지원사업
학술연구/단체지원/교육 등 연구자 활동을 지속하도록 DBpia가 지원하고 있어요.
커뮤니티
연구자들이 자신의 연구와 전문성을 널리 알리고, 새로운 협력의 기회를 만들 수 있는 네트워킹 공간이에요.
논문 기본 정보
- 자료유형
- 학술저널
- 저자정보
- 발행연도
- 2016.1
- 수록면
- 1 - 6 (6page)
이용수
초록· 키워드
오류제보하기
Background: Genotype imputation is an important process of predicting unknown genotypes, which uses reference population with dense genotypes to predict missing genotypes for both human and animal genetic variations at a low cost. Machine learning methods specially boosting methods have been used in genetic studies to explore the underlying genetic profile of disease and build models capable of predicting missing values of a marker.
Methods: In this study strategies and factors affecting the imputation accuracy of parent-offspring trios compared from lower-density SNP panels (5 K) to high density (10 K) SNP panel using three different Boosting methods namely TotalBoost (TB), LogitBoost (LB) and AdaBoost (AB). The methods employed using simulated data to impute the un-typed SNPs in parent-offspring trios. Four different datasets of G1 (100 trios with 5 k SNPs), G2 (100 trios with 10 k SNPs), G3 (500 trios with 5 k SNPs), and G4 (500 trio with 10 k SNPs) were simulated. In four datasets all parents were genotyped completely, and offspring genotyped with a lower density panel.
Results: Comparison of the three methods for imputation showed that the LB outperformed AB and TB for imputation accuracy. The time of computation were different between methods. The AB was the fastest algorithm. The higher SNP densities resulted the increase of the accuracy of imputation. Larger trios (i.e. 500) was better for performance of LB and TB.
Conclusions: The conclusion is that the three methods do well in terms of imputation accuracy also the dense chip is recommended for imputation of parent-offspring trios.
목차
등록된 정보가 없습니다.
참고문헌 (23)
참고문헌 신청
Meuwissen TH / 2001 / Prediction of total genetic value using genome-wide dense marker maps / Genetics 157(4):1819~1829
Boichard D / 2012 / Design of a bovine low-density SNP array optimized for imputation / PLoS One 7(3):e34130
Chen J / 2013 / On combining reference data to improve imputation accuracy / PLoS One 8(1):e55600
Li Y / 2010 / Genotype imputation / Annu Rev Genomics Hum Genet 10:387~406
Hu Y / 2010 / Analysis of untyped SNPs: maximum likelihood and imputation methods / Genet Epidemiol 34(8):803~815
Boichard D / 2012 / Design of a bovine low-density SNP array optimized for imputation / PLoS One 7(3):e34130
Chen J / 2013 / On combining reference data to improve imputation accuracy / PLoS One 8(1):e55600
Li Y / 2010 / Genotype imputation / Annu Rev Genomics Hum Genet 10:387~406
Hu Y / 2010 / Analysis of untyped SNPs: maximum likelihood and imputation methods / Genet Epidemiol 34(8):803~815
함께 읽어보면 좋을 논문
논문 유사도에 따라 DBpia 가 추천하는 논문입니다. 함께 보면 좋을 연관 논문을 확인해보세요!
-
Accuracy of genotype imputation based on reference population size and marker density in Hanwoo cattle
한국축산학회지
2021 .11
-
Properties of Genotyping-by-sequencing Analysis and Validation the Accuracy of Selected SNP Markers
한국원예학회 학술발표요지
2017 .05
-
High-quality SNP calling from olive flounder, Paralichthys olivaceus, in Jeju Island, South Korea
한국수산과학회 양식분과 학술대회
2021 .04
-
Item non-response imputation in the Korea National Health and Nutrition Examination Survey
Epidemiology and Health
2022 .01
-
Bridge SNP panel for development of Korean native chicken and genomic studies
한국가금학회 정기총회 및 학술발표회
2021 .11
-
High Level of Sequence-Variation in Sacbrood Virus (SBV) from Apis mellifera
Journal of Apiculture
2017 .11
-
Assessment Potential SNP by Genotyping-by-Sequencing from Korean Apple Core Collection
한국원예학회 학술발표요지
2016 .05
-
한우 유전자칩(Hanwoo 50K chip)을 이용한 전라북도 한우의 연관불평형 분석
Journal of Animal Breeding and Genomics
2022 .12
-
Investigation of genetic diversity and differentiation of Korean chicken populations using high-density SNP chip data
한국가금학회 정기총회 및 학술발표회
2018 .10
-
Single Nucleotide Polymorphism of TBC1D1 Gene Association with Growth Traits and Serum Clinical-Chemical Traits in Chicken
한국가금학회지
2018 .12
-
Genotyping by Sequencing-Derived SNPs를 이용한 감 신품종 유연관계 분석
한국원예학회 학술발표요지
2020 .11
-
Association Mapping and Development of SNP Marker Using GBS-Based SNPs in Apples
한국원예학회 학술발표요지
2018 .10
-
Development of High-throughput Marker Set for Seed Quality Screening in Cucurbita moschata
한국원예학회 학술발표요지
2021 .10
-
Genetic Variability and Genome-wide Association Study in Pumpkins (Cucurbita moschata)
한국원예학회 학술발표요지
2021 .05
-
Determination of Citrus Cultivars with S₃ and/or S11 Alleles by Pollination with Homozygous S₁ Seedlings of Clementine Mandarin for Self-incompatibility Gene: Origin of Clementine with S₃S11 Genotype
한국원예학회 학술발표요지
2018 .10
-
Determination of Citrus Cultivars with S9 and/or S10 Alleles by Pollination with Homozygous S₁ Seedlings of ‘Hirado Buntan’ Pummelo for Self-incompatibility Gene: Origin of Sour Orange with SfS9 Genotype
한국원예학회 학술발표요지
2019 .05
-
Development of SNP Derived CAPS Markers Using Genotyping-by-sequencing for Identification of Apple Sports
한국원예학회 학술발표요지
2017 .05
-
유전자 단위 haplotype을 대변하는 토마토 Tag-SNP 선발 및 웹 데이터베이스 구축
Journal of Plant Biotechnology
2020 .01
-
Genome-wide SNP Discovery Using Genotyping-By-Sequencing for Variety Identification in Korean Apple
한국원예학회 학술발표요지
2022 .05
-
Genetic Diversity and Population Structure Analysis Using Genotyping by Sequencing-Derived SNPs in Pear Germplasm Accessions
한국원예학회 학술발표요지
2017 .05
이 논문의 저자 정보
최근 본 자료
댓글(0)
0