SNP genotype calling and quality control for multi-batch-based studies

• Published in: Genes & genomics Vol. 41; no. 8; pp. 927 - 939
• Main Authors: Seo, Sujin, Park, Kyungtaek, Lee, Jang Jae, Choi, Kyu Yeong, Lee, Kun Ho, Won, Sungho
• Format: Journal Article
• Language: English
• Published: Singapore Springer Singapore 01.08.2019; Springer Nature B.V; 한국유전학회
• Subjects: algorithms; Alzheimer disease; Alzheimer Disease - genetics; Analysis of Variance; Animal Genetics and Genomics; Biomedical and Life Sciences; Cognitive ability; cognitive disorders; Cognitive Dysfunction - genetics; Genetic analysis; Genetic Heterogeneity; Genome-Wide Association Study - methods; Genome-Wide Association Study - standards; genotype; Genotypes; Genotyping; Genotyping Techniques - methods; Genotyping Techniques - standards; Human Genetics; Humans; Life Sciences; Microbial Genetics and Genomics; Multivariate analysis; patients; Plant Genetics and Genomics; Polymorphism, Single Nucleotide; Quality control; Research Article; Single-nucleotide polymorphism; Statistical analysis; 생물학; Calling; K-medoid clustering; Batch effect; Quality control; Genome-wide association analysis

Background In genetic analyses, the term ‘batch effect’ refers to systematic differences caused by batch heterogeneity. Controlling this unintended effect is the most important step in quality control (QC) processes that precede analyses. Currently, batch effects are not appropriately controlled by...