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Untitled Document
Academic Staff member

Dr. Sugandima Vidanagamachchi

 Senior Lecturer (Grade I)

B.Sc. in Computer Science (UCSC) , PhD in Computer Engineering (Pdn, Southampton),
Email smv@dcs.ruh.ac.lk
Extention 14600

LinnkedIn ResearchGate Google Scholar


  • Course Units: Currently Teaching
  • Software Engineering (CSC1233) [2011-2012] [2015- Present]
  • Advanced Software Engineering Concepts (COM3212) [2011-2012] [2015- Present] (COM2122) [2023-Present]
  • Operating Systems (COM213a) [2011-2012] [2015- Present]
  • Operating Systems (CSC2133) [2011-2012] [2015- Present]
  • Group Project (CSC3113) [2011-2012] [2015- Present]
  • Individual Research Project (CSC4046) [2019-Present]
  • Reconfigurable Computing (CSC4082) [2023-Present]
  • Course Units: Previously Taught
  • Object Oriented Programming (CSC2123) [2011-2012]
  • Project Management (CSC2252) [2011-2012]
  • Basic Concepts of Information Technology (CO1111) [2011-2012] [2015-2020]
  • Rapid Application Development (CSC2213) [2011-2012]
  • Multimedia and Video Production (CSC2263) [2015-2017]
  • Multimedia Technologies (COM222b) [2015-2017]
  • Conducting Practical Classes
  • Object Oriented Programming (CSC2123) [2011-2012]
  • Operating Systems (CSC2133) [2011-2012] [2015-Present]
  • Reconfigurable Computing, Machine Learning, AI, Bioinformatics, Deep Learning, Cyber Security
  • JOURNAL ARTICLES (SCI-Indexed Journals)
  • Dilan Lasantha, Sugandima Vidanagamachchi, Sam Nallaperuma, “CRIECNN: Ensemble Convolutional Neural Network and Advanced Feature Extraction Methods for the Precise Forecasting of circRNA-RBP Binding Sites”, Computers in Biology and Medicine (impact factor: 7.7, Q1), Elsevier, 2024.
  • Dilan Lasantha, Sugandima Vidanagamachchi, Sam Nallaperuma, “Ensemble Deep Learning For circRNA-RNA Binding Protein Interaction Prediction in the Last Decade: A Review”, Engineering Applications of Artificial Intelligence ( impact factor: 8.0, Q1), Elsevier, 2023.
  • Nadisha Madushani, S.M. Vidanagamachchi, Nalin Arachchilage, “Selfish Mining Attack in Blockchain: A Systematic Literature Review”, International Journal of Information Security (impact factor: 3.2, Q1), Springer Nature, 2024.
  • Nadisha Madushani, S.M. Vidanagamachchi, Nalin Arachchilage, “BA-Flag: A Self-Prevention Mechanism of Selfish Mining Attacks in Blockchain Technology”, International Journal of Information Security (impact factor: 3.2, Q1), (Accepted with revisions), Springer Nature, 2024.
  • Samarawickrama Wanni Arachchige Madushani Upamalika; Champi Thusangi Wannige, Sugandima Mihirani Vidanagamachchi, Sameera Chathuranga Gunasekara, Ramya Tulasi Kolli Mangala C.S. De Silva, Don Kulasiri, Nishad Jayasundara, A review of molecular mechanisms of renal toxicity induced by chronic interstitial nephritis among agricultural communities (CINAC), Journal of Environmental Toxicology and Pharmacology (impact factor: 5.785), https://doi.org/10.1016/j.etap.2022.103850, 2022.
  • S.M. Vidanagamachchi, An improved method with higher efficiency for protein biomarker discovery and verification workflow, Journal of National Science Foundation of Sri Lanka (impact factor: 0.682), DOI: 10.4038/jnsfsr.v49i2.8845, 2021.
  • S.M. Vidanagamachchi and S.D. Dewasurendra, Average Time Complexity Analysis of Commentz-Walter Algorithm, Journal of National Science Foundation of Sri Lanka (impact factor: 0.682), DOI: 10.4038/jnsfsr.v49i2.8845, 2018.
