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  1. Article

    Open Access

    DiffDomain enables identification of structurally reorganized topologically associating domains

    Topologically associating domains (TADs) are critical structural units in three-dimensional genome organization of mammalian genome. Dynamic reorganizations of TADs between health and disease states are associ...

    Dunming Hua, Ming Gu, **ao Zhang, Yanyi Du, Hangcheng **e, Li Qi in Nature Communications (2024)

  2. Article

    Open Access

    Find_tfSBP: find thermodynamics-feasible and smallest balanced pathways with high yield from large-scale metabolic networks

    Biologically meaningful metabolic pathways are important references in the design of industrial bacterium. At present, constraint-based method is the only way to model and simulate a genome-scale metabolic net...

    Zixiang Xu, Jibin Sun, Qiaqing Wu, Dunming Zhu in Scientific Reports (2017)

  3. Article

    Open Access

    New recombinant cyclohexylamine oxidase variants for deracemization of secondary amines by orthogonally assaying designed mutants with structurally diverse substrates

    To further expand the substrate range of the cyclohexylamine oxidase (CHAO) from Brevibacterium oxydans, a library of diverse mutants was created and assayed toward a group of structurally diverse substrates. Amo...

    Guangyue Li, Peiyuan Yao, Peiqian Cong, Jie Ren, Lei Wang in Scientific Reports (2016)