ArticleGenome research2013
Genotype imputation via matrix completion.
Article in Genome research, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 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
21 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Multistage genome-wide association meta-analyses identified two new loci for bone mineral density.Human molecular genetics · 2014Pooled it
- An MM Estimation Algorithm for Independent Component Analysis.Signal processing · 2026Article
- Mechanisms for Hiding Sensitive Genotypes with Information-Theoretic Privacy.IEEE transactions on information theory · 2022Article
- FRMC: a fast and robust method for the imputation of scRNA-seq data.RNA biology · 2021Article
- OPENMENDEL: a cooperative programming project for statistical genetics.Human genetics · 2020Review
- Modeling coverage gaps in haplotype frequencies via Bayesian inference to improve stem cell donor selection.Immunogenetics · 2018Article
- At the Origin of a Worldwide Invasion: Unraveling the Genetic Makeup of the Caribbean Bridgehead Populations of the Dengue Vector Aedes aegypti.Genome biology and evolution · 2018Article
- svt: Singular Value Thresholding in MATLAB.Journal of statistical software · 2017Article
- SparRec: An effective matrix completion framework of missing data imputation for GWAS.Scientific reports · 2016Article
- In silico methods for drug repurposing and pharmacology.Wiley interdisciplinary reviews. Systems biology and medicine · 2016Review
- Article
- Structured Matrix Completion with Applications to Genomic Data Integration.Journal of the American Statistical Association · 2016Article
- Matrix Completion Discriminant Analysis.Computational statistics & data analysis · 2015Article
- Whole genome SNP genotype piecemeal imputation.BMC bioinformatics · 2015Article
- Controlling for conservation in genome-wide DNA methylation studies.BMC genomics · 2015Article
- Fast and accurate imputation of summary statistics enhances evidence of functional enrichment.Bioinformatics (Oxford, England) · 2014Article
- PedBLIMP: extending linear predictors to impute genotypes in pedigrees.Genetic epidemiology · 2014Article
- FISH: fast and accurate diploid genotype imputation via segmental hidden Markov model.Bioinformatics (Oxford, England) · 2014Article
- A Brief Survey of Modern Optimization for Statisticians.International statistical review = Revue internationale de statistique · 2014Article
- Next Generation Statistical Genetics: Modeling, Penalization, and Optimization in High-Dimensional Data.Annual review of statistics and its application · 2014Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors.
Funding
Abstract
Most current genotype imputation methods are model-based and computationally intensive, taking days to impute one chromosome pair on 1000 people. We describe an efficient genotype imputation method based on matrix completion. Our matrix completion method is implemented in MATLAB and tested on real data from HapMap 3, simulated pedigree data, and simulated low-coverage sequencing data derived from the 1000 Genomes Project. Compared with leading imputation programs, the matrix completion algorithm embodied in our program MENDEL-IMPUTE achieves comparable imputation accuracy while reducing run times significantly. Implementation in a lower-level language such as Fortran or C is apt to further improve computational efficiency.
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.