Author

Yi Liao

South China Agricultural UniversityORCID 0000-0002-7724-1799Unclaimed ORCID profile · follow to get notified of new preprints

Additional preprints under this name without ORCID

Yi Liao2 papers · University of Utah

Biology Disciplines

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Genomics· 3 Evolutionary Biology· 2 Bioinformatics· 1

Signature Assays, Organisms & Methods

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Assay:whole-genome sequencing· 6 Organism:plant (other)· 3 Approach:benchmark study· 2 Research Focus:chromatin & epigenetic regulation· 2 Research Focus:database / resource· 2 Approach:experimental assay· 2 Research Focus:gene regulatory network inference· 2 Approach:statistical model· 2

Frequent Co-Authors

J. J. EmersoniD· 3 shared Jinfeng CheniD· 3 shared Mahul ChakrabortyiD· 3 shared Brandon S. GautiD· 2 shared Yongfeng ZhouiD· 2 shared Adam J. Hellinga· 1 shared Alejandra SamanoiD· 1 shared Amanda M. LarracuenteiD· 1 shared

Activity by Year

2019-2025 · peak 3/yr

Co-Author Collaboration Network

10 top collaborators · 18 mutual co-author links

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3 shared papersGenomics

J. J. EmersonORCID

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6 papers

Recent·Most cited

Genome structural variants shape adaptive success of an invasive urban malaria vector Anopheles stephensi

Alejandra Samano, Naveen Kumar, Yi Liao, Farah Ishtiaq, Mahul Chakraborty

This study identifies structural variants in Anopheles stephensi that contribute to its adaptive success in invasive environments.

Molecular Biology and Evolution · Jun 1, 2025Peer-reviewedEvolutionary Biology

Accelerated genome shuffling associated with rapid evolution of sexual conflict in seed beetles

Weiyao Chen, Jinshuai Zhao, Miaojin Lin, Changyou Liu, Liqiang Xie, Lixia Wang, Xiaoming Zhang, Yi Liao, Jinfeng Chen

The paper investigates structural variants in seed beetles, linking them to rapid evolution of sex chromosomes and sex-biased gene expression.

bioRxiv · Feb 24, 2025 · PreprintEvolutionary Biology

Benchmarking, detection, and genotyping of structural variants in a population of whole-genome assemblies using the SVGAP pipeline

Ming Hu, Penglong Wan, Chengjie Chen, Shuyuan Tang, Jiahao Chen, Liang Wang, Mahul Chakraborty, Yongfeng Zhou, Jinfeng Chen, Brandon S. Gaut, J. J. Emerson, Yi Liao

The paper benchmarks and evaluates SVGAP, a pipeline for structural variant discovery, genotyping, and annotation in whole-genome assemblies, showing its effectiveness in maize genomes.

bioRxiv · Feb 7, 2025 · PreprintBioinformatics

The 3D architecture of the pepper (Capsicum annum) genome and its relationship to function and evolution

Yi Liao, Juntao Wang, Zhangsheng Zhu, Yuanlong Liu, Jinfeng Chen, Yongfeng Zhou, Feng Liu, Jianjun Lei, Brandon S. Gaut, Bihao Cao, J. J. Emerson, Changming Chen

This study investigates the 3D genome organization of pepper, showing how chromatin structure relates to gene expression and evolution.

Nature Communications · Jun 16, 2022Peer-reviewedGenomics

Evolution of genome structure in the Drosophila simulans species complex

Mahul Chakraborty, Ching-Ho Chang, Danielle E. Khost, Jeffrey Vedanayagam, Jeffrey R. Adrion, Yi Liao, Kristi L. Montooth, Colin D. Meiklejohn, Amanda M. Larracuente, J. J. Emerson

The paper generates high-quality genomes for Drosophila simulans species complex to study repetitive DNA evolution and structural divergence between species.

Genome Research · Mar 1, 2021Peer-reviewedGenomics

Benchmarking Transposable Element Annotation Methods for Creation of a Streamlined, Comprehensive Pipeline

Shujun Ou, Weija Su, Yi Liao, Kapeel M. Chougule, Jireh R. A. Agda, Adam J. Hellinga, Carlos Santiago Blanco Lugo, Tyler A. Elliott, Doreen Ware, Thomas Peterson, Ning Jiang, Candice N. Hirsch, Matthew B. Hufford

The paper benchmarks TE annotation methods and develops a pipeline called EDTA to create a comprehensive, condensed TE library for both intact and fragmented elements in rice genomes.

Genome biology · Dec 16, 2019Peer-reviewedGenomics