Skip to main content

Oluwatosin Oluwadare

Associate Professor

University of North Texas

Department of Computer Science and Engineering

Email: Oluwatosin.Oluwadare@unt.edu

Education

  • PhD, University of Missouri - Columbia, 2019
    Major: Computer Science
  • MS, University of Texas at Arlington, 2015
    Major: Computer Science
    Dissertation: Gait Analysis on a Smart Floor for Health Monitoring

Professional Positions

    Academic - Post-Secondary

  • Tenure-Track Assistant Professor, University of Colorado, Colorado Springs. University of Colorado, Colorado Springs. (2019 - 2025).
  • Graduate Teaching Assistant, University of Missouri, Columbia. University of Missouri, Columbia. (2018 - 2019).
  • Graduate Research Assistant, University of Missouri, Columbia. University of Missouri, Columbia. (2015 - 2019).
  • Graduate Research Assistant, University of Texas at Arlington. University of Texas at Arlington. (2014 - 2015).
  • Graduate Teaching Assistant, University of Texas at Arlington. University of Texas at Arlington. (2014 - 2014).

Professional Memberships

  • International Society of Computational Biology. (2021 - Present).

Teaching

Teaching Experience

    University of North Texas

  • CSCE 5934 - Directed Study, 1 course.
  • CSCE 6940 - Individual Research, 1 course.

Teaching at Other Institutions

  • University of Colorado Colorado Springs, CS 4435/5435 Data Mining, Fall 2024.
  • University of Colorado Colorado Springs, CS 4850/5850 Bioinformatics & Computational Biology, Spring 2024.
  • University of Colorado Colorado Springs, ENTP 1000 Introduction to Entrepreneurship, Spring 2024.
  • University of Colorado Colorado Springs, CS 2020 Introduction to Statistics for Data Analytics, Spring 2024.
  • University of Colorado Colorado Springs, CS 1120 Computational Thinking with Beginning Programming, Fall 2023.
  • University of Colorado Colorado Springs, CS 4435/5435 Data Mining, Fall 2023.
  • University of Colorado Colorado Springs, INOV 1010 The Innovation Process, Fall 2023.
  • University of Colorado Colorado Springs, CS 1120 Computational Thinking with Beginning Programming, Summer 2023.
  • University of Colorado Colorado Springs, ENTP 1000 Introduction to Entrepreneurship, Spring 2023.
  • University of Colorado Colorado Springs, CS 2020 Introduction to Statistics for Data Analytics, Spring 2023.
  • University of Colorado Colorado Springs, CS 4435/5435 Data Mining, Fall 2022.
  • University of Colorado Colorado Springs, ENTP 1000 Introduction to Entrepreneurship, Fall 2022.
  • University of Colorado Colorado Springs, CS 1120 Computational Thinking with Beginning Programming, Summer 2022.
  • University of Colorado Colorado Springs, CS 1120 Computational Thinking with Beginning Programming, Fall 2021.
  • University of Colorado Colorado Springs, CS 4435/5435 Data Mining, Fall 2021.
  • University of Colorado Colorado Springs, ENTP 1000 Introduction to Entrepreneurship, Fall 2021.
  • University of Colorado Colorado Springs, CS 1120 Computational Thinking with Beginning Programming, Spring 2021.
  • University of Colorado Colorado Springs, CS 4850/5850 Bioinformatics & Computational Biology, Fall 2020.
  • University of Colorado Colorado Springs, ENTP 1000 Introduction to Entrepreneurship, Fall 2020.
  • University of Colorado Colorado Springs, CS 5435 Data Mining, Spring 2020.
  • University of Colorado Colorado Springs, ENTP 1000 Introduction to Entrepreneurship, Spring 2020.
  • University of Colorado Colorado Springs, ENTP 1000 Introduction to Entrepreneurship, Fall 2019.

Awards and Honors

  • National Institutes of Health Maximizing Investigators’ Research Award (MIRA) Early-Career Award, National Institutes of Health. (2023).
  • $1 Million Dollar Club Inductee, University of Colorado, Colorado Springs. (2024).
  • College of Engineering and Applied Sciences (EAS) Outstanding Researcher of the Year Award, University of Colorado, Colorado Springs. (2024).
  • Distinguished Alumnus Award, Federal University of Technology, Akure (FUTA), Nigeria. (2024).
  • Missouri Building Entrepreneurial Capacity Program (MOBEC) Grant Award for Prototyping, Missouri. (2016).
  • Microsoft Imagine Cup USA Finalist, Microsoft. (2015).
  • First Bank of Nigeria Award for Best Graduating Students, First Bank of Nigeria. (2012).
  • University Academic Performance Prize (2011/2012), Federal University of Technology Akure (FUTA). (2012).
  • University Merit Award (2010/2011 and 2011/2012 Academic Session), Federal University of Technology, Akure (FUTA). (2010).

