倪旭敏

基本信息

教育背景

2007.9-2011.7 北京交通大学数学系，获理学学士学位；

2011.9-2016.9 北京交通大学数学系，获理学博士学位.

工作经历

研究兴趣

科研项目

基本科研业务费：复杂混合人群历史推断的概率模型和统计方法研究，2023-2024（主持）

国家重点研发计划-任务：精准医学的多尺度因果理论与应用, 2023-2027（参加）

北京市自然科学基金-海淀原始创新联合基金：面向疾病诊断的医学知识表示与发现研究，2023-2025 （参加）

国家自然科学基金面上项目: 基于全基因组数据的复杂混合人群历史建模和推断, 2023-2026（主持）

国家自然科学基金青年基金项目: 溯祖过程及其在群体遗传学中的应用, 2019-2021（主持）

博士后科学基金面上项目（二等）: 随机过程理论及其在人口历史推断中的应用, 2017-2018 （主持）

基本科研业务费人才基金：基于全基因组数据检测混合群体中的上位效应，2020-2021（主持）

基本科研业务费: 随机过程在人口历史推断中的应用研究, 2017-2018 （主持）

基本科研业务费: 贝叶斯模型选择中的悖论研究, 2018-2020 （参加）

教学工作

本科生课程：《随机过程》、《概率论与数理统计》

研究生公共数学课：《随机过程I》

论文/期刊

#equal contribution     *corresponding author

[20] WenXiao Zhang#, Kai Yuan#, Ru Wen, Haifang Li, Xumin Ni*. (2024). Reconstruct recent multi-population migration history by using identical-by-descent sharing, Journal of Genetics and Genomics.

[19] Shi Zhang#, Rui Zhang#, Kai Yuan#, Lu Yang, Chang Liu, Yuting Liu, Xumin Ni*, Shuhua Xu*. (2024). Reconstructing complex admixture history using a hierarchical model. Briefings in Bioinformatics, 25(2): bbad540.

[18] Rui Zhang#, Xumin Ni#, Kai Yuan#, Yuwen Pan, Shuhua Xu*. (2022). MultiWaverX: modeling latent sex-biased admixture history. Briefings in Bioinformatics, bbac179. 

[17] Jiongxing Fu, Kelin Xu, Xumin Ni, Xiaoqiang Li, Xiaofeng Zhu, Wanghong Xu*. (2022). Habitual Dietary Fiber Intake, Fecal Microbiota, and Hemoglobin A1c Level in Chinese Patients with Type 2 Diabetes. Nutrients, 14(5): 1003.

[16] Rui Zhang, Chang Liu, Kai Yuan, Xumin Ni, Yuwen Pan, Shuhua Xu*. (2021). AdmixSim 2: a forward-time simulator for modeling complex population admixture, BMC Bioinformatics 22, 506.

[15] Kai Yuan#, Xumin Ni#, Chang Liu#, Yuwen Pan#, Lian Deng#, Rui Zhang#, Yang Gao, Xueling Ge, Jiaojiao Liu, Xixian Ma, Haiyi Lou, Taoyang Wu and Shuhua Xu*. (2021). Refining models of archaic–modern human admixture in Eurasia with ArchaicSeeker 2.0. Nature Communications, 12, 6232. 

[14] Xian Chen, Wei Guo, Xumin Ni*. (2021). Markov Jump Processes in Estimating Sharing of Identity by Descent. Acta Mathematicae Applicatae Sinica, English Serie, 37(1): 183-191.

[13] Xiong Yang, Kai Yuan, Xumin Ni, Ying Zhou, Wei Guo, Shuhua Xu*. (2020). AdmixSim: A Forward-time Simulator for Various Complex Scenarios of Population Admixture. Frontiers in Genetics, 11:601439.

[12] Xumin Ni, Mengshi Zhou, Heming Wang, Karen Y. He, Uli Broeckel, Craig Hanis, Sharon Kardia, Susan Redline, Richard S Cooper, Hua Tang, Xiaofeng Zhu*. (2020). Detecting fitness epistasis in recently admixed populations with genome-wide data. BMC Genomics, 21, 476.

