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. Methodology article

    Evaluation of forensic DNA mixture evidence: protocol for evaluation, interpretation, and statistical calculations using the combined probability of inclusion

    The evaluation and interpretation of forensic DNA mixture evidence faces greater interpretational challenges due to increasingly complex mixture evidence. Such challenges include: casework involving low quanti...

    Frederick R. Bieber, John S. Buckleton, Bruce Budowle, John M. Butler and Michael D. Coble

    BMC Genetics 2016 17:125

    Published on: 31 August 2016

  2. Research article

    The genetic variants in 3’ untranslated region of voltage-gated sodium channel alpha 1 subunit gene affect the mRNA-microRNA interactions and associate with epilepsy

    mRNA expression in a cell or subcellular organelle is precisely regulated for the purpose of gene function regulation. The 3’ untranslated region (3’UTR) of mRNA is the binding target of microRNA and RNA bindi...

    Tian Li, Yaoyun Kuang and Bin Li

    BMC Genetics 2016 17:111

    Published on: 29 July 2016

  3. Methodology Article

    A new model calling procedure for Illumina BeadArray data

    Accurate genotype calling for high throughput Illumina data is an important step to extract more genetic information for a large scale genome wide association studies. Many popular calling algorithms use mixtu...

    Gengxin Li

    BMC Genetics 2016 17:90

    Published on: 24 June 2016

  4. Software

    Fragman: an R package for fragment analysis

    Determination of microsatellite lengths or other DNA fragment types is an important initial component of many genetic studies such as mutation detection, linkage and quantitative trait loci (QTL) mapping, gene...

    Giovanny Covarrubias-Pazaran, Luis Diaz-Garcia, Brandon Schlautman, Walter Salazar and Juan Zalapa

    BMC Genetics 2016 17:62

    Published on: 21 April 2016

  5. Methodology Article

    Principal components analysis - K-means transposon element based foxtail millet core collection selection method

    Core collections are important tools in genetic resources research and administration. At present, most core collection selection criteria are based on one of the following item characteristics: passport data,...

    Ernesto Borrayo, Ryoko Machida-Hirano, Masaru Takeya, Makoto Kawase and Kazuo Watanabe

    BMC Genetics 2016 17:42

    Published on: 16 February 2016

  6. Methodology article

    A powerful score-based test statistic for detecting gene-gene co-association

    The genetic variants identified by Genome-wide association study (GWAS) can only account for a small proportion of the total heritability for complex disease. The existence of gene-gene joint effects which con...

    Jing Xu, Zhongshang Yuan, Jiadong Ji, Xiaoshuai Zhang, Hongkai Li, Xuesen Wu, Fuzhong Xue and Yanxun Liu

    BMC Genetics 2016 17:31

    Published on: 29 January 2016

  7. Methodology article

    Ridge, Lasso and Bayesian additive-dominance genomic models

    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...

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

    BMC Genetics 2015 16:105

    Published on: 25 August 2015

  8. Research article

    Impact of genetic similarity on imputation accuracy

    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...

    Nab Raj Roshyara and Markus Scholz

    BMC Genetics 2015 16:90

    Published on: 22 July 2015

  9. Research article

    Fast imputation using medium or low-coverage sequence data

    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...

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

    BMC Genetics 2015 16:82

    Published on: 14 July 2015

  10. Research article

    Accuracy of genome-wide imputation in Braford and Hereford beef cattle

    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 ...

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

    BMC Genetics 2014 15:157

    Published on: 29 December 2014

  11. Research article

    Integrative Bayesian variable selection with gene-based informative priors for genome-wide association studies

    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...

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

    BMC Genetics 2014 15:130

    Published on: 10 December 2014

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