马亮，男，副研究员。2015年博士毕业于中国科学院数学与系统科学研究院。2015-2019年在中国科学院北京基因组研究所任助理研究员；2019-2023年在中国科学院动物研究所动物进化与系统学重点实验室任助理研究员；2023年3月至今任副研究员。主要从事数学与生物医学交叉领域相关的数据建模与分析方法，希望通过结合理论，方法和数据深入理解基因型和表型在细胞水平上的演化及多样性形成规律。

　　计算生物学，生物信息学，研究方向包括分子进化与群体遗传学方法，单细胞及空间组学数据解析理论与方法，多尺度数据整合分析方法等。

　　国家自然科学基金面上项目（11971459），2020-2023，主持

　　国家重点研发计划（2019YFA0709501），2020-2025，主持子课题

　　国家自然科学基金重大项目（32293192）， 2023-2027， 科研骨干

1. Liu, Z., Wu, D., Zhai, W.*, Ma, L.*, 2023. SONAR enables cell type deconvolution with spatially weighted Poisson-Gamma model for spatial transcriptomics. Nature Communications.
2. He, H.^#, Yang, H.^#, Foo, R., Chan, W., Zhu, F., Liu, Y., Zhou, X., Ma, L.*, Wang, L.F.* and Zhai, W.*, 2023. Population genomic analysis reveals distinct demographics and recent adaptation in the black flying fox (Pteropus alecto). Journal of Genetics and Genomics.
3. Chen, Z., Zhang, B., Gong, F., Wan, L.*, Ma, L.*, 2023. RobustTree: An adaptive, robust PCA algorithm for embedded tree structure recovery from single-cell sequencing data. Frontiers in Genetics, 14, 1110899.
4. Chen, Z., Gong, F., Wan, L.* and Ma, L.*, 2022. BiTSC²: Bayesian inference of tumor clonal tree by joint analysis of single-cell SNV and CNA data. Briefings in Bioinformatics, 23(3), p.bbac092.
5. Liu, G., Liu, X.* and Ma, L.*, 2022. DecOT: Bulk Deconvolution With Optimal Transport Loss Using a Single-Cell Reference. Frontiers in Genetics, 13, pp.825896-825896.
6. Liu, Y., Chen, H., Duan, W., Zhang, X., He, X., Nielsen, R.*, Ma, L.* & Zhai, W.* (2022). Predicting Egg Passage Adaptations to Design Better Vaccines for the H3N2 Influenza Virus. Viruses, 14(9), 2065.
7. Chen, Z., Gong, F., Wan, L.*, and Ma, L.* 2020. RobustClone: a robust PCA method for tumor clone and evolution inference from single-cell sequencing data. Bioinformatics, 36(11), 3299-3306.
8. Xiong, J., Gong, F., Wan, L.* and Ma, L.*, 2020. NeuralEE: A GPU-Accelerated Elastic Embedding Dimensionality Reduction Method for Visualizing Large-Scale scRNA-Seq Data. Frontiers in Genetics, 11, p.786.
9. Ni, X.^#, Zhu, C.^#, Li, Q.^#, Jiang, H., Liu, J., Chen, Z., He, L., Jia, J., Zhang, Z., Ma, L.* and Li, W.*, 2020. Epidemiology characteristics of the clonal complexes of Mycobacterium tuberculosis Lineage 4 in China. Infection, Genetics and Evolution, 84, p.104363.
10. Bai, X., Ma, L.* and Wan, L.*, 2019. Statistical test of structured continuous trees based on discordance matrix. Bioinformatics, 35(23), pp.4962-4970.
11. Chen, Z.^#, An, S.^#, Bai, X., Gong, F., Ma, L.* and Wan, L.*, 2019. DensityPath: an algorithm to visualize and reconstruct cell state-transition path on density landscape for single-cell RNA sequencing data. Bioinformatics, 35(15), pp.2593-2601.
12. An, S., Ma, L.* and Wan, L.*, 2019. TSEE: an elastic embedding method to visualize the dynamic gene expression patterns of time series single-cell RNA sequencing data. BMC Genomics, 20(2), pp.77-92.
13. Du, Z.^#, Ma, L.^#, Qu, H.^#, Chen, W.^#, ..., Xiao, J.* and Zeng C.*, 2019. Whole genome analyses of Chinese population and de novo assembly of a northern Han genome. Genomics, Proteomics & Bioinformatics, 17(3), pp.229-247.
14. Ma, L., Rolls, E.T., Liu, X., Liu, Y., Jiao, Z., Wang, Y., Gong, W., Ma, Z., Gong, F. and Wan, L., 2019. Multi-scale analysis of schizophrenia risk genes, brain structure, and clinical symptoms reveals integrative clues for subtyping schizophrenia patients. Journal of Molecular Cell Biology, 11(8), pp.678-687.
15. Zhao, S.^#, Shi, C.M.^#, Ma, L.^#, Liu, Q., Liu, Y., Wu, F., Chi, L. and Chen, H., 2019. AIM-SNPtag: A computationally efficient approach for developing ancestry-informative SNP panels. Forensic Science International: Genetics, 38, pp.245-253.
16. Chen, Z.^#, Bai, X.^#, Ma, L.*, Wang, X., Liu, X., Liu, Y., Chen, L.* and Wan, L.*, 2018. A branch point on differentiation trajectory is the bifurcating event revealed by dynamical network biomarker analysis of single-cell data. IEEE/ACM Transactions on Computational Biology and Bioinformatics, 17(2), pp.366-375.
17. Shi, C.M.^#, Li, C.^#, Ma, L.^#, Chi, L., Zhao, J., Yuan, W., Zhou, Z., Yan, J.W.* and Chen, H.*, 2018. Inferring Chinese surnames with Y-STR profiles. Forensic Science International: Genetics, 33, pp.66-71.
18. Chen, H.#, He, L.#, Huang, H.#, Shi, C., Ni, X., Dai, G., Ma, L.* and Li, W.*, 2017. Mycobacterium tuberculosis lineage distribution in Xinjiang and Gansu Provinces, China. Scientific Reports, 7(1), pp.1-7.
19. Ma, L., Ji, Y.J. and Zhang, D.X., 2015. Statistical measures of genetic differentiation of populations: Rationales, history and current states. Current Zoology, 61(5), pp.886-897.
20. Sun, Z.^#, Ma, L.^#, Murphy, R.W., Zhang, X. and Huang, D., 2008. Factors affecting mito-nuclear codon usage interactions in the OXPHOS system of Drosophila melanogaster. Journal of Genetics and Genomics, 35(12), pp.729-735.