Bio

I recieved my Bachelor in Bioinformatics at Huazhong University of Science and Technology (HUST) in 2015.
Currently I am a fifth-year PhD student in Bioinformatics working with Prof Stefano Lonardi at University of California Riverside.
My research interests are Computational Biology, Comparative Genomics, and Pan Genomes.

  Research

  • Cowpea Pan-genome.

    • Constructed cowpea pan-genome from de novo assemblies of seven cowpea accession.


    Fig: Interative whole genome comparison for chromosome 1 in cowpea pan-genome
  • PGV: a Reference-agnostic Representation of Pan-genomes.

    • PGV is a novel representation method based on the notion of consensus ordering that enables an intuitive, effective and interactive visualization of a pan-genome. Designed pipeline of building consensus ordering to represent pan-genome structure. Built web visualization tool to visualize each assembly in pan-genome comparing to consensus ordering.


    Fig: PGV pipeline
  • Genome Annotations and Comparative Genomics Analysis.

    • Performed genome annotations for multiple species including cowpea, phytophthora and babesia.


    Fig: Synteny view of genome comparison between cowpea and three other legumes

      Publications

  • PanViz: Reference-agnostic Representation of Pan-genomes. Submitted to Bioinformatics
    Q Liang, S Lonardi.
  • BAC- and oligo-FISH mapping reveals chromosome evolution among Vigna angularis, V. unguiculata and Phaseolus vulgaris. Chromosoma (2021).
    L Martins, F Bustamante, A Oliveira, A Costa, L Feitoza, Q Liang, H Zhao, A Benko-Iseppon, M Muñoz-Amatriaín, A Pedrosa-Harand, J Jiang, A Vidal
  • "The genome of cowpea (Vigna unguiculata [L.] Walp.)", The Plant Journal, 98 (5), 767-782, June 2019
    S Lonardi, M Muñoz‐Amatriaín, Q Liang, S Shu, SI Wanamaker, S Lo, J Tanskanen, AH Schulman, T Zhu, MC Luo, H Alhakami, R Ounit, AM Hasan, J Verdier, PA Roberts, JR Santos, A Ndeve, J Doležel, J Vrána AA Hokin, AD Farmer, SB Cannon, TJ Close
  • "Assembly of eleven pseudomolecules representing the cowpea genome sequence", Plant and Animal Genome 25, P0688
    S Lonardi, T Zhu, M Muñoz-Amatriaín, Q Liang, S Wanamaker, R Ounit, H Alhakami, MC Luo, TJ Close