Prescreening of large-effect markers with multiple strategies improves the accuracy of genomic prediction

Authors: Keanning Li, Bingxing An, Mang Liang, Tianpeng Chang, Tianyu Deng, Lili Du, Sheng Cao, Yueying Du, Hongyan Li, Lingyang Xu, Lupei Zhang, Xue Gao, Junya LI, Huijiang Gao

Source: Journal of Integrative Agriculture, Vol 23, Iss 5, Pp 1634-1643 (2024)

Subject Terms: multi-omics data, features prescreening, eQTL mapping, Huaxi cattle, genomic selection, Agriculture (General), S1-972

File Description: electronic resource

Relation: http://www.sciencedirect.com/science/article/pii/S2095311923004458; https://doaj.org/toc/2095-3119

Access URL: https://doaj.org/article/174d1302262e4897b4aa7669990028b7

Genome-Wide Gene–Environment Interaction Analysis Identifies Novel Candidate Variants for Growth Traits in Beef Cattle

Authors: Tianyu Deng, Keanning Li, Lili Du, Mang Liang, Li Qian, Qingqing Xue, Shiyuan Qiu, Lingyang Xu, Lupei Zhang, Xue Gao, Xianyong Lan, Junya Li, Huijiang Gao

Source: Animals, Vol 14, Iss 11, p 1695 (2024)

Subject Terms: genotype-by-environment interaction, robust estimator, cattle, gene-based analysis, gene-set analysis, Veterinary medicine, SF600-1100, Zoology, QL1-991

File Description: electronic resource

Relation: https://www.mdpi.com/2076-2615/14/11/1695; https://doaj.org/toc/2076-2615

Access URL: https://doaj.org/article/e1253c5ef77f45fdb9df57ff62c542a7

Incorporating kernelized multi-omics data improves the accuracy of genomic prediction

Authors: Mang Liang, Bingxing An, Tianpeng Chang, Tianyu Deng, Lili Du, Keanning Li, Sheng Cao, Yueying Du, Lingyang Xu, Lupei Zhang, Xue Gao, Junya Li, Huijiang Gao

Source: Journal of Animal Science and Biotechnology, Vol 13, Iss 1, Pp 1-10 (2022)

Subject Terms: BLUP, Cosine kernel, Genomic prediction, Transcriptome, Animal culture, SF1-1100, Veterinary medicine, SF600-1100

File Description: electronic resource

Relation: https://doaj.org/toc/2049-1891

Access URL: https://doaj.org/article/166382f0fcab4ba79de31f7559573a7f

Incorporating genome-wide and transcriptome-wide association studies to identify genetic elements of longissimus dorsi muscle in Huaxi cattle

Authors: Mang Liang, Bingxing An, Tianyu Deng, Lili Du, Keanning Li, Sheng Cao, Yueying Du, Lingyang Xu, Lupei Zhang, Xue Gao, Yang Cao, Yuming Zhao, Junya Li, Huijiang Gao

Source: Frontiers in Genetics, Vol 13 (2023)

Subject Terms: longissimus dorsi muscle, GWAS, TWAS, FCT, Huaxi cattle, Genetics, QH426-470

File Description: electronic resource

Relation: https://www.frontiersin.org/articles/10.3389/fgene.2022.982433/full; https://doaj.org/toc/1664-8021

Access URL: https://doaj.org/article/66d58d4f45264bdf89739bf97f6acf54

Transcriptome profiling analysis of muscle tissue reveals potential candidate genes affecting water holding capacity in Chinese Simmental beef cattle

Authors: Lili Du, Tianpeng Chang, Bingxing An, Mang Liang, Xinghai Duan, Wentao Cai, Bo Zhu, Xue Gao, Yan Chen, Lingyang Xu, Lupei Zhang, Junya Li, Huijiang Gao

Source: Scientific Reports, Vol 11, Iss 1, Pp 1-14 (2021)

Subject Terms: Medicine, Science

File Description: electronic resource

Relation: https://doaj.org/toc/2045-2322

Access URL: https://doaj.org/article/807e7b0a526e4c28b17663279f2cce7b

Improving Genomic Prediction with Machine Learning Incorporating TPE for Hyperparameters Optimization

Authors: Mang Liang, Bingxing An, Keanning Li, Lili Du, Tianyu Deng, Sheng Cao, Yueying Du, Lingyang Xu, Xue Gao, Lupei Zhang, Junya Li, Huijiang Gao

Source: Biology, Vol 11, Iss 11, p 1647 (2022)

Subject Terms: hyperparameters optimization, tree-structured Parzen estimator, genomic prediction, machine learning, Biology (General), QH301-705.5

