孙善文 教授/博士生导师

联系方式

:E-mail: sunshanwen@nefu.edu.cn

教育经历：

2014-10至2019-04，德国拜罗伊特大学，博士，导师：Bettina Engelbrecht

2010-09至2014-07，中国科学院西双版纳热带植物园，硕士，导师：曹坤芳研究员

2006-09至2010-07，东北师范大学，城市与环境科学学院，学士

工作经历：

2019-09至2021-04，电子科技大学，博士后，导师：邹权教授

研究领域：

生物序列分析、植物功能基因挖掘、人工智能

科研项目：

主持国家自然基金委项目2项，博士后面上项目1项，东北林业大学引进人才项目1项，中央高校项目1项，黑龙江省优青项目、重点研发指导类项目等3项。

学术兼职：

JDSIS期刊编辑，SCI 期刊Current bioinformatics 编辑，Frontiers集团SCI杂志的客座编辑，主持专刊2份，植物研究客座编辑，Nature chemical biology等期刊审稿人

中国自动化学会委员

中国人工智能学会委员

中国计算机学会委员

发明专利：

一种RNA测序数据的基因表达量计算方法。专利号：ZL 2020 1 0603775.3

论文发表：

Shanwen Sun, Quan Zou, Lijun Dou (2026) Machine learning for mining plant functional genes. Frontiers in Plant Science. 17: 1795967. (中科院二区，Top期刊)

Hongmei Zhang, Xuanrui Liu, Wuyong Liu, Shuda Wang, Yiqi Li, Wei Xiang, Qinghua Yang, Aiqin Zhang, Guohua Wang, Yang Li, Shanwen Sun (2025) Deep learning-based annotation of plant abiotic stress resistance genes for crops. The Plant Journal. 124:e70556. (中科院一区，Top期刊)

Bowei Chen, Tianxu Zhang, Yile Guo, Lesheng Cao, Xu Zhang, Shahid Ali, Renyi Ma, Linan Xie, Jiang Wang, Gaurav Zinta, Shanwen Sun, Guifeng Liu, Qingzhu Zhang (2025) Naturally Occurring Epialleles and Their Roles in Response to Climate Change in Birch. Molecular Ecology. 34(16): e70031. (中科院一区，Top期刊)

Xueying Xie, Lin Gui, Baixue Qiao, Guohua Wang, Shan Huang, Yuming Zhao, Shanwen Sun* (2024) Deep learning in template-free de novo biosynthetic pathway design of natural products. Briefings in Bioinformatics. 25(6): bbae495. (自动化学会生物信息学A类期刊，TOP期刊)

Baixue Qiao, Shuda Wang, Mingjun Hou, Haodi Chen, Zhengwenyang Zhou, Xueying Xie, Shaozi Pang, Chunxue Yang, Fenglong Yang, Quan Zou, Shanwen Sun* (2024) Identifying nucleotide-binding leucine-rich repeat receptor and pathogen effector pairing using transfer-learning and bilinear attention network. Bioinformatics. 40(10): btae58. (自动化学会生物信息学A类期刊)

Chen, B., Wang, M., Guo, Y., Zhang, Z., Zhou, W., Cao, L., Zhang, T., Ali, S., Xie, L., Li, Y., Zinta, G., Sun, S.*, Zhang, Q*. (2024). Climate-related naturally occurring epimutation and their roles in plant adaptation in A. thaliana. Molecular ecology, 33(21), e17356. (中科院一区，Top期刊)

Zhang, H. M., Wang, G. H., Sun, S. W.*, Yuan, L.* (2024). Advancing prognostic precision in gastric cancer with an immunoinflammatory index. World journal of gastroenterology, 30(44), 4754–4758. (Q1区论文)

Zhao Y, Gui L, Hou C, Zhang D, and Sun S* (2024) GwasWA: A GWAS one-stop analysis platform from WGS data to variant effect assessment. Computers in Biology and Medicine. 169:107820. (影响因子7.7，小类中科院一区，Top期刊)

Sun S, Ye X*, and Zou Q* (2023) Editorial: Machine learning on understanding the epigenetic mechanisms underlying plant adaptation and domestication. Front. Plant Sci. 14:1236787. (影响因子：5.6，中科院二区，Top期刊)

Chen B, Guo Y, Zhang X, Wang L, Cao L, Zhang T, Zhang Z, Zhou W, Xie L, Wang J, Sun S* (共同通讯), Yang C*, and Zhang Q* (2022) Climate-responsive DNA methylation is involved in the biosynthesis of lignin in birch. Front. Plant Sci. 13:1090967. (影响因子：5.6，中科院二区，Top期刊)

Wang X, Sun S (共同第一作者), Sedio B, Glomglieng S, Cao M, Cao K, Yang J, Zhang J*, and Yang J* (2022). Niche differentiation along multiple functional-trait dimensions contributes to high local diversity of Euphorbiaceae in a tropical tree assemblage. Journal of Ecology, 110, 2731–2744. (影响因子：6.381，中科院一区，Top期刊)

Ding K, Sun S (共同第一作者), Luo Y, Long C, Zhai J, Zhai Y, and Wang G* (2023) PlantCADB: A Comprehensive Plant Chromatin Accessibility Database. Genomics, Proteomics & Bioinformatics, 21, 311-323. (影响因子：11.5，中科院一区，Top期刊)

