Rapid genotype imputation from sequence with reference panels

Rapid genotype imputation from sequence with reference panels

Inexpensive genotyping methods are essential to modern genomics. Here we present QUILT, which performs diploid genotype imputation using low-coverage whole-genome sequence data. QUILT employs Gibbs sampling to partition reads into maternal and paternal sets, facilitating rapid haploid imputation usi...

書目詳細資料
Main Authors:	Davies, RW, Kucka, M, Su, D, Shi, S, Flanaghan, M, Cunniff, CM, Chan, YF, Myers, S
格式:	Journal article
語言:	English
出版:	Springer Nature 2021

相似書籍

Rapid genotype imputation from sequence without reference panels
由: Myers, S, et al.
出版: (2016)

A reference panel of 64,976 haplotypes for genotype imputation
由: Kretzschmar, W, et al.
出版: (2016)

Rapid, Reference-Free human genotype imputation with denoising autoencoders
由: Raquel Dias, et al.
出版: (2022-09-01)

Development and validation of a horse reference panel for genotype imputation
由: Paula Reich, et al.
出版: (2022-07-01)

PHARP: a pig haplotype reference panel for genotype imputation
由: Zhen Wang, et al.
出版: (2022-07-01)

A genotype imputation reference panel specific for native Southeast Asian populations
由: Alvin Cengnata, et al.
出版: (2024-10-01)

Author Correction: PHARP: a pig haplotype reference panel for genotype imputation
由: Zhen Wang, et al.
出版: (2022-08-01)

A population-specific reference panel for improved genotype imputation in African Americans
由: Jared O’Connell, et al.
出版: (2021-11-01)

Genotype Imputation for Latinos Using the HapMap and 1000 Genomes Project Reference Panels
由: Xiaoyi eGao, et al.
出版: (2012-06-01)

Comparison of genotype imputation strategies using a combined reference panel for chicken population
由: S. Ye, et al.
出版: (2019-01-01)

A rapid and reference-free imputation method for low-cost genotyping platforms
由: Vinh Chi Duong, et al.
出版: (2023-12-01)

Optimizing Selection of the Reference Population for Genotype Imputation From Array to Sequence Variants
由: Adrien M. Butty, et al.
出版: (2019-05-01)

Development and evaluation of a haplotype reference panel for low-coverage whole genome sequencing genotype imputation in turbot (Scophthalmus maximus)
由: Junwen Cao, et al.
出版: (2025-04-01)

MergeReference: A Tool for Merging Reference Panels for HLA Imputation
由: Seungho Cook, et al.
出版: (2017-09-01)

A diverse ancestrally-matched reference panel increases genotype imputation accuracy in a underrepresented population
由: John Mauleekoonphairoj, et al.
出版: (2023-07-01)

How local reference panels improve imputation in French populations
由: Anthony F. Herzig, et al.
出版: (2024-01-01)

Imputation accuracy of wheat genotyping-by-sequencing (GBS) data using barley and wheat genome references.
由: Hadi Alipour, et al.
出版: (2019-01-01)

Utilizing genotype imputation for the augmentation of sequence data.
由: Brooke L Fridley, et al.
出版: (2010-06-01)

The size and composition of haplotype reference panels impact the accuracy of imputation from low-pass sequencing in cattle
由: Audald Lloret-Villas, et al.
出版: (2023-05-01)

Evaluation of imputation performance of multiple reference panels in a Pakistani population
由: Jiayi Xu, et al.
出版: (2025-04-01)

Reconstruction of private genomes through reference-based genotype imputation
由: Matthew J. Mosca, et al.
出版: (2023-12-01)

Evaluating Imputation Algorithms for Low-Depth Genotyping-By-Sequencing (GBS) Data.
由: Ariel W Chan, et al.
出版: (2016-01-01)

Genotype Imputation
由: Marchini, J
出版: (2011)

Imputation of missing genotypes: an empirical evaluation of IMPUTE
由: Steinberg Martin H, et al.
出版: (2008-12-01)

Genotype imputation strategies for Portuguese Holstein cattle using different SNP panels
由: Alessandra Alves Silva, et al.
出版: (2019-09-01)

A reference haplotype panel for genome-wide imputation of short tandem repeats
由: Shubham Saini, et al.
出版: (2018-10-01)

A globally diverse reference alignment and panel for imputation of mitochondrial DNA variants
由: Tim W. McInerney, et al.
出版: (2021-09-01)

Rare Variants Imputation in Admixed Populations: Comparison Across Reference Panels and Bioinformatics Tools
由: Sanjeev Sariya, et al.
出版: (2019-04-01)

Comparison of multiple imputation and other methods for the analysis of imputed genotypes
由: Paul L. Auer, et al.
出版: (2023-06-01)

Genotype imputation with thousands of genomes.
由: Howie, B, et al.
出版: (2011)

Improved imputation accuracy of rare and low-frequency variants using population-specific high-coverage WGS-based imputation reference panel
由: Mitt, Mario, et al.
出版: (2018)

Regional genetic differences among Japanese populations and performance of genotype imputation using whole-genome reference panel of the Tohoku Medical Megabank Project
由: Jun Yasuda, et al.
出版: (2018-07-01)

Novel methods for genotype imputation to whole-genome sequence and a simple linear model to predict imputation accuracy
由: Steven G. Larmer, et al.
出版: (2017-12-01)

Inclusion of Population-specific Reference Panel from India to the 1000 Genomes Phase 3 Panel Improves Imputation Accuracy
由: Meraj Ahmad, et al.
出版: (2017-07-01)

Comparing algorithms for genotype imputation.
由: Marchini, J, et al.
出版: (2008)

Current software for genotype imputation
由: Ellinghaus David, et al.
出版: (2009-07-01)

The SWine IMputation (SWIM) haplotype reference panel enables nucleotide resolution genetic mapping in pigs
由: Rongrong Ding, et al.
出版: (2023-05-01)

The NBDC-DDBJ imputation server facilitates the use of controlled access reference panel datasets in Japan
由: Tsuyoshi Hachiya, et al.
出版: (2022-12-01)

A multi-breed reference panel and additional rare variants maximize imputation accuracy in cattle
由: Troy N. Rowan, et al.
出版: (2019-12-01)

Data supporting the high-accuracy haplotype imputation using unphased genotype data as the references
由: Wenzhi Li, et al.
出版: (2016-09-01)