ArticleJournal of computational biology : a journal of computational molecular cell biology2009
Fast and accurate calculation of a computationally intensive statistic for mapping disease genes.
Article in Journal of computational biology : a journal of computational molecular cell biology, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.
What it found
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Who cites it
8 citing papers in PubMed.
- The PPLD has advantages over conventional regression methods in application to moderately sized genome-wide association studies.PloS one · 2021Article
- A new linear regression-like residual for survival analysis, with application to genome wide association studies of time-to-event data.PloS one · 2020Article
- A genome-wide linkage study of autism spectrum disorder and the broad autism phenotype in extended pedigrees.Journal of neurodevelopmental disorders · 2018Article
- Next-generation linkage and association methods applied to hypertension: a multifaceted approach to the analysis of sequence data.BMC proceedings · 2014Article
- A molecular genetic study of autism and related phenotypes in extended pedigrees.Journal of neurodevelopmental disorders · 2013Article
- Employing MCMC under the PPL framework to analyze sequence data in large pedigrees.Frontiers in genetics · 2013Article
- KELVIN: a software package for rigorous measurement of statistical evidence in human genetics.Human heredity · 2011Article
- Increasing genotype-phenotype model determinism: application to bivariate reading/language traits and epistatic interactions in language-impaired families.Human heredity · 2010Article
Corrections and comments
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Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Many statistical methods in biology utilize numerical integration in order to deal with moderately high-dimensional parameter spaces without closed form integrals. One such method is the PPL, a class of models for mapping and modeling genes for complex human disorders. While the most common approach to numerical integration in statistics is MCMC, this is not a good option for the PPL for a variety of reasons, leading us to develop an alternative integration method for this application. We utilize an established sub-region adaptive integration method, but adapt it to specific features of our application. These include division of the multi-dimensional integrals into three separate layers, implementing internal constraints on the parameter space, and calibrating the approximation to ensure adequate precision of results for our application. The proposed approach is compared with an empirically driven fixed grid scheme as well as other numerical integration methods. The new method is shown to require far fewer function evaluations compared to the alternatives while matching or exceeding the best of them in terms of accuracy. The savings in evaluations is sufficiently large that previously intractable problems are now feasible in real time.
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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.