Kunhui He, Tingxi Yu, Shang Gao, Shoukun Chen, Liang Li, Xuecai Zhang, Changling Huang, Yunbi Xu, Jiankang Wang, Boddupalli M. Prasanna, Sarah Hearne, Xinhai Li, Huihui Li*, 2025. Leveraging automated machine learning for environmental data-driven genetic analysis and genomic prediction in Maize hybrids. Advanced Science, 6:e2412423.下载
Tingxi Yu, Hao Zhang, Shoukun Chen, Shang Gao, Ze Liu, Jiankang Wang, Jose Crossa, Osval A Montesinos-López, Sarah Hearne, Huihui Li*, 2025. EXGEP: a framework for predicting genotype-by-environment interactions using ensembles of explainable machine-learning models. Briefings in Bioinformatics, 26(4):bbaf414.下载
Shoukun Chen, Hao Zhang, Shuqiang Gao, Kunhui He, Tingxi Yu, Shang Gao, Jiankang Wang, Huihui Li, 2025. Unveiling salt tolerance mechanisms in plants: integrating the KANMB machine learning model with metabolomic and transcriptomic analysis. Advanced Science, 12(23):e2417560.下载
Muhammad Amjad Farooq, Shang Gao, Muhammad Adeel Hassan, Zhangping Huang, Awais Rasheed5, Sarah Hearne, Boddupalli Prasanna, Xinhai Li, Huihui Li, 2024. Artificial intelligence in plant breeding. Trends in Genetics, 40(10):891-908.下载
Shoukun Chen, Tingting Du, Zhangping Huang, Kunhui He, Maogeng Yang, Shang Gao, Tingxi Yu, Hao Zhang, Xiang Li, Shihua Chen, Chun-Ming Liu, Huihui Li, 2024. The Spartina alterniflora genome sequence provides insights into the salt tolerance mechanisms of exo-recretohalophytes. Plant Biotechnology Journal, 22(9):2558-2574.下载
Zhangping Huang, Shoukun Chen, Kunhui He, Tingxi Yu, Shang Gao, Junjie Fu, Huihui Li, 2024. Exploring salt tolerance mechanisms using machine learning for transcriptomic insights: case study in Spartina alterniflora. Horticulture Research 11(5):uhae082.下载
Kaijian Fan, Mohsin Ali, Kunhui He, Yingwei Feng, Tingxi Yu, Hao Zhang, Tai An, Weiwei Zeng, Junjie Fu,Ying Zhou, Yanfang Heng, Fei Gu, Jiankang Wang, Changling Huang, Liang Li, Huihui Li, 2024. Genomic analysis of modern maize inbred lines reveals diversity and selective breeding effects. Science China Life Sciences, doi: 10.1007/s11427-024-2725-1.下载
Kelin Wang, Muhammad Ali Abid, Awais Rasheed, Jose Crossa, Sarah Hearne, Huihui Li, 2023. DNNGP, a deep neural network-based method for genomic prediction using multiomics data in plants. Molecular Plant 16(1):279-293.下载
Saman Maqbool, Samar Naseer, Nageen Zahra, Fatima Rasoo, Humaira Qayyum, Khawar Majeed, Muhammad Jahanzaib, Muhammad Sajjad, Muhammad Fayyaz, Muhammad Kashif Naeem, Muhammad Ramzan Khan, Hao Zhang , Awais Rasheed,& Huihui Li, 2023. RNAseq of diverse spring wheat cultivars released during last 110 years. Scientific data 10(1):884.下载
Maogeng Yang, Shoukun Chen, Zhangping Huang, Shang Gao, Tingxi Yu, Tingting Du, Hao Zhang, Xiang Li, Chun-Ming Liu, Shihua Chen, Huihui Li, 2023. Deep learning-enabled discovery and characterization of HKT genes in Spartina alterniflora. The Plant Journal.116(3):690-705.下载
Shang Gao, Shoukun Chen, Maogeng Yang, Jinran Wu , Shihua Chen & Huihui Li, 2023. Mining salt stress-related genes in Spartina alterniflora via analyzing co-evolution signal across 365 plant species using phylogenetic profiling. aBIOTECH 4(4):291-302.下载
Danting Shan, Mohsin Ali, Mohammed Shahid, Anjuman Arif, Muhammad Qandeel Waheed, Xianchun Xia, Richard Trethowan, Mark Tester, Jesse Poland, Francis C. Ogbonnaya, Awais Rasheed, Zhonghu He, Huihui Li, 2022. Genetic networks underlying salinity tolerance in wheat uncovered with genome‑wide analyses and selective sweeps. Theoretical and Applied Genetics, 135(9):2925-2941.下载
Mohsin Ali, Shan Danting, Jiankang Wang，Hafsa Sadiq, Awais Rasheed1,Zhonghu He and Huihui Li, 2022. Genetic Diversity and Selection Signatures in Synthetic-Derived Wheats and Modern Spring Wheat. Frontiers in Plant Science, 13:877496.下载
