A Genome Scanning Approach to Assess the Genetic Effects of Radiation in Mice and Humans

2004 ◽  
Vol 161 (4) ◽  
pp. 380-390 ◽  
Author(s):  
Jun-ichi Asakawa ◽  
Rork Kuick ◽  
Mieko Kodaira ◽  
Nori Nakamura ◽  
Hiroaki Katayama ◽  
...  
Keyword(s):  
Genetic Effects ◽  
Genome Scanning ◽  
A Genome ◽  
Effects Of Radiation

Perspective on Genetic Effects of Radiation

1984 ◽  
Vol 46 (5) ◽  
pp. 1113-1121 ◽  
Author(s):  
Bernard L. Cohen
Keyword(s):  
Genetic Effects ◽  
Effects Of Radiation

ADDO: a comprehensive toolkit to detect, classify and visualize additive and non-additive quantitative trait loci

2019 ◽  
Vol 36 (5) ◽  
pp. 1517-1521
Author(s):  
Leilei Cui ◽  
Bin Yang ◽  
Nikolas Pontikos ◽  
Richard Mott ◽  
Lusheng Huang
Keyword(s):  
Quantitative Trait Loci ◽  
Quantitative Trait ◽  
Association Studies ◽  
Genetic Effects ◽  
Supplementary Information ◽  
Genome Wide Association Studies ◽  
Additive Effects ◽  
A Genome ◽  
Trait Loci ◽  
Additive Genetic Effects

Abstract Motivation During the past decade, genome-wide association studies (GWAS) have been used to map quantitative trait loci (QTLs) underlying complex traits. However, most GWAS focus on additive genetic effects while ignoring non-additive effects, on the assumption that most QTL act additively. Consequently, QTLs driven by dominance and other non-additive effects could be overlooked. Results We developed ADDO, a highly efficient tool to detect, classify and visualize QTLs with additive and non-additive effects. ADDO implements a mixed-model transformation to control for population structure and unequal relatedness that accounts for both additive and dominant genetic covariance among individuals, and decomposes single-nucleotide polymorphism effects as either additive, partial dominant, dominant or over-dominant. A matrix multiplication approach is used to accelerate the computation: a genome scan on 13 million markers from 900 individuals takes about 5 h with 10 CPUs. Analysis of simulated data confirms ADDO’s performance on traits with different additive and dominance genetic variance components. We showed two real examples in outbred rat where ADDO identified significant dominant QTL that were not detectable by an additive model. ADDO provides a systematic pipeline to characterize additive and non-additive QTL in whole genome sequence data, which complements current mainstream GWAS software for additive genetic effects. Availability and implementation ADDO is customizable and convenient to install and provides extensive analytics and visualizations. The package is freely available online at https://github.com/LeileiCui/ADDO. Supplementary information Supplementary data are available at Bioinformatics online.

Genetic mapping of genes for susceptibility to black spot disease in Japanese pears

Genome ◽  
2007 ◽  
Vol 50 (8) ◽  
pp. 735-741 ◽  
Author(s):  
S. Terakami ◽  
Y. Adachi ◽  
H. Iketani ◽  
Y. Sato ◽  
Y. Sawamura ◽  
...  
Keyword(s):  
Black Spot ◽  
Japanese Pear ◽  
Pyrus Pyrifolia ◽  
Breeding Programs ◽  
Spot Disease ◽  
Genome Scanning ◽  
A Genome ◽  
Susceptibility And Resistance ◽  
Different Sources ◽  
Black Spot Disease

Black spot disease, which is caused by the Japanese pear pathotype of Alternaria alternata (Fr.) Keissler, is one of the most harmful diseases in Japanese pear cultivation. We identified the exact positions and linkage groups (LGs) of the genes for susceptibility to black spot in the Japanese pear ( Pyrus pyrifolia Nakai) cultivars ‘Osa Nijisseiki’ (gene Ani) and ‘Nansui’ (gene Ana). Segregation of susceptibility and resistance fitted the expected ratio of 1:1 in progeny of ‘Nansui’ but showed a slight distortion in progeny of ‘Osa Nijisseiki’. We mapped the genes for susceptibility to black spot in both populations using a genome scanning approach. The simple sequence repeat (SSR) markers CH04h02 and CH03d02 showed tight linkage to Ani and Ana. Although Ani and Ana are derived from different sources, both genes are located at the top region of LG 11. Information about the positions of the susceptibility genes and the molecular markers linked to them will be useful for marker-assisted selection in pear breeding programs.

scholarly journals Contribution of DNA methylation to oncogenesis: Results of a genome scanning approach in multiple human tumors

10.1038/87252 ◽  
2001 ◽  
Vol 27 (S4) ◽  
pp. 80-80
Author(s):  
Christoph Plass ◽  
Michael C. Frühwald ◽  
Laura J. Rush ◽  
Zunyan Dai ◽  
Laura T. Smith ◽  
...  
Keyword(s):  
Dna Methylation ◽  
Human Tumors ◽  
Genome Scanning ◽  
A Genome
Sign in / Sign up

Export Citation Format

Share Document