Cargando…

Efficient toolkit implementing best practices for principal component analysis of population genetic data

MOTIVATION: Principal component analysis (PCA) of genetic data is routinely used to infer ancestry and control for population structure in various genetic analyses. However, conducting PCA analyses can be complicated and has several potential pitfalls. These pitfalls include (i) capturing linkage di...

Descripción completa

Detalles Bibliográficos
Autores principales:	Privé, Florian, Luu, Keurcien, Blum, Michael G B, McGrath, John J, Vilhjálmsson, Bjarni J
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	Oxford University Press 2020
Materias:	Original Papers
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7750941/ https://www.ncbi.nlm.nih.gov/pubmed/32415959 http://dx.doi.org/10.1093/bioinformatics/btaa520

Ejemplares similares

Detecting Genomic Signatures of Natural Selection with Principal Component Analysis: Application to the 1000 Genomes Data
por: Duforet-Frebourg, Nicolas, et al.
Publicado: (2016)

Headaches and polygenic scores
por: Vilhjálmsson, Bjarni J., et al.
Publicado: (2019)

LDpred2: better, faster, stronger
por: Privé, Florian, et al.
Publicado: (2020)

Improved genetic prediction of complex traits from individual-level data or summary statistics
por: Zhang, Qianqian, et al.
Publicado: (2021)

Identifying and correcting for misspecifications in GWAS summary statistics and polygenic scores
por: Privé, Florian, et al.
Publicado: (2022)

Efficient Implementation of Penalized Regression for Genetic Risk Prediction
por: Privé, Florian, et al.
Publicado: (2019)

ADuLT: An efficient and robust time-to-event GWAS
por: Pedersen, Emil M., et al.
Publicado: (2023)

Leveraging both individual-level genetic data and GWAS summary statistics increases polygenic prediction
por: Albiñana, Clara, et al.
Publicado: (2021)

Large uncertainty in individual polygenic risk score estimation impacts PRS-based risk stratification
por: Ding, Yi, et al.
Publicado: (2022)

Polygenic scoring accuracy varies across the genetic ancestry continuum
por: Ding, Yi, et al.
Publicado: (2023)

An Auto-Calibrating Knee Flexion-Extension Axis Estimator Using Principal Component Analysis with Inertial Sensors
por: McGrath, Timothy, et al.
Publicado: (2018)

Tracheostomy for COVID-19: evolving best practice
por: Williams, Thomas, et al.
Publicado: (2021)

A method to correct for the influence of bovine serum albumin-associated vitamin D metabolites in protein extracts from neonatal dried blood spots
por: Boelt, Sanne Grundvad, et al.
Publicado: (2022)

Best practices on vacuum components
por: Dr. BAGLIN, Vincent
Publicado: (2014)

An efficient classification method based on principal component and sparse representation
por: Zhai, Lin, et al.
Publicado: (2016)

IT Compliance and Controls: Best Practices for Implementation
por: DeLuccia, James J
Publicado: (2008)

Principal component analysis
por: Gray, Virginia
Publicado: (2017)

Principal component analysis
por: Jolliffe, I T
Publicado: (1986)

Principal component analysis
por: Jolliffe, I T
Publicado: (2002)

Genetic mapping of principal components of canine pelvic morphology
por: Fealey, Mark J., et al.
Publicado: (2017)

Evaluating the parent–adolescent communication toolkit: Usability and preliminary content effectiveness of an online intervention
por: Toombs, Elaine, et al.
Publicado: (2017)

Correction: McGrath, T., et al. An Auto-Calibrating Knee Flexion-Extension Axis Estimator using Principal Component Analysis with Inertial Sensors. Sensors 2018, 18(6), 1882
por: McGrath, Timothy, et al.
Publicado: (2019)

Efficient analysis of large-scale genome-wide data with two R packages: bigstatsr and bigsnpr
por: Privé, Florian, et al.
Publicado: (2018)

Stable Tensor Principal Component Pursuit: Error Bounds and Efficient Algorithms
por: Fang, Wei, et al.
Publicado: (2019)

CGG toolkit: Software components for computational genomics
por: Vasileiou, Dimitrios, et al.
Publicado: (2023)

An efficient multi-locus mixed model approach for genome-wide association studies in structured populations
por: Segura, Vincent, et al.
Publicado: (2012)

A user`s guide to principal components
por: Jackson, J. Edward
Publicado: (1991)

PhenoSpD: an integrated toolkit for phenotypic correlation estimation and multiple testing correction using GWAS summary statistics
por: Zheng, Jie, et al.
Publicado: (2018)

Generalized principal component analysis
por: Vidal, René, et al.
Publicado: (2016)

Implementation of Recruitment and Sourcing Best Practices
por: Silva, Gabriele
Publicado: (2011)

SAP planning: best practices in implementation
por: Anderson, George W
Publicado: (2003)

Multi-PGS enhances polygenic prediction by combining 937 polygenic scores
por: Albiñana, Clara, et al.
Publicado: (2023)

Hierarchical association of COPD to principal genetic components of biological systems
por: Carlin, Daniel E., et al.
Publicado: (2023)

A principal components analysis of factors associated with successful implementation of an LVAD decision support tool
por: Kostick, Kristin M., et al.
Publicado: (2021)

Genetic correlates of vitamin D-binding protein and 25-hydroxyvitamin D in neonatal dried blood spots
por: Albiñana, Clara, et al.
Publicado: (2023)

Selection of microbial biomarkers with genetic algorithm and principal component analysis
por: Zhang, Ping, et al.
Publicado: (2019)

2021 Bioinformatics and Translational Informatics Best Papers
por: Benton, Mary Lauren, et al.
Publicado: (2022)

Implementation of supervised principal component analysis for global sensitivity analysis of models with correlated inputs
por: Sharbaf, Mohammad Ali Mohammad Jafar, et al.
Publicado: (2022)

Principal component neural networks : theory and applications
por: Diamantaras, Konstantinos I.
Publicado: (1996)

Linking the association between circRNAs and Alzheimer’s disease progression by multi-tissue circular RNA characterization
por: Lo, IJu, et al.
Publicado: (2020)

Cannot write session to /tmp/vufind_sessions/sess_3notjfcstv93dnv4tef60siuo4