Muhammad Ibrar Khan, Zarnishal Kainat, Saman Maqbool, Ambreen Mehwish, Suhaib Ahmad, Hafiz Muhammad Suleman, Zahid Mahmood, Mohsin Ali, Abdul Aziz, Awais Rasheed* and Huihui Li, 2022. Genome-wide association for heat tolerance at seedling stage in historical spring wheat cultivars. Frontiers in Plant Science, 13:972481.下载
Gen Xu, Xuan Zhang, Wenkang Chen, Renyu Zhang, Zhi Li, Weiwei Wen, Marilyn L. Warburton, Jiansheng Li, Huihui Li and Xiaohong Yang, 2022. Population genomics of Zea species identifes selection signatures during maize domestication and adaptation.BMC Plant Biology, 22(1):72.下载
Jing Li#, Delin Li#, Cristian Zavala Espinosa, Viridiana Trejo Pastor, Awais Rasheed, Natalia Palacios Rojas, Jiankang Wang, Amalio Santacruz Varela, Natália Carolina de Almeida Silva, Patrick S. Schnable, Denise E. Costich, Huihui Li*, 2021. Genome-wide analysesreveal footprints of divergent selection and popping-related traits in CIMMYT'smaize inbred lines. Journal of Experimental Botany, 72: 1307-1320.下载
Jing Li#, Guobo Chen#, Awais Rasheed, Delin Li, Kai Sonder, Cristian Zavala Espinosa, Jiankang Wang, Denise E. Costich, Patrick S. Schnable, Sarah J. Hearne*, Huihui Li*, 2019. Identifying loci with breeding potential across temperate and tropical adaptation via EigenGWAS and EnvGWAS. Molecular Ecology, 28: 3544-3560.下载
Fakiha Afzal, Huihui Li*, Alvina Gul, Abid Subhani, Ahmad Ali, Abdul Mujeeb-Kazi, Francis Ogbonnaya, Richard Trethowan, Xianchun Xia, Zhonghu He,and Awais Rasheed*, 2019. Genome-Wide Analyses Reveal Footprints of Divergent Selection and Drought Adaptive Traits in Synthetic-Derived Wheats. G3 , 9: 1957-1973.下载
Huihui Li, P. Vikram, R. P Singh, A. Kilian, J. Carling, J. Song, J. A. Burgueno, S. B., J. Huerta-Espino, T. Payne, D. Sehgal, P. Wenzl and S. Singh, 2015. A high density GBS map of bread wheat and its application for dissecting complex disease resistance traits. BMC Genomics 16:216 DOI 10.1186/s12864-015-1424-5.下载
Huihui Li, Sukhwinder Singh, Sridhar Bhavani, Ravi P. Singh, Deepmala Sehgal, Bhoja R. Basnet, Prashant Vikram, Juan Burgueno-Ferreira, Julio Huerta-Espino, 2016. Identification of Genomic Associations for Adult Plant Resistance in the Background of Popular South Asian Wheat Cultivar, PBW343. Front. Plant Sci., 7: 1674.下载
Xue-Feng Yao, Yanhong Liu, Zhiyong Li, Guo-Qiang Jiang, Wensheng Wang, Hong Lu, Huihui Li*, Zefu Lu*, Chun-Ming Liu*, 2025. Non-random distribution of EMS-induced mutations reveals preference for open chromatin and expressed genes in rice. Advanced Science, 13:e10034.下载
Renyu Zhang#, Gen Xu#, Jiansheng Li, Jianbing Yan, Huihui Li*, Xiaohong Yang*, 2018. Patterns of genomic variation in Chinese maize inbred lines and implications for genetic improvement. Theoretical and Applied Genetics 131:1207-1221.下载
Huihui Li, R. P. Singh, H.-J. Braun, W. H. Pfeiffer, J. Wang, 2013. Comparison of doubled haploids with conventional breeding in CIMMYT wheat breeding programs. Crop Science 53(1): 74-83.下载
Huihui Li, Awais Rasheed, Lee T. Hickey, Zhonghu He, 2018. Fast-forwarding genetic gain. Trends in Plant Science, 23: 184-186.下载
Buckler, S. E., J. B. Holland, M. M. McMullen, S. Kresovich, C. Acharya, P. Bradbury, P. Brown, C. Browne, M. Eller, E. Ersoz, S. Flint-Garcia, A. Garcia, J. Glaubitz, M. Goodman, C. Harjes, K. Hutchins, D. Kroon, S. Larsson, N. Lepak, Huihui Li, S. Mitchell, G. Pressoir, J. Peiffer, M. O. Rosas, T. Rocheford, C. Romay, S. Romero, S. Salvo, H. Sanchez Villeda, Q. Sun, F. Tian, N. Upadyayula, D. Ware, H. Yates, J. Yu, Z. Zhang, 2009. The genetic architecture of maize flowering time. Science 325: 714-718.下载
McMullen, M. M., S. Kresovich, H. S. Villeda, P. Bradbury, Huihui. Li, Q. Sun, S. Flint-Garcia, J. Thornsberry, C. Acharya, C. Bottoms, P. Brown, C. Browne, M. Eller, K. Guill, C. Harjes, D. Kroon, N. Lepak, S. E. Mitchell, B. Peterson, G. Pressoir, S. Romero, M. O. Rosas, S. Salvo, H. Yates, M. Hanson, E. Jones, S. Smith, J. C. Glaubitz, M. Goodman, D. Ware, J. B. Holland, E. S. Buckler, 2009. Genetic properties of the maize nested association mapping population. Science 325: 737-740.下载