[11] Xumin Ni#, Chendi Zhu#, Qing Li#, Hui Jiang, Jingyi Liu, Zhi Chen, Li He, Junnan Jia, Zongde Zhang, Liang Ma*, Weimin Li*. (2020). Epidemiology characteristics of the clonal complexes of Mycobacterium tuberculosis Lineage 4 in China. Infection, Genetics and Evolution, 104363.

[10] Xumin Ni#, Kai Yuan#, Chang Liu, Qidi Feng, Lei Tian, Zhiming Ma*, Shuhua Xu*. (2019). MultiWaver 2.0: modeling discrete and continuous gene flow to reconstruct complex population admixtures. European Journal of Human Genetics,27(1), 133.

[9] Xumin Ni#, Kai Yuan#, Xiong Yang#, Qidi Feng, Wei Guo, Zhiming Ma*, Shuhua Xu*. (2018). Inference of Multiple-Wave Admixtures by Length Distribution of Ancestral Tracks. Heredity, 121(1), 52.

[8] Haixia Chen#, Li He#, Chao Cai#, Jingyi Liu, Junnan Jia, Liang Ma, Hairong Huang, Lixia Wang, Xumin Ni*, Jimin Gao*, Weimin, Li*. (2018). The Characteristics of Distribution of Mycobacterium tuberculosis Lineages in China. Science China Life Sciences, 61(6), 651-659.

[7] Bing Li, Jun Liu, Yanan Yu, Pengqian Wang, Yingying Zhang, Xumin Ni, Qiong Liu, Xiaoxu Zhang, Zhong Wang, Yongyan Wang*. (2018). Network-Wide Screen Identifies Variation of Novel Precise On-Module Targets Using Conformational Modudaoism. CPT: Pharmacometrics & Systems Pharmacology, 7(1), 16-25.

[6] Qidi Feng#, Yan Lu#, Xumin Ni#, Kai Yuan#, Yajun Yang#, Xiong Yang, Chang Liu, Haiyi Lou, Zhilin Ning, Yuchen Wang, Dongsheng Lu, Chao Zhang, Ying Zhou, Meng Shi, Lei Tian, Xiaoji Wang, Xi Zhang, Jing Li, Asifullah Khan, Yaqun Guan, Kun Tang*, Sijia Wang*, Shuhua Xu*. (2017). Genetic History of Xinjiang’s Uyghurs Suggests Bronze Age Multiple-Way Contacts in Eurasia. Molecular Biology and Evolution, 34(10), 2572–2582. 

[5] Haixia Chen#, Li He#, Hairong Huang#, Chengmin Shi, Xumin Ni, Guangming Dai, Liang Ma*, Weimin Li*. (2017). Mycobacterium Tuberculosis Lineage Distribution in Xinjiang and Gansu Provinces, China. Scientific Reports, 7, 1068.

[4] Kai Yuan#, Ying Zhou#, Xumin Ni#, Yuchen Wang, Chang Liu and Shuhua Xu*. (2017). Models, Methods and Tools for Ancestry Inference and Admixture Analysis. Quantitative Biology, 5(3), 236-250.

[3] Ying Zhou#, Kai Yuan#, Yaoliang Yu, Xumin Ni, Pengtao Xie, Eric P. Xing, Shuhua Xu*. (2017). Inference of Multiple-Wave Population Admixture by Modeling Decay of Linkage Disequilibrium with Polynomial Functions. Heredity, 118(5), 503-510.

[2] Xumin Ni, Wei Guo, Kai Yuan, Xiong Yang, Zhiming Ma, Shuhua Xu, Shihua Zhang*. (2016). A Probabilistic Method for Estimating the Sharing of Identity by Descent for Populations with Migration. IEEE/ACM Transactions on Computational Biology and Bioinformatics, 13(2), 281-90.

[1] Xumin Ni#, Xiong Yang#, Wei Guo, Kai Yuan, Ying Zhou, Zhiming Ma*, Shuhua Xu*. (2016). Length Distribution of Ancestral Tracks under a General Admixture Model and Its Applications in Population History Inference. Scientific Reports, 6, 20048.

软件

参与开发了一系列模拟群体基因组数据的软件（AdmixSim系列）、推断人群混合历史的软件（MultiWaver系列）、推断古人类渗入历史软件（ArchaicSeeker系列）。软件下载：https://www.picb.ac.cn/PGG/resource.php