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 14

System / cell line: study ✕ Assay: significance ✕ Clear

Identification of the transcriptional response of human intestinal mucosa to Lactobacillus plantarum WCFS1 in vivo.

PMID 18681965 · PMC2519092 · BMC genomics · 2008 · 8 claims · 6 setups

Full-text index only

1-h and 6-h intraduodenal exposure of human small intestinal mucosa to L. plantarum WCFS1 induces differential expression of 669 and 424 gene reporters, respectively.

duodenal microarray combined whole-genome proteome real-time
Genotypic analysis of two hypervariable human cytomegalovirus genes.

PMID 18649324 · PMC2658010 · Journal of medical virology · 2008 · 8 claims · 8 setups

Full-text index only

UL146 sequences from 184 samples fall into the same 14 genotypes (G1-G14) previously defined, with no new genotypes found.

hcmv clinical pcr ul146 pcr nested molecular
A non-parametric meta-analysis approach for combining independent microarray datasets: application using two microarray datasets pertaining to chronic allograft nephropathy.

PMID 18302764 · PMC2276496 · BMC genomics · 2008 · 8 claims · 6 setups

Full-text index only

A novel non-parametric meta-analysis approach for combining independent microarray datasets is presented, requiring no distributional assumptions and being logically intuitive.

kidney same identified additional microarray significance fisher's
A novel, non-functional, COL1A1 polymorphism is not associated with lumbar disk disease in young male Greek subjects unlike that of the Sp1 site.

PMID 18694864 · PMC3124709 · Hormones (Athens, Greece) · 2008 · 5 claims · 3 setups

Full-text index only

The COL1A1 3'UTR 4bp insertion polymorphism (A1/A2 alleles) is not associated with LDD in young male Greek subjects

genomic subset genotype pcr-based sequencing chi-square
What can genome-wide association studies tell us about the genetics of common disease?

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

Full-text index only

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
Multiple whole genome alignments and novel biomedical applications at the VISTA portal.

PMID 17488840 · PMC1933192 · Nucleic acids research · 2007 · 8 claims · 4 setups

Full-text index only

A novel multiple whole-genome alignment algorithm treats all genomes symmetrically, avoiding dependence on a single base/reference genome

genome vertebrate multi-species whole-genome conservation non-synonymous
Genetics of bipolar disorder.

PMID 18689285 · PMC3181866 · Dialogues in clinical neuroscience · 2008 · 8 claims · 6 setups

Full-text index only

BP-I has a strong genetic component supported by segregation, adoption, and twin studies across populations

multiplex pooled bp-affected monozygotic genome-wide genome candidate
Ontological Discovery Environment: a system for integrating gene-phenotype associations.

PMID 19733230 · PMC2783409 · Genomics · 2009 · 8 claims · 8 setups

Full-text index only

ODE is a web-based system for storing, sharing, retrieving and analyzing phenotype-centered genomic data sets across species and experimental systems

strains integrated bipartite phish gene differential pairwise
Combinatorial Mismatch Scan (CMS) for loci associated with dementia in the Amish.

PMID 16515697 · PMC1448207 · BMC medical genetics · 2006 · 8 claims · 7 setups

Full-text index only

CMS compares IBS allele/genotype sharing between distantly related (beyond grandparental) affected and unaffected individuals from founder populations to detect disease loci while reducing confounding from population stratification and genetic heterogeneity.

amish unrelated same overall microsatellite combinatorial permutation
Incorporation of genetic model parameters for cost-effective designs of genetic association studies using DNA pooling.

PMID 17634103 · PMC1947971 · BMC genomics · 2007 · 8 claims · 4 setups

Full-text index only

A closed-form approximation to the F-test non-centrality parameter (NCP) incorporating genetic model parameters (disease allele frequency, marker allele frequency, prevalence, genotype relative risk, sample size, genetic model, number of pools/replicates, machine variability) can be used to compute power for DNA pooling association studies

modeled analytic factorial power
TP53 intron 6 polymorphism and the risk of ovarian and breast cancer.

PMID 9484829 · PMC2149940 · British journal of cancer · 1998 · 5 claims · 2 setups

Full-text index only

The N' allele (G-to-A variant) is significantly more prevalent in ovarian cancer patients than in controls (P=0.01)

peripheral genotype pcr chi-square
An online database for brain disease research.

PMID 16594998 · PMC1489945 · BMC genomics · 2006 · 7 claims · 5 setups

Full-text index only

SMRIDB is a comprehensive web-based database integrating gene expression data and clinical metadata to aid understanding of the genetic effects of brain disease (bipolar disorder, schizophrenia, depression)

postmortem individual disease studies microarray array gene-by-gene
The UCSC Genome Browser Database: 2008 update.

PMID 18086701 · PMC2238835 · Nucleic acids research · 2008 · 8 claims · 8 setups

Full-text index only

The UCSC Genome Browser Database (GBD) provides integrated sequence and annotation data for a large collection of vertebrate and model organism genomes.

zebrafish yale vertebrate non-human sage expression snp
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

Full-text index only

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

Identification of the transcriptional response of human intestinal mucosa to Lactobacillus plantarum WCFS1 in vivo.

Genotypic analysis of two hypervariable human cytomegalovirus genes.

A non-parametric meta-analysis approach for combining independent microarray datasets: application using two microarray datasets pertaining to chronic allograft nephropathy.

A novel, non-functional, COL1A1 polymorphism is not associated with lumbar disk disease in young male Greek subjects unlike that of the Sp1 site.

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

Multiple whole genome alignments and novel biomedical applications at the VISTA portal.

Genetics of bipolar disorder.

Ontological Discovery Environment: a system for integrating gene-phenotype associations.

Combinatorial Mismatch Scan (CMS) for loci associated with dementia in the Amish.

Incorporation of genetic model parameters for cost-effective designs of genetic association studies using DNA pooling.

TP53 intron 6 polymorphism and the risk of ovarian and breast cancer.

An online database for brain disease research.

The UCSC Genome Browser Database: 2008 update.

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.