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Statistical and computational genetics

Section edited by Rongling Wu

This section incorporates all aspects of statistical and computational genetics, including but not limited to: methods and applications for the analysis of all types of genetic data.

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  1. Content type: Methodology article

    In recent years, with the development of high-throughput sequencing technology and the commercial availability of genotyping bead chips, more attention is being directed towards the utilization of abundant gen...

    Authors: Ning Gao, Jiaqi Li, Jinlong He, Guang Xiao, Yuanyu Luo, Hao Zhang, Zanmou Chen and Zhe Zhang

    Citation: BMC Genetics 2015 16:120

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  2. Content type: Methodology article

    A complete approach for genome-wide selection (GWS) involves reliable statistical genetics models and methods. Reports on this topic are common for additive genetic models but not for additive-dominance models...

    Authors: Camila Ferreira Azevedo, Marcos Deon Vilela de Resende, Fabyano Fonseca e Silva, José Marcelo Soriano Viana, Magno Sávio Ferreira Valente, Márcio Fernando Ribeiro Resende Jr and Patricio Muñoz

    Citation: BMC Genetics 2015 16:105

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  3. Content type: Research article

    Genotype imputation is a common technique in genetic research. Genetic similarity between target population and reference dataset is crucial for high-quality results. Although several reference panels are avai...

    Authors: Nab Raj Roshyara and Markus Scholz

    Citation: BMC Genetics 2015 16:90

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  4. Content type: Research article

    Accurate genotype imputation can greatly reduce costs and increase benefits by combining whole-genome sequence data of varying read depth and array genotypes of varying densities. For large populations, an eff...

    Authors: Paul M. VanRaden, Chuanyu Sun and Jeffrey R. O’Connell

    Citation: BMC Genetics 2015 16:82

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  5. Content type: Research article

    Strategies for imputing genotypes from the Illumina-Bovine3K, Illumina-BovineLD (6K), BeefLD-GGP (8K), a non-commercial-15K and IndicusLD-GGP (20K) to either Illumina-BovineSNP50 (50K) or to Illumina-BovineHD ...

    Authors: Mario L Piccoli, José Braccini, Fernando F Cardoso, Medhi Sargolzaei, Steven G Larmer and Flávio S Schenkel

    Citation: BMC Genetics 2014 15:157

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  6. Content type: Research article

    Genome-wide Association Studies (GWAS) are typically designed to identify phenotype-associated single nucleotide polymorphisms (SNPs) individually using univariate analysis methods. Though providing valuable insi...

    Authors: Xiaoshuai Zhang, Fuzhong Xue, Hong Liu, Dianwen Zhu, Bin Peng, Joseph L Wiemels and Xiaowei Yang

    Citation: BMC Genetics 2014 15:130

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  7. Content type: Research article

    Two genetic marker-based methods are compared for use in breed prediction, using a New Zealand sheep resource. The methods were a genomic selection (GS) method, using genomic BLUP, and a regression method (Reg...

    Authors: Ken G Dodds, Benoît Auvray, Sheryl-Anne N Newman and John C McEwan

    Citation: BMC Genetics 2014 15:92

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  8. Content type: Research article

    Imputation of partially missing or unobserved genotypes is an indispensable tool for SNP data analyses. However, research and understanding of the impact of initial SNP-data quality control on imputation resul...

    Authors: Nab Raj Roshyara, Holger Kirsten, Katrin Horn, Peter Ahnert and Markus Scholz

    Citation: BMC Genetics 2014 15:88

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  9. Content type: Methodology article

    Cox-regression-based methods have been commonly used for the analyses of survival outcomes, such as age-at-disease-onset. These methods generally assume the hazard functions are proportional among various risk...

    Authors: Ming Li, Joseph C Gardiner, Naomi Breslau, James C Anthony and Qing Lu

    Citation: BMC Genetics 2014 15:79

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  10. Content type: Research article

    The expense of human leukocyte antigen (HLA) allele genotyping has motivated the development of imputation methods that use dense single nucleotide polymorphism (SNP) genotype data and the region’s haplotype stru...

    Authors: Albert M Levin, Indra Adrianto, Indrani Datta, Michael C Iannuzzi, Sheri Trudeau, Paul McKeigue, Courtney G Montgomery and Benjamin A Rybicki

    Citation: BMC Genetics 2014 15:72

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  11. Content type: Research article

    Maternal-fetal genotype incompatibility (MFGI) is increasingly reported to influence human diseases, especially pregnancy-related complications. In practice, it is challenging to identify the ideal incompatibi...

    Authors: Shaoyu Li, Yuehua Cui and Roberto Romero

    Citation: BMC Genetics 2014 15:66

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