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Name:
 MA Liang
Subject:
 Computational Biology
Tel/Fax:
 +86-10-64807238  / 
E-mail:
 maliang@ioz.ac.cn
Address:
 Institute of Zoology, Chinese Academy of Sciences, No.1 Beichen West Road, Chaoyang District, Beijing 100101, P.R.China
More:
 Group of Evolutionary and Population Genomics      
Resume:

I am an Associate Professor at the Institute of Zoology, CAS. I obtained my PhD degree from Academy of Mathematics and System Sciences, CAS, in 2015. In 2015-2019, I was an Assistant Professor at the Beijing Institute of Genomics, CAS. I joined the Key Laboratory of Zoological Systematics and Evolution at Institute of Zoology, CAS, in 2019 as Assistant Professor and as Associate Professor from 2023. My research falls in the interdisciplinary field of mathematics and biology. I develop mathematical/statistical models and computational methods for analyzing bio-medical data and seek to advance the understanding of genetic and phenotypic evolution and diversity at cellular level.

Research Interests:

Computational biology, Bioinformatics, Data Science, Molecular Evolution, Population Genetics, Single cell and spatial omics data modeling and analysis

Awards and Honors:

Professional Activities:

Research Grants:

National Natural Science Foundation of China (11971459), 2020-2023

National Key Research and Development Program (2019YFA0709501), 2020-2025

National Natural Science Foundation of China (32293192), 2023-2027

Selected Publications:
  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.