ArticlePloS one2014
A new genotype imputation method with tolerance to high missing rate and rare variants.
Article in PloS one, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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
17 citing papers in PubMed.
- KBeagle: An Adaptive Strategy and Tool for Improving Imputation Accuracy and Computation Time.International journal of molecular sciences · 2025Article
- Multi-omics Integrative Analysis for Incomplete Data Using WeightedJournal of agricultural, biological, and environmental statistics · 2025Article
- Genomic prediction and genome-wide association study using combined genotypic data from different genotyping systems: application to apple fruit quality traits.Horticulture research · 2024Article
- A Pipeline for Phasing and Genotype Imputation on Mixed Human Data (Parents-Offspring Trios and Unrelated Subjects) by Reviewing Current Methods and Software.Life (Basel, Switzerland) · 2022Review
- A chromosomal inversion may facilitate adaptation despite periodic gene flow in a freshwater fish.Ecology and evolution · 2022Article
- Genome-wide selection signatures detection in Shanghai Holstein cattle population identified genes related to adaption, health and reproduction traits.BMC genomics · 2021Review
- Genome-Wide Association Mapping for Yield and Related Traits Under Drought Stressed and Non-stressed Environments in Wheat.Frontiers in genetics · 2021Article
- Exploring the Structure of Haplotype Blocks and Genetic Diversity in Chinese Indigenous Pig Populations for Conservation Purpose.Evolutionary bioinformatics online · 2019Article
- Identifying Genetic Differences Between Dongxiang Blue-Shelled and White Leghorn Chickens Using Sequencing Data.G3 (Bethesda, Md.) · 2018Article
- Genomic Prediction and Association Mapping of Curd-Related Traits in Gene Bank Accessions of Cauliflower.G3 (Bethesda, Md.) · 2018Article
- Haplotype-based genome-wide association study identifies loci and candidate genes for milk yield in Holsteins.PloS one · 2018Article
- Genotyping-by-sequencing provides the discriminating power to investigate the subspecies of Daucus carota (Apiaceae).BMC evolutionary biology · 2016Article
- Impact of imputation methods on the amount of genetic variation captured by a single-nucleotide polymorphism panel in soybeans.BMC bioinformatics · 2016Article
- Construction of relatedness matrices using genotyping-by-sequencing data.BMC genomics · 2015Article
- Genetic diversity and population structure of six Chinese indigenous pig breeds in the Taihu Lake region revealed by sequencing data.Animal genetics · 2015Article
- Article
- A genome-wide scan for selection signatures in Yorkshire and Landrace pigs based on sequencing data.Animal genetics · 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
9 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
We report a novel algorithm, iBLUP, to impute missing genotypes by simultaneously and comprehensively using identity by descent and linkage disequilibrium information. The simulation studies showed that the algorithm exhibited drastically tolerance to high missing rate, especially for rare variants than other common imputation methods, e.g. BEAGLE and fastPHASE. At a missing rate of 70%, the accuracy of BEAGLE and fastPHASE dropped to 0.82 and 0.74 respectively while iBLUP retained an accuracy of 0.95. For minor allele, the accuracy of BEAGLE and fastPHASE decreased to -0.1 and 0.03, while iBLUP still had an accuracy of 0.61.We implemented the algorithm in a publicly available software package also named iBLUP. The application of iBLUP for processing real sequencing data in an outbred pig population was demonstrated.
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.