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Ying Zhang

1993 …2019

Research output per year

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Personal profile

Research interests

I have a broad background in bioinformatics researchers. The focus of my graduate thesis is the application of comparative genomics and data mining methods to understand the regulatory sequences in mammalian genomes. After graduation, I have worked at MSI with an emphasis on projects using next-generation sequencing technologies. I have analyzed RNA-Seq, DNA-Seq, and ChIP-Seq data to profile gene expression, identify genomic variants and discover non-coding regulatory elements.

Research interests

  • next-generation sequencing
  • bioinformatics

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Research Output

  • 28 Article
  • 2 Conference contribution

Chromosome rearrangements shape the diversification of secondary metabolism in the cyclosporin producing fungus Tolypocladium inflatum

Olarte, R., Menke, J. R., Zhang, Y., Sullivan, S., Slot, J. C., Huang, Y., Badalamenti, J., Quandt, A. C., Spatafora, J. W. & Bushley, K. E., Feb 7 2019, In : BMC Genomics. 20, 1, 120.

Research output: Contribution to journal › Article

Open Access
    • 3 Scopus citations

    ChURP: A lightweight CLI framework to enable novice users to analyze sequencing datasets in parallel

    Baller, J., Kono, T., Herman, A. & Zhang, Y., Jul 28 2019, Proceedings of the Practice and Experience in Advanced Research Computing: Rise of the Machines (Learning), PEARC 2019. Association for Computing Machinery, 3333156. (ACM International Conference Proceeding Series).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    • Complete genome sequence of hospital-acquired methicillin-resistant staphylococcus aureus strain WCUH29

    Lei, T., Zhang, Y., Yang, J., Silverstein, K. & Ji, Y., Jun 6 2019, In : Microbiology Resource Announcements. 8, 23, e0055119.

    Research output: Contribution to journal › Article

    Open Access

    • Hepatocyte nuclear factor-1β regulates Wnt signaling through genome-wide competition with β-catenin/ lymphoid enhancer binding factor

    Chan, S. C., Zhang, Y., Pontoglio, M. & Igarashi, P., Nov 26 2019, In : Proceedings of the National Academy of Sciences of the United States of America. 116, 48, p. 24133-24142 10 p.

    Research output: Contribution to journal › Article

    • 1 Scopus citations

    Immunomodulation with Human Umbilical Cord Blood Stem Cells Ameliorates Ischemic Brain Injury – A Brain Transcriptome Profiling Analysis

    Shiao, M. L., Yuan, C., Crane, A. T., Voth, J. P., Juliano, M., Stone, L. L. H., Nan, Z., Zhang, Y., Kuzmin-Nichols, N., Sanberg, P. R., Grande, A. W. & Low, W. C., Jul 1 2019, In : Cell transplantation. 28, 7, p. 864-873 10 p.

    Research output: Contribution to journal › Article

    Open Access
    • 2 Scopus citations