Nisansa Dilushan de Silva

I am a lecturer at the Department of Computer Science & Engineering, University of Moratuwa, Sri Lanka. I obtained my Ph.D (2020, advisor: Dejing Dou) and MS (2016) degrees in Computer and Information Science from University of Oregon, USA and my BSc (Hons) in Computer Science & Engineering (2011) degree from University of Moratuwa. I joined University of Moratuwa as a lecturer in 2011. From 2013 to 2014, I worked as a researcher at LIRNEasia. In 2018, I worked as a Givens Associate at Argonne National Laboratory, USA. I have over 80 peer reviewed publications in the field of computer science, mostly under the subfields of Natural Language Processing and Artificial Intelligence, earning more than 1400 citations. I am also an associate member of the IESL.

Professional Experience

  • Present 2020

    Senior Lecturer

    Department of Computer science & Engineering, University of Moratuwa,
    Sri Lanka

  • 2021 2020

    Research Fellow

    LIRNEasia,
    Sri Lanka

  • 2020 2014

    Graduate Research/Teaching Fellow

    University of Oregon, Department of Computer and Information Science,
    USA.

  • 2018 2018

    Givens Associate

    Argonne National Laboratory,
    USA.

  • 2020 2011

    Lecturer

    Department of Computer science & Engineering, University of Moratuwa,
    Sri Lanka

  • 2014 2013

    Researcher

    LIRNEasia,
    Sri Lanka

  • 2014 2013

    Visiting Lecturer

    Northshore College of Business and Technology,
    Sri Lanka

Education

  • Ph.D. 2020

    Ph.D. in Computer & Information Science

    University of Oregon, USA

  • MS 2016

    MS in Computer & Information Science

    University of Oregon, USA

  • BSc2011

    B.Sc Engineering (Hons)in Computer Science & Engineering

    University of Moratuwa, Sri Lanka

Featured Research

OmniSearch: a semantic search system based on the Ontology for MIcroRNA Target (OMIT) for microRNA-target gene interaction data


J. Huang, F. Gutierrez, H. Strachan, D. Dou, W. Huang, B. Smith, J. Blake, K. Eilbeck, D. Natale, Y. Lin, B. Wu, N. de Silva, et al.

Journal of biomedical semantics, vol. 7, no. 1, pp. 25, 2016,

As a special class of non-coding RNAs (ncRNAs), microRNAs (miRNAs) perform important roles in numerous biological and pathological processes. The realization of miRNA functions depends largely on how miRNAs regulate specific target genes. It is therefore critical to identify, analyze, and cross-reference miRNA-target interactions to better explore and delineate miRNA functions. Semantic technologies can help in this regard. We previously developed a miRNA domain-specific application ontology, Ontology for MIcroRNA Target (OMIT), whose goal was to serve as a foundation for semantic annotation, data integration, and semantic search in the miRNA field. In this paper we describe our continuing effort to develop the OMIT, and demonstrate its use within a semantic search system, OmniSearch, designed to facilitate knowledge capture of miRNA-target interaction data. Important changes in the current version OMIT are summarized as: (1) following a modularized ontology design (with 2559 terms imported from the NCRO ontology); (2) encoding all 1884 human miRNAs (vs. 300 in previous versions); and (3) setting up a GitHub project site along with an issue tracker for more effective community collaboration on the ontology development. The OMIT ontology is free and open to all users, accessible at: http://purl.obolibrary.org/obo/omit.owl. The OmniSearch system is also free and open to all users, accessible at: http://omnisearch.soc.southalabama.edu/index.php/Software.