  • JOURNAL ARTICLES (Peer-reviewed Journals)
  • Lahiru Rajapaksha, S.M. Vidanagamachchi, Sampath Gunawardana, Vajira Thambawita, “An Open-Access Data Set of Hospitalized Cardiac Arrest Patients: Machine Learning-Based Predictions Using Clinical Documentation”, BioMedInformatics, MDPI (open access journal), December 2023.
  • S.M. Vidanagamachchi and T.R. Waidyarathna, Association Rule Mining for a Climatic Condition based Recommender System : A Cinnamon Cultivation Case Study from Galle, Sri Lanka", Sri Lanka Journal of Applied Sciences, https://sljoas.uwu.ac.lk/index.php/sljoas/article/view/61, 2023.
  • INTERNATIONAL CONFERENCE FULL PAPERS (IEEE/ACM)
  • E.S.K.Chandrasekara, S.M. Vidanagamachchi, Performance Analysis of Transfer Learning Methods for Malaria Disease Identification, International Conference on Smart Computing and Systems Engineering, DOI: 10.1109/SCSE59836.2023.10214984, 2023.
  • S.M. Vidanagamachchi, K.M.G.T.R. Waidyarathna, Linear and Non-Linear Classifiers for Clinical Risk Factor Analysis of Cancer Patients, 7th International Conference on Bioinformatics and Biomedical Science, China, Association for Computing Machinery, https://doi.org/10.1145/3239264.3239280, 2018.
  • S.M. Vidanagamachchi, Proteomic Analysis of EGFR Specific Ligands in Pre-Eclampsia, 7th International Conference on Bioinformatics and Biomedical Science, China, Association for Computing Machinery, https://doi.org/10.1145/3239264.3239273, 2018.
  • S.M. Vidanagamachchi and M. Niranjan, OPBI: an Open Pipeline for Biomarker Identification, IEEE International Conference on Industrial Engineering and Engineering Management, Singapore, DOI: 10.1109/IEEM.2017.8290145, 2017.
  • S.M. Vidanagamachchi, S.D. Dewasurendra, M. Niranjan, R.G. Ragel, Tile Optimization for Area in FPGA based Hardware Acceleration of Peptide Identification, Sixth IEEE International Conference on Industrial and Information Systems, Sri Lanka. DOI: 10.1109/ICIINFS.2011.6038056, 2011.
  • S.M. Vidanagamachchi, S.D. Dewasurendra, "A Novel FPGA Architecture of Commentz-Walter Algorithm using Bit-Split String-Matching Engines", 21st International Conference on Advances in ICT for Emerging Regions (ICTer), DOI: 10.1109/ICter53630.2021.9774805, 2021.
  • S.M. Vidanagamachchi, S.D. Dewasurendra, R.G. Ragel, A Structured Hardware Software Architecture for Peptide Based Diagnosis of Baylisascaris Procyonis Infection, IEEE Seventh International Conference on Information and Automation for Sustainability, Sri Lanka. DOI: 10.1109/ICIAFS.2014.7069574, 2014.
  • S.M. Vidanagamachchi, S.D. Dewasurendra, R.G. Ragel, A Structured Hardware Software Architecture for Peptide Based Diagnosis - Sub-string Matching Problem with Limited Tolerance, IEEE Seventh International Conference on Information and Automation for Sustainability, Sri Lanka. DOI: 10.1109/ICIAFS.2014.7069574, 2014.
  • S.M. Vidanagamachchi, S.D. Dewasurendra, R.G. Ragel, Hardware Software Co-design of the Aho-Corasick Algorithm: Scalable for Protein Identification?, IEEE Eighth Internatonal Conference on Industrial and Information Systems, Sri Lanka. DOI: 10.1109/ICIAFS.2014.7069624, 2013.
  • S.M. Vidanagamachchi, S.D. Dewasurendra, R.G. Ragel, “Hardware Accelerated Protein Inference Framework, IEEE Eighth Internatonal Conference on Industrial and Information Systems, Sri Lanka. DOI: 10.1109/ICIInfS.2013.6732061, 2013.
  • ABSTRACTS
  • Dilan Lasantha, Sugandima Vidanagamachchi, CircECNN: circRNA-RBP binding sites prediction using an ensemble convolutional neural network and advanced feature extraction methods, International Conference on Innovation and Emerging Technologies (ICIET), 2022 (received the Best oral presentation award under the Artificial Intelligence and Data Science track in the ICIET conference).