File Description: electronic resource

Relation: https://www.mdpi.com/2079-7737/11/11/1647; https://doaj.org/toc/2079-7737

Access URL: https://doaj.org/article/41e07fee139348bdae5abb1f9ab9497f

PacBio Single-Molecule Long-Read Sequencing Provides New Light on the Complexity of Full-Length Transcripts in Cattle

Authors: Tianpeng Chang, Bingxing An, Mang Liang, Xinghai Duan, Lili Du, Wentao Cai, Bo Zhu, Xue Gao, Yan Chen, Lingyang Xu, Lupei Zhang, Huijiang Gao, Junya Li

Source: Frontiers in Genetics, Vol 12 (2021)

Subject Terms: cattle, PacBio single-molecule long-read sequencing, full-length transcript, alternative splicing, alternative polyadenylation, long non-coding RNA, Genetics, QH426-470

File Description: electronic resource

Relation: https://www.frontiersin.org/articles/10.3389/fgene.2021.664974/full; https://doaj.org/toc/1664-8021

Access URL: https://doaj.org/article/5db086f454bb49cc96c4185ad8c8519f

A Stacking Ensemble Learning Framework for Genomic Prediction

Authors: Mang Liang, Tianpeng Chang, Bingxing An, Xinghai Duan, Lili Du, Xiaoqiao Wang, Jian Miao, Lingyang Xu, Xue Gao, Lupei Zhang, Junya Li, Huijiang Gao

Source: Frontiers in Genetics, Vol 12 (2021)

Subject Terms: ensemble learning, stacking, genomic prediction, machine learning, prediction accuracy, Genetics, QH426-470

File Description: electronic resource

Relation: https://www.frontiersin.org/articles/10.3389/fgene.2021.600040/full; https://doaj.org/toc/1664-8021

Access URL: https://doaj.org/article/e7a7b1fab9e34cc2bbb5aebb8efc3b48

Genome-Wide Association Study Based on Random Regression Model Reveals Candidate Genes Associated with Longitudinal Data in Chinese Simmental Beef Cattle

Authors: Lili Du, Xinghai Duan, Bingxing An, Tianpeng Chang, Mang Liang, Lingyang Xu, Lupei Zhang, Junya Li, Guangxin E, Huijiang Gao

Source: Animals, Vol 11, Iss 9, p 2524 (2021)

Subject Terms: random regression model, longitudinal trait, GWAS, Chinese Simmental beef cattle, Veterinary medicine, SF600-1100, Zoology, QL1-991

File Description: electronic resource

Relation: https://www.mdpi.com/2076-2615/11/9/2524; https://doaj.org/toc/2076-2615

Access URL: https://doaj.org/article/dce7e98163634b3c937f3502cb092a49

Genome-Wide Association Analysis of Growth Curve Parameters in Chinese Simmental Beef Cattle

Authors: Xinghai Duan, Bingxing An, Lili Du, Tianpeng Chang, Mang Liang, Bai-Gao Yang, Lingyang Xu, Lupei Zhang, Junya Li, Guangxin E, Huijiang Gao

Source: Animals, Vol 11, Iss 1, p 192 (2021)

Subject Terms: longitudinal data, growth curve model, single-trait GWAS, multi-trait GWAS, Chinese Simmental beef cattle, Veterinary medicine, SF600-1100, Zoology, QL1-991

File Description: electronic resource

Relation: https://www.mdpi.com/2076-2615/11/1/192; https://doaj.org/toc/2076-2615

Access URL: https://doaj.org/article/0a6f6a91dc45405e9d9e87c8349f1fa5

A Fast and Powerful Empirical Bayes Method for Genome-Wide Association Studies

Authors: Tianpeng Chang, Julong Wei, Mang Liang, Bingxing An, Xiaoqiao Wang, Bo Zhu, Lingyang Xu, Lupei Zhang, Xue Gao, Yan Chen, Junya Li, Huijiang Gao

Source: Animals, Vol 9, Iss 6, p 305 (2019)

Subject Terms: empirical Bayes, genome-wide association study, kinship matrix, linear mixed model, proximal contamination, Veterinary medicine, SF600-1100, Zoology, QL1-991

File Description: electronic resource

Relation: https://www.mdpi.com/2076-2615/9/6/305; https://doaj.org/toc/2076-2615

Access URL: https://doaj.org/article/84adb748f6c240a7a322a8e2a2d9c29b

Extended neural network solution of radar tracking problems

Authors: Dend-Jyi Juang, Kuo-Chang Hu, Mang-Liang Lee, Chih-Yung Wang, Yi-Nung Chung

Source: TENCON 2007 - 2007 IEEE Region 10 Conference. :1-4 Oct, 2007

Relation: TENCON 2007

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