Sun S, Dong B*, and Zou Q*. Revisiting genome-wide association studies from statistical modelling to machine learning. Briefings in Bioinformatics. 22 (4), bbaa263. (影响因子：13.994，中科院一区，Top期刊)

Sun S, Xu L*, Zou Q*, and Wang G*. BP4RNAseq: a babysitter package for retrospective and newly generated RNA-seq data analyses using both alignment-based and alignment-free quantification method. Bioinformatics. 37 (9), 1319–1321. (影响因子：5.610，中科院一区，Top期刊)

Sun S*, Jung E, Gaviria J, and Engelbrecht B M J. Drought survival is positively associated with high turgor loss point in temperate perennial grassland species. Functional Ecology, 2020, 34:788-798. (影响因子：4.43，中科院一区，Top期刊)

Sun S, Ding H, Wang D*, and Han S*. Identifying antifreeze proteins based on key evolutionary information. Frontiers in Bioengineering and Biotechnology, 2020, 8:1-8. (影响因子：3.644，中科院二区)

Sun S, Wang C, Ding H, and Zou Q*. Machine learning and its applications in plant molecular studies. Briefings in functional genomics, 2020, 19:40-48. (影响因子：2.941，中科院二区)

Sun S, Ao C, Wang D*, and Dong B*. The frequencies of oppositely charged, uncharged polar, and β-branched amino acids determine proteins' thermostability. IEEE Access, 2020, 8:66839-66845. (影响因子：3.745，中科院二区，Top期刊)

Jung E, Gaviria J, Sun S, and Engelbrecht B M J*. Comparative drought resistance of temperate grassland species: testing performance trade-offs and the relation to distribution. Oecologia, 2020:1-14. (影响因子：2.915，中科院二区)

Bartlett M K*, Zhang Y, Yang J, Kreidler N, Sun S, et al. Drought tolerance as a driver of tropical forest assembly: resolving spatial signatures for multiple processes. Ecology, 2016, 97:503-514. (影响因子：4.7，中科院一区，Top期刊)

Bartlett M K*, Zhang Y, Kreidler N, Sun S, et al. Global analysis of plasticity in turgor loss point, a key drought tolerance trait. Ecology Letters, 2014, 17:1580-1590. (影响因子：8.665，中科院一区，Top期刊)

Bartlett M K*, Scoffoni C, Ardy R, Zhang Y, Sun S, et al. Rapid determination of comparative drought tolerance traits: using an osmometer to predict turgor loss point. Methods in Ecology and Evolution, 2012, 3:880-888. (影响因子：6.51，中科院一区，Top期刊)

本科人才培养：

论文：

1. Xueying Xie, Lin Gui, Baixue Qiao, Guohua Wang, Shan Huang, Yuming Zhao, Shanwen Sun* (2024) Deep learning in template-free de novo biosynthetic pathway design of natural products. Briefings in Bioinformatics. 25(6): bbae495 (本科生第一作者论文)

2. Baixue Qiao, Shuda Wang, Mingjun Hou, Haodi Chen, Zhengwenyang Zhou, Xueying Xie, Shaozi Pang, Chunxue Yang, Fenglong Yang, Quan Zou, Shanwen Sun* (2024) Identifying nucleotide-binding leucine-rich repeat receptor and pathogen effector pairing using transfer-learning and bilinear attention network. Bioinformatics. 40(10): btae581 (本科生参与论文)

3. Hongmei Zhang, Xuanrui Liu, Wuyong Liu, Shuda Wang, Yiqi Li, Wei Xiang, Qinghua Yang, Aiqin Zhang, Guohua Wang, Yang Li, Shanwen Sun (2025) Deep learning-based annotation of plant abiotic stress resistance genes for crops. The Plant Journal. 124:e70556. (本科生共同第一作者论文)

专利：

1. 一种基于元分析构建基因调控网络的方法 (本科生第一发明人)

2. 基于迁移学习的植物 NLR-无毒蛋白 Avr 对应关系识别方法 (本科生合作发明)

3. 一种植物抗盐碱基因的识别方法及系统 (本科生第一发明人)

4. 一种基于深度学习的植物抗旱基因的识别方法 (本科生第一发明人)

关于招生的几句话：

人类社会正处于从互联网时代向人工智能通用时代（AGI）迈进的伟大进程中，生命科学与计算科学的深度融合正催生认知的范式革命。本课题组致力于通过前沿 AI 算法解析复杂的生物大数据，涵盖生物序列分析、植物功能基因挖掘及 AI 药物研发等核心方向。我们目前拥有充足的 CPU 与 GPU 算力资源，确保算法灵感不再受限于硬件，欢迎对此感兴趣的本科生和研究生加入。在这里，你将接受硬核的交叉学科训练，成长为稀缺的复合型专家；未来无论是投身顶尖学术殿堂，还是进入生物医药、人工智能巨头企业，你都将具备极强的竞争优势与广阔的发展空间。如果你对算法之美充满好奇，对解析生命本质怀有热情，欢迎加入我们，在 AGI 时代共同定义计算生物学的未来！