  • Nadisha Madushanie, Sugandima Vidanagamachchi, Block Acceptance Flag: Prevention of Selfish Mining Attacks in Blockchain, International Conference on Innovation and Emerging Technologies (ICIET), 2022 (received the Best oral presentation award under the Communication and Networking Technologies track in the ICIET conference).
  • Sugandima Vidanagamachchi, Sarasi Munasingha, Evolution of Protein Sequence Family Classification Using Deep Learning, International Conference on Multidisciplinary Approaches in Science, 2021.
  • E.H.D.M.Maheshika, S.M.Vidanagamachchi, M.K.K.S.Madhushan, U.N.Kothalawala, M.A.D.D.Jayasooriya, A.S.R.Rodrigo, G.V.C.Madhuranga, Agri-Harvest: A Web-based System to Manage Harvest of Agricultural Products in Sri Lanka, International Conference on Innovation and Emerging Technologies, Sri Lanka, 2021.
  • A.G.P.D. Alahakoon, H.D.S. Amaradasa, K.V.S. Prasadh, S. M. Vidanagamachchi, N.M. Wickramage, G.D.K. Mahanama,Conversion of the Convolutional Neural Network implemented on Keras API to plain Python script, Ruhuna International Science and Technology Conference, Sri Lanka, 2021.
  • A.G.P.D. Alahakoon, H.D.S. Amaradasa, K.V.S. Prasadh, S. M. Vidanagamachchi, N.M. Wickramage, G.D.K. Mahanama,“Intraframe image processing algorithm for identifying meteors in all-sky images, Ruhuna University Research Sessions, 2020.
  • Sasanka Mallikarachchi, Sugandima Vidanagamachchi, Rochana Weerasiri, Isuru Madampitige, Sanuka Dayarathne, Tharaka Hasakelum, “Farm and Sell: Mobile and Web-based Solutions for Efficient Distribution of Agricultural Products in Sri Lanka, international Research conference of Uva Wellassa University, 2020.
  • Madushani Upamalika, Sugandima Vidanagamachchi, C.T. Wannige,Hardware architecture for superoxide production in CKDu initiation, International Research Symposium on Pure and Applied Sciences, 2019.
  • Madushani Upamalika, C.T. Wannige, Sugandima Vidanagamachchi, Role of Toxic Heavy Metals in Induction of Oxidative Stress in CKDu, SLAAI-International Conference on Artificial Intelligence, 2019.
  • Madushani Upamalika, C.T. Wannige, Sugandima Vidanagamachchi, Sensitivity Analysis of a Redox System Model to Understand the Initiation of Chronic Kidney Disease of Unknown Etiology Progression, International Research Conference of Uva Wellassa University, 2020.
  • S.M Vidanagamachchi, K.M.G.T.R. Waidyarathna, “Analyzing Relationships among Clinical Factors of Cancer Patients by Regression Analysis“, Galaxy Community Conference 2017 (GCC2017), France, 2017.
  • S.M. Vidanagamachchi, S.D. Dewasurendra, R.G. Ragel, M. Niranjan, Computational Approaches for Protein Inference in Shotgun Proteomics, ALPHY 2016, France, 2016.
  • S.M Vidanagamachchi, K.M.G.T.R. Waidyarathna, Identification of Hate-Speech in Social Networks, Wayamba University Conference Sri Lanka (WinC 2016), 2016.
  • S.M. Vidanagamachchi, Analyzing the Protein Interactions of Pre-eclampsia, First Ruhuna International Science and Technology Conference, Sri Lanka. 2014.
  • S.M. Vidanagamachchi, S.D. Dewasurendra, M. Niranjan, Metabolomic Analysis of Human Non-small Cell Lung Cancer, Peradniya University Research Sessions-2015, Sri Lanka. 2015.
  • S.M. Vidanagamachchi, S.D. Dewasurendra, M. Niranjan, R.G. Ragel, Automated Efficient Method for String Set Matching Using FPGA, Peradeniya University Research Sessions-2010, Sri Lanka. 2010.
