
Non-EST-based prediction of novel alternatively spliced cassette exons with cell signaling function in Caenorhabditis elegans and human.

PMID 17452356 · PMC1904267 · Nucleic acids research · 2007 · 8 claims · 7 setups

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PASE (Prediction of Alternative Signaling Exons) is a computational algorithm combining Markov splice-site models, a Bayesian classifier, species conservation, and Scansite motif scoring to identify novel alternative cassette exons involved in cell signaling.

elegans pooled pcr known semi-nested cloning initio
DNA methylation and mRNA expression of SYN III, a candidate gene for schizophrenia.

PMID 19102774 · PMC2630979 · BMC medical genetics · 2008 · 8 claims · 6 setups

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Variation in SYN III distal CpG island methylation is not related to schizophrenia in the population sample or in a monozygotic twin pair discordant for schizophrenia

brain blood non-human semi-quantitative sodium bisulfite
Proteomics of human neurodegenerative diseases.

PMID 18800015 · PMC2710115 · Journal of neuropathology and experimental neurology · 2008 · 8 claims · 8 setups

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Proteomic techniques applied to autopsy brain and CSF from patients with neurodegenerative diseases provide insight into pathogenesis and enable biomarker discovery

detergent-extractable thioflavin-s-stained tau-2-immunostained snca-immunoreactive 2-dimensional laser lc-ms-ms
Genome-wide identification of Hfq-regulated small RNAs in the fire blight pathogen Erwinia amylovora discovered small RNAs with virulence regulatory function.

PMID 24885615 · PMC4070566 · BMC genomics · 2014 · 8 claims · 8 setups

Has reproduction · 50

A total of 40 candidate Hfq-dependent sRNAs were identified genome-wide in E. amylovora by combining RNA-seq with a Rho-independent terminator search.

erwinia intergenic candidate wounded small northern race
What can genome-wide association studies tell us about the genetics of common disease?

PMID 18454206 · PMC2323402 · PLoS genetics · 2008 · 8 claims · 4 setups

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Apparent patterns of common, low-effect disease-associated alleles largely reflect statistical power of studies rather than the true underlying distribution of disease variants

case gwa simulated literature cochran-armitage computer
Invasive bacterial disease trends and characterization of group B streptococcal isolates among young infants in southern Mozambique, 2001-2015.

PMID 29351318 · PMC5774717 · PloS one · 2018 · 7 claims · 6 setups

Has reproduction · 97

A notable young infant GBS disease burden persisted during 2001–2015 despite significant declines in overall IBD, neonatal mortality, and stillbirth rates.

manhiça infants recovered stored demographic invasive gbs
Blood and tissue correlates of steroid non-response in checkpoint inhibition-induced immune-related adverse events.

PMID 41254329 · PMC12627558 · Communications medicine · 2025 · 7 claims · 6 setups

Has reproduction · 71

An enhanced type 1/type 17 (Th1/Th17, TC1/TC17) immune response in blood and tissue is associated with steroid non-response in irAEs

pbmcs pre-steroids extended snap-frozen spectral pd-1 ici-bound
Cis-Regulation of the CFTR Gene in Pancreatic Cells.

PMID 40332394 · PMC12027686 · International journal of molecular sciences · 2025 · 7 claims · 8 setups

Has reproduction · 50

Multiple active CREs exist upstream and downstream of the CFTR gene in pancreatic (Capan-1) cells, identified via ATAC-seq, CUT&RUN-seq (H3K27ac), 4C-seq, and the ABC model

capan-1 caco-2 hepg2 atac-seq cut&run-seq 4c-seq
Mutation of the nm23 gene, loss of heterozygosity at the nm23 locus and K-ras mutation in ovarian carcinoma: correlation with tumour progression and nm23 gene expression.

PMID 7669582 · PMC2033876 · British journal of cancer · 1995 · 8 claims · 5 setups

Full-text index only

A novel missense mutation (TGG→CGG, Trp133→Arg) in nm23-H2 was found in one stage III serous ovarian carcinoma

ovarian case matched same pcr-sscp subcloning loh

Experiments

Complex landscapes of somatic rearrangement in human breast cancer genomes.

Glucosidase-beta variations and Lewy body disorders.

The indirect effect of mRNA-based COVID-19 vaccination on healthcare workers' unvaccinated household members.

Dog Y chromosomal DNA sequence: identification, sequencing and SNP discovery.

Novel mutations in TARDBP (TDP-43) in patients with familial amyotrophic lateral sclerosis.

Preselection of cases through expert clinical and radiological review significantly increases mutation detection rate in multiple epiphyseal dysplasia.

Risk of pancreatic cancer in families with Lynch syndrome.

CD155/PVR plays a key role in cell motility during tumor cell invasion and migration.

Short-term genome evolution of Listeria monocytogenes in a non-controlled environment.

Phenotypic and Genotypic Characteristics of Shiga Toxin-Producing Escherichia coli Isolated from Surface Waters and Sediments in a Canadian Urban-Agricultural Landscape.

Accurate splice site prediction using support vector machines.

Non-EST-based prediction of novel alternatively spliced cassette exons with cell signaling function in Caenorhabditis elegans and human.

DNA methylation and mRNA expression of SYN III, a candidate gene for schizophrenia.

Proteomics of human neurodegenerative diseases.

Genome-wide identification of Hfq-regulated small RNAs in the fire blight pathogen Erwinia amylovora discovered small RNAs with virulence regulatory function.

What can genome-wide association studies tell us about the genetics of common disease?

Invasive bacterial disease trends and characterization of group B streptococcal isolates among young infants in southern Mozambique, 2001-2015.

Blood and tissue correlates of steroid non-response in checkpoint inhibition-induced immune-related adverse events.

Cis-Regulation of the CFTR Gene in Pancreatic Cells.

Mutation of the nm23 gene, loss of heterozygosity at the nm23 locus and K-ras mutation in ovarian carcinoma: correlation with tumour progression and nm23 gene expression.