Research

Published Intellectual Contributions

    Journal Article

  • Menon, R., Mohit Chowdhury, H., Oluwadare, O. (2025). ScHiCAtt: Enhancing single-cell Hi-C data resolution using attention-based models. Other. 27 978-991. Elsevier BV. https://doi.org/10.1016/j.csbj.2025.02.031
  • Olowofila, S., Oluwadare, O., Robinson, P. (2025). DiCARN-DNase: Enhancing Cell-to-Cell Hi-C Resolution Using Dilated Cascading ResNet with Self-Attention and DNase-seq Chromatin Accessibility Data. Other. Oxford University Press (OUP). https://doi.org/10.1093/bioinformatics/btaf452
  • Chandrashekar MKB, Menon, R., Olowofila, S., Oluwadare, O. (2025). Unicorn: enhancing single-cell Hi-C data with blind super-resolution for 3D genome structure reconstruction.. Other. 41 (Supplement_1) i475-i483.
  • Menon, R., Mohit Chowdhury HMA, Oluwadare, O. (2025). ScHiCAtt: Enhancing single-cell Hi-C data resolution using attention-based models.. Other. 27 978-991.
  • Pinchuk, D., Chowdhury HMAM, Pandeya, A., Oluwadare, O. (2025). HiCForecast: dynamic network optical flow estimation algorithm for spatiotemporal Hi-C data forecasting.. Other. 41 (2)
  • Reckard, A.T., Pandeya, A., Voris, J.M., Gonzalez Cruz, C.G., Oluwadare, O., Klocko, A.D. (2024). A constitutive heterochromatic region shapes genome organization and impacts gene expression in Neurospora crassa.. BMC Genomics. 25 (1) 1215.
  • Reckard, A.T., Pandeya, A., Voris, J.M., Gonzalez Cruz, C.G., Oluwadare, O., Klocko, A.D. (2024). A Constitutive Heterochromatic Region Shapes Genome Organization and Impacts Gene Expression in Neurospora crassa.. Other.
  • Houchens, D., Chowdhury HMAM, Oluwadare, O. (2024). coiTAD: Detection of Topologically Associating Domains Based on Clustering of Circular Influence Features from Hi-C Data.. Other. 15 (10)
  • Chowdhury HMAM, Boult, T., Oluwadare, O. (2024). Comparative study on chromatin loop callers using Hi-C data reveals their effectiveness.. BMC Bioinformatics. 25 (1) 123.
  • Akpokiro, V., Chowdhury HMAM, Olowofila, S., Nusrat, R., Oluwadare, O. (2023). CNNSplice: Robust models for splice site prediction using convolutional neural networks.. Other. 21 3210-3223.
  • Vadnais, D., Oluwadare, O. (2023). ParticleChromo3D+: A Web Server for ParticleChromo3D Algorithm for 3D Chromosome Structure Reconstruction.. Other. 45 (3) 2549-2560.
  • Hovenga, V., Kalita, J., Oluwadare, O. (2022). HiC-GNN: A generalizable model for 3D chromosome reconstruction using graph convolutional neural networks.. Other. 21 812-836.
  • Higgins, S., Akpokiro, V., Westcott, A., Oluwadare, O. (2022). TADMaster: a comprehensive web-based tool for the analysis of topologically associated domains.. BMC Bioinformatics. 23 (1) 463.
  • Akpokiro, V., Martin, T., Oluwadare, O. (2022). EnsembleSplice: ensemble deep learning model for splice site prediction.. BMC Bioinformatics. 23 (1) 413.
  • Vadnais, D., Middleton, M., Oluwadare, O. (2022). ParticleChromo3D: a Particle Swarm Optimization algorithm for chromosome 3D structure prediction from Hi-C data.. Other. 15 (1) 19.
  • Hicks, P., Oluwadare, O. (2022). HiCARN: resolution enhancement of Hi-C data using cascading residual networks.. Other. 38 (9) 2414-2421.
  • Collins, B., Oluwadare, O., Brown, P. (2021). ChromeBat: A Bio-Inspired Approach to 3D Genome Reconstruction.. Other. 12 (11)
  • Hovenga, V., Oluwadare, O. (2021). CBCR: A Curriculum Based Strategy For Chromosome Reconstruction.. International Journal of Molecular Sciences. 22 (8)
  • Oluwadare, O., Highsmith, M., Turner, D., Lieberman Aiden, E., Cheng, J. (2020). Correction to: GSDB: a database of 3D chromosome and genome structures reconstructed from Hi-C data.. Other. 21 (1) 62.
  • Oluwadare, O., Highsmith, M., Turner, D., Lieberman Aiden, E., Cheng, J. (2020). GSDB: a database of 3D chromosome and genome structures reconstructed from Hi-C data.. Other. 21 (1) 60.
  • Oluwadare, O., Highsmith, M., Cheng, J. (2019). An Overview of Methods for Reconstructing 3-D Chromosome and Genome Structures from Hi-C Data. Other. 21 (1) Springer Science and Business Media LLC. https://doi.org/10.1186/s12575-019-0094-0
  • Trieu, T., Oluwadare, O., Wopata, J., Cheng, J. (2019). GenomeFlow: a comprehensive graphical tool for modeling and analyzing 3D genome structure.. Other. 35 (8) 1416-1418.
  • Trieu, T., Oluwadare, O., Cheng, J. (2019). Hierarchical Reconstruction of High-Resolution 3D Models of Large Chromosomes.. Scientific Reports. 9 (1) 4971.
  • Oluwadare, O., Zhang, Y., Cheng, J. (2018). A maximum likelihood algorithm for reconstructing 3D structures of human chromosomes from chromosomal contact data. BMC Genomics. 19 (1) Springer Science and Business Media LLC. https://doi.org/10.1186/s12864-018-4546-8
  • Oluwadare, O., Cheng, J. (2017). ClusterTAD: an unsupervised machine learning approach to detecting topologically associated domains of chromosomes from Hi-C data.. BMC Bioinformatics. 18 (1) 480.
  • Nowotny, J., Wells, A., Oluwadare, O., Xu, L., Cao, R., Trieu, T., He, C., Cheng, J. (2016). GMOL: An Interactive Tool for 3D Genome Structure Visualization.. Scientific Reports. 6 20802.
  • Nowotny, J., Ahmed, S., Xu, L., Oluwadare, O., Chen, H., Hensley, N., Trieu, T., Cao, R., Cheng, J. (2015). Iterative reconstruction of three-dimensional models of human chromosomes from chromosomal contact data.. BMC Bioinformatics. 16 338.