  • S.M. Vidanagamachchi, S.D. Dewasurendra, M. Niranjan, R.G. Ragel, Introduction to Basic Genetics and Hardware Acceleration of Protein Sequence Data Processing, Peradeniya University Research Sessions-2010, Sri Lanka. 2010.
  • S. M. Vidanagamachchi, A. R. Weerasinghe, V. H. W. Dissanayake & R. Wijesinghe, Analyzing the Human Specificity of Pre-eclampsia, Fifth BeNeLux Bioinformatics Conference 2009, Belgium. 2009.
  • AWARDS/ GRANTS/ SCHOLARSHIPS
  • Best Innovation Award for the Reconfigurable CNN Processor at the Southern Provincial Invention and Innovation Competition, December 2023.
  • Two Gold Medals for Reconfigurable CNN Processor and Innovative Commercial Grade Telescope Primary Mirror Fabrication Technology at the Southern Provincial Invention and Innovation Competition, December 2023.
  • Asia Pacific Advanced Network (APAN57) Fellowship, 2024 January ,Bangkok, Thailand, 2023
  • Faculty Research Grants, University of Ruhuna (Rs. 100000/= Research Grant) (2023)
  • Faculty Research Grants, University of Ruhuna (Rs. 80000/= Research Grant) (2022)
  • GHC Faculty Scholarship to attend the virtual component of the 2022 Grace Hopper Celebration, USA from Sep 20-23, 2022
  • AHEAD Project Grants (Rs. 40000000) | Accelerating Higher Education Expansion and Development Project, Sri Lanka (2019)
  • UGC Block Grants (Rs. 2800000) | University of Ruhuna , Sri Lanka (2016)
  • Visiting academic of University of Southampton (Rs.1000000/= Research Grant) | | University Grants Commission, Sri Lanka (2014)
  • Prof. V.K. Samaranayaka conference award | (Rs.216000/= Travel Grant for presenting research in IEEE IEEM 2017 conference in Suntec, Singapore)| LK domain registry, Sri Lanka (2017)
  • National Science Foundation Travel award | (Rs.188500/= Travel Grant) and Galaxy Community fellowship | (fellowship for presenting research in GCC2017 conference in Montpellier, France) | National Science Foundation, Sri Lanka, Galaxy Community Fund Board, Indiana University, USA (2017)
  • Prof. V.K. Samaranayaka conference award | (Rs.100000/= Travel Grant) and Lille University fellowship | (fellowship for presenting research in ALPHY 2016 conference in Lille, France, (2016)
  • Mahapola Higher Education Scholarships award holder | University of Colombo School of Computing, Sri Lanka (2005-2009)
  • Ruhuna Invention & Innovation Exhibition (RIIE) 2023 our project group won the first and second places in the Institute category at University of Ruhuna
  • Student Awards
  • The most outstanding young investor award- VC Awards in University of Ruhuna, 2023 was received by an MPhil student (Mr. Praveen Alahakoon)
  • Two undergraduate students (Dilan Lasantha and Nadisha Madushani) received the best presenter awards for two research at ICIET Conference under two tracks Artificial Intelligence and Data Science and Communication and Networking Technologies tracks.
