ArticlePloS one2011
From SNPs to genes: disease association at the gene level.
Article in PloS one, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 36 papers, 1 of them a synthesis that pooled it.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
36 citing papers in PubMed, 1 synthesis or guideline pooled it.
- A meta-analysis strategy for gene prioritization using gene expression, SNP genotype, and eQTL data.BioMed research international · 2015Pooled it
- Integrated IBD Analysis, GWAS Analysis and Transcriptome Analysis to Identify the Candidate Genes for White Spot Disease in Maize.International journal of molecular sciences · 2023Article
- Interpretable network-guided epistasis detection.GigaScience · 2022Article
- A Comparison of Methods for Gene-Based Testing That Account for Linkage Disequilibrium.Frontiers in genetics · 2022Article
- Prioritization of disease genes from GWAS using ensemble-based positive-unlabeled learning.European journal of human genetics : EJHG · 2021Article
- Synergistic Effects of Aldehyde Dehydrogenase 2 Polymorphisms and Alcohol Consumption on Cognitive Impairment after Ischemic Stroke in Han Chinese.Behavioural neurology · 2021Article
- Early exposure to social disadvantages and later life body mass index beyond genetic predisposition in three generations of Finnish birth cohorts.BMC public health · 2020Article
- Single-Nucleotide Polymorphism Variations Associated With Specific Genes Putatively Identified Enhanced Genetic Predisposition for 305-Day Milk Yield in the Girolando Crossbreed.Frontiers in genetics · 2020Article
- Single-nucleotide polymorphisms in a cohort of significantly obese women without cardiometabolic diseases.International journal of obesity (2005) · 2019Article
- Genome Wide Association Study and Genomic Selection of Amino Acid Concentrations in Soybean Seeds.Frontiers in plant science · 2019Article
- Article
- Integrated analysis of human genetic association study and mouse transcriptome suggests LBH and SHF genes as novel susceptible genes for amyloid-β accumulation in Alzheimer's disease.Human genetics · 2018Article
- Genetic diversity and association mapping of mineral element concentrations in spinach leaves.BMC genomics · 2017Article
- Article
- How far from the SNP may the causative genes be?Nucleic acids research · 2016Article
- Genome-wide association analysis identifies genetic variations in subjects with myalgic encephalomyelitis/chronic fatigue syndrome.Translational psychiatry · 2016Article
- Comparative analysis of SNP candidates in disparate milk yielding river buffaloes using targeted sequencing.PeerJ · 2016Article
- Pleiotropy analysis of quantitative traits at gene level by multivariate functional linear models.Genetic epidemiology · 2015Article
- A Multi-Marker Genetic Association Test Based on the Rasch Model Applied to Alzheimer's Disease.PloS one · 2015Article
- META-GSA: Combining Findings from Gene-Set Analyses across Several Genome-Wide Association Studies.PloS one · 2015Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors.
Funding
Abstract
Interpreting Genome-Wide Association Studies (GWAS) at a gene level is an important step towards understanding the molecular processes that lead to disease. In order to incorporate prior biological knowledge such as pathways and protein interactions in the analysis of GWAS data it is necessary to derive one measure of association for each gene. We compare three different methods to obtain gene-wide test statistics from Single Nucleotide Polymorphism (SNP) based association data: choosing the test statistic from the most significant SNP; the mean test statistics of all SNPs; and the mean of the top quartile of all test statistics. We demonstrate that the gene-wide test statistics can be controlled for the number of SNPs within each gene and show that all three methods perform considerably better than expected by chance at identifying genes with confirmed associations. By applying each method to GWAS data for Crohn's Disease and Type 1 Diabetes we identified new potential disease genes.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.