Publications by authors named "Chuyu Ye"

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Diverse genetic mechanisms underlie worldwide convergent rice feralization.
Jie Qiu, Lei Jia, Dongya Wu, Xifang Weng, Lijuan Chen, Jian Sun, Meihong Chen, Lingfeng Mao, Bowen Jiang, Chuyu Ye

March 2020

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Toward improving multiomic research in understudied cereals.
Fanjing Yang, Xiaojiao Gong, Pan Zhao, Lingtong Cheng, Yujie Zhang, Chu-Yu Ye

Nat Genet· September 2025

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A long road ahead to reliable and complete medicinal plant genomes.
Ling-Tong Cheng, Zi-Long Wang, Qian-Hao Zhu, Min Ye, Chu-Yu Ye

Nat Commun· March 2025

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Author Correction: Large-scale benchmarking of circRNA detection tools reveals large differences in sensitivity but not in precision.
Marieke Vromman, Jasper Anckaert, Stefania Bortoluzzi, Alessia Buratin, Chia-Ying Chen, Chu-Yu Ye

Nat Methods· February 2025

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The DNA methylomes of Echinochloa species provide insights into polyploidization-driven adaptation and orphan crop domestication.
Qinjie Chu, Xiaojiao Gong, Yiyu Hu, Qian-Hao Zhu, Longjiang Fan, Chu-Yu Ye

Plant J· February 2025

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Assembly of a reference-quality genome and resequencing diverse accessions of Beckmannia syzigachne provide insights into population structure and gene family evolution.
Yang Han, Jianxiang Wu, Qianhao Zhu, Chuyu Ye, Xinxin Li

Plant Commun· January 2025

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Single-cell landscape of long and short glandular trichomes in leaves.
Hongyu Chen, Xiaohan Li, Qing Cheng, Nianmin Shang, Zhijun Tong, Chuyu Ye

iScience· September 2024

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BreedingAIDB: A database integrating crop genome-to-phenotype paired data with machine learning tools applicable to breeding.
Zijie Shen, Enhui Shen, Kun Yang, Zuoqian Fan, Qian-Hao Zhu, Chu-Yu Ye

Plant Commun· July 2024

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Technology-enabled great leap in deciphering plant genomes.
Lingjuan Xie, Xiaojiao Gong, Kun Yang, Yujie Huang, Shiyu Zhang, Chuyu Ye

Nat Plants· April 2024

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Population genomic analysis unravels the evolutionary roadmap of pericarp color in rice.
Lingjuan Xie, Dongya Wu, Yu Fang, Chuyu Ye, Qian-Hao Zhu

Plant Commun· March 2024

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A reference genome of Commelinales provides insights into the commelinids evolution and global spread of water hyacinth (Pontederia crassipes).
Yujie Huang, Longbiao Guo, Lingjuan Xie, Nianmin Shang, Dongya Wu, Chuyu Ye

Gigascience· January 2024

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Large-scale benchmarking of circRNA detection tools reveals large differences in sensitivity but not in precision.
Marieke Vromman, Jasper Anckaert, Stefania Bortoluzzi, Alessia Buratin, Chia-Ying Chen, Chu-Yu Ye

Nat Methods· August 2023

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A syntelog-based pan-genome provides insights into rice domestication and de-domestication.
Dongya Wu, Lingjuan Xie, Yanqing Sun, Yujie Huang, Lei Jia, Chu-Yu Ye

Genome Biol· August 2023

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Transcriptomic profiling reveals candidate allelopathic genes in rice responsible for interactions with barnyardgrass.
Most Humaira Sultana, Md Alamin, Jie Qiu, Longjiang Fan, Chuyu Ye

Front Plant Sci· February 2023

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Lateral transfers lead to the birth of momilactone biosynthetic gene clusters in grass.
Dongya Wu, Yiyu Hu, Shota Akashi, Hideaki Nojiri, Longbiao Guo, Chu-Yu Ye

Plant J· September 2022

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The complete chloroplast genome of type weedy rice ( f. ).
Yiyu Hu, Chenfeng Dong, Chuyu Ye, Longjiang Fan, Wei Tang

Mitochondrial DNA B Resour· August 2022

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PlantcircBase 7.0: Full-length transcripts and conservation of plant circRNAs.
Xiaoxu Xu, Tianyu Du, Weihua Mao, Xiaohan Li, Chu-Yu Ye

Plant Commun· July 2022

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The complete chloroplast genome of weedy rye subsp. .
Tianyu Du, Yiyu Hu, Yanqing Sun, Chuyu Ye, Enhui Shen

Mitochondrial DNA B Resour· June 2022

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Horizontal transfer and evolution of the biosynthetic gene cluster for benzoxazinoids in plants.
Dongya Wu, Bowen Jiang, Chu-Yu Ye, Michael P Timko, Longjiang Fan

Plant Commun· May 2022

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Population genomic analysis reveals domestication of cultivated rye from weedy rye.
Yanqing Sun, Enhui Shen, Yiyu Hu, Dongya Wu, Yu Feng, Chu-Yu Ye

Mol Plant· March 2022

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Genomic insights into the evolution of Echinochloa species as weed and orphan crop.
Dongya Wu, Enhui Shen, Bowen Jiang, Yu Feng, Wei Tang, Chu-Yu Ye

Nat Commun· February 2022

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Recent origination of circular RNAs in plants.
Qinjie Chu, Yuwen Ding, Xiaoxu Xu, Chu-Yu Ye, Qian-Hao Zhu

New Phytol· January 2022

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The complete chloroplast genome of weedy rice f. .
Chenfeng Dong, Yiyu Hu, Chuyu Ye, Longjiang Fan, Longbiao Guo

Mitochondrial DNA B Resour· September 2021

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The complete chloroplast genome of .
Bowen Jiang, Sangting Lao, Dongya Wu, Longjiang Fan, Chu-Yu Ye

Mitochondrial DNA B Resour· September 2021

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Age, Gender and Geographic Differences in Global Health Burden of Cirrhosis and Liver Cancer due to Nonalcoholic Steatohepatitis.
Tianyue Zhang, Jingya Xu, Lingxia Ye, Xiling Lin, Yufeng Xu, Chuyu Ye

J Cancer· March 2021

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Orphan Crops and their Wild Relatives in the Genomic Era.
Chu-Yu Ye, Longjiang Fan

Mol Plant· January 2021

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