  • CONTRIBUTION TO THE FACULTY/UNIVERSITY
  • Head of the Department - 2023 to present
  • Chairperson of the Technical Evaluation Committee for Supply delivery, Installation, Commissioning, Testing and Maintenance of Naval Architecture Software for the Faculty of Engineering (Rhinoceros 3D and Oraca 3D hull Design)-2023
  • Served in several academic recruitment committees (Faculty of Science, Faculty of Arts and Faculty of Technology) as a senate nominee and the HOD – 2023 September, 2023 November, 2024 January
  • Served in several recruitment committees of temporary demonstrators at the Faculty of Science (Department of Mathematics and Department of Computer Science)– 2023 December, 2023 December
  • Served as a student selection committee member (as the IT member) of Faculty of Arts for the Parliament Internship Programme- 2023
  • Served as a resource person in the module 6 of Certificate Course for Professional Development in Higher Education (CCPDHE) conducted by Staff Development Center, University of Ruhuna- 2023
  • Served as a resource person for preparation of the Aptitude test for the recruitment for Programmer Cum System Analyst Grade II, Instructor in Computer Technology Grade II, Systems Engineer Grade II, and Assistant Network Manager Grade II, University of Ruhuna- 2023
  • Serve as a SLAAS member of the University of Ruhuna Chapter- 2023 to present
  • Member from the Faculty of Science for the University Ranking Committee - 2023 to present
  • Member of the Faculty IT Committee – 2023 to present
  • Academic coordinator of BSc degree programme (3rd year) - 2023 to present
  • Chairperson of the Technical Evaluation Committee for allocating funds for computers and accessories for the Faculty of Science, 133 Mn -2022
  • Member of the Ethical review committee- 2022 to present
  • Student counselor in the faculty of Science - 2022 to present
  • Student mentor in the faculty of Science- 2021 to present
  • Member of the students’ grievances committee- 2022 to present
  • Member of the Self-Evaluation Report Writing Team, Faculty of Science, University of Ruhuna- 2022 to present
  • Member of the Quality Assurance Cell, Faculty of Science, University of Ruhuna- 2020 to present
  • Member of the Carrier Guidance Committee, Faculty of Science, University of Ruhuna- 2021 to present
  • Organizing committee member of Ruhuna International Science and Technology Conference 2019 (RISTCON 2019)- May 2018 to January 2019
  • Organizing committee member of 16th Academic Sessions & 15th Vice Chancellor's Awards Ceremony – January 2019 to March 2019
  • Organizing committee member of Faculty Day - 2018
  • Science Exhibition Committee member – 2016
  • WORKSHOPS/ SEMINARS
  • Organized “Computer Networking Workshop” under SLAAS Ruhuna Chapter for school A/L students- 2023
  • Organized “Institutional Repository Workshop” under University Ranking Committee for the academic staff of the faculty of Science - 2023
  • Organized “Postgraduate Opportunities in the UK Workshop” under the Carrier Guidance Unit for the undergraduate students at the Faculty of Science, University of Ruhuna -2021
  • Organized “Computer Industry Opportunities Workshop” under the Carrier Guidance Unit for the undergraduate students at the Faculty of Science, University of Ruhuna -2021
  • OTHER NATIONAL AND INTERNATIONAL CONTRIBUTIONS
  • Serve as a reviewer and a session chair (for 2 sessions) Ruhuna International Conference on Innovation and Technology (RICIT-2023), Faculty of Technology, University of Ruhuna, Sri Lanka, 2023.
  • Serve as a reviewer in the 5th Asia Digital Image Processing Conference (ADIP 2023)
  • Serve as a reviewer and a session chair in 2023 International Conference on Robotics, Control and Vision Engineering, Tokyo, Japan, 2023.
  • Serve as a reviewer in 4th International Conference on Pattern Recognition and Intelligent Systems - 2022
  • Serve as a reviewer of The Journal of National Science Foundation of Sri Lanka (JNSF)- January 2019 to present
  • Serve as a reviewer of Rajarata University Journal, Sri Lanka- 2020 to present
  • Serve as a reviewer of 21st International Conference on Advances in ICT for Emerging Regions- session chair and review committee (ICTer 2018)- 2018,2019,2020,2021,and 2023
  • Serve as a reviewer of International Conference on Bioinformatics and Computational Biology- January 2019 to present
  • Serve as a reviewer of international Conference on Bioinformatics and Biomedical Science- May 2018 to present
  • Serve as a member of International Academy of Engineers- January 2015 – present
  • Serve as a reviewer of International Research Conference on Smart Computing and Systems Engineering (SCSE) 2019, 2018
  • Serve as a reviewer of Ruhuna International Science and Technology Conference -2017 to present
  • Serve as a reviewer of International Conference on Industrial Engineering and Engineering Management (IEEE IEEM2017) – 2017
  • Engaged as a volunteer for developing National Covid-19 Health Information System (NCHIS) on a zero budget in the Ministry of Health- 2021, Sri Lanka.
  • Engaged in the review process of ICT degree programme course titles in 2020, Department of Interdisciplinary Studies, Faculty of Technology, University of Jaffna, Sri Lanka.
  • Panel Chief of GCE A/L ICT examination paper marking panel- 2022 to present