Presentations Given

    Keynote/Plenary Address

  • Oluwadare, O. (Author & Presenter), Rocky Mountain Bioinformatics Conference, 3D Chromosome and Genome Structure Modeling, ISCB, Aspen, United States of America. (2019 - 2019).

    • Oral Presentation

  • Oluwadare, O. (Author & Presenter), Intelligent Systems for Molecular Biology, Unicorn: Enhancing Single-Cell Hi-C Data with Blind Super-Resolution for 3D Genome Structure Reconstruction, nternational Society for Computational Biology (ISCB), Liverpool, United Kingdom. (2025 - 2025).

Media Contributions

    Internet

  • "Developers look to create disability apps," Marketplace News.. (July 22, 2015).

    • Newspaper

  • "Oluwadare Receives Prestigious NIH NIGMS Maximizing Investigators’ Research Award," UCCS Communique. (September 14, 2023).
  • "A self-learning algorithm may help predict how genetic disease occurs," UCCS Communique. (June 8, 2023).
  • "App helps visually impaired connect," UT Arlington News. (August 5, 2015).

    • Radio

  • "A Tech Challenge To Empower People With Disabilities.," KERA NEWS. (July 21, 2015).

    • TV

  • "MU PhD. Student launches app to help visually impaired," KOMU-TV News. (December 5, 2017).

Contracts, Grants, Sponsored Research

    Grant - Research

  • Oluwadare, O., "Can one size fit all? – High-Resolution 3D Genome Spatial Organization Inference with Generalizable Models," sponsored by National Institute of Health, Federal, $1611219 Funded. (2023 - 2028).
  • Oluwadare, O.E. (Co-Principal), "CyberRangerForge: A University of Colorado System Virtual Institute for Cyber Range and Research based Advanced Training of ROTC Cadets for Next Generation Cyber Operations," sponsored by Griffiss Institute, Private, $1500000 Funded. (2023 - 2025).
  • Oluwadare, O. (Principal), ""CRII:III:Development of deep learning methods for high-resolution 3D genomestructure spatial reconstruction," sponsored by National Science Foundation, Federal, $175000 Funded. (2022 - 2025).
  • Oluwadare, O. (Co-Principal), "REU Site: Deep Learning: Theory, Concepts and Applications," sponsored by National Science Foundation, Federal, $404980 Funded. (2021 - 2024).