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RESEARCH INTEREST |
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Graph Theory, Network Analysis, Machine Learning, Data Mining, Data Analysis, Natural Language Processing, Knowledge Extraction, Computational Biology, Bioinformatics, Drug Discovery, Systems Biology, Network Biology, High Performance Computing, Semantic Web Technology
EDUCATION |
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University of Miami
Miami, FL
Miami, FL
Ph.D, Computer Science Expected: May 2021
Information Flow and Controllability of Regulatory Networks
Advisor: Stefan Wuchty, Ph.D.
M.S., Computer Science: May 2020
Human Pathway Analysis for identification of significant proteins
Advisor: Stefan Wuchty, Ph.D.
Information Flow and Controllability of Regulatory Networks
Advisor: Stefan Wuchty, Ph.D.
M.S., Computer Science: May 2020
Human Pathway Analysis for identification of significant proteins
Advisor: Stefan Wuchty, Ph.D.
McKendree University
Lebanon, IL
Lebanon, IL
B.S., Computer Science, Mathematics, Cum Laude May 2008
RESEARCH EXPERIENCE |
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Analysis of protein-protein interaction networks
Research Assistant, University of Miami
Aug 2015 - Current
Research Assistant, University of Miami
Aug 2015 - Current
Developing methods for identification of significant proteins based on their location in the pathway and expression data using random walker in a Protein-Protein Interaction Network. Developing algorithms to determine the proteins responsible for state change in biological systems through control theory. Applying various machine learning algorithms to predict such significant proteins for viral targets or causal genes for diseases.
Mentor: Stefan Wuchty, Ph.D.
Mentor: Stefan Wuchty, Ph.D.
Analysis of Hate in Social Media
Research Assistant, University of Miami
Jan 2018 - Jan 2020
Research Assistant, University of Miami
Jan 2018 - Jan 2020
Analysis and modeling of hate in various social media with complexity and network based analysis
Mentor: Stefan Wuchty, Ph.D.
Mentor: Stefan Wuchty, Ph.D.
Regenbase
Research Assistant, University of Miami
Aug 2015 - Jan 2017
Research Assistant, University of Miami
Aug 2015 - Jan 2017
Developing methods to extract information from Spinal Cord Injury related research publications using ontologies and text mining algorithms.
Mentor: Ubbo Visser, Ph.D.
Mentor: Ubbo Visser, Ph.D.
Correcting for Cryptic Relatedness in Genome-Wide Association Studies
Research Assistant, University of Miami
Jan 2015 - Aug 2015
Research Assistant, University of Miami
Jan 2015 - Aug 2015
Improving the performance of the algorithm that infers kinship coefficient from identity states without assuming known pedigree, using expectation-maximization algorithm.
Mentor: Brent Kirkpatrick, Ph.D.
Mentor: Brent Kirkpatrick, Ph.D.
PUBLICATIONS |
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Devkota, P., Wuchty, S., "Controllability of Regulatory Networks" (2021) In Preparation.
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Johnson, N.F., N., Velasquez, Jha, O., Leahy, R., Johnson Restrepo, N., Sear, R., Manrique, P., Lupu, Y., Devkota, P., Wuchty, S., Goldberg, B. "Covid-19 infodemic reveals new tipping point epidemiology and a revised R formula" (2021) In Submission.
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Devkota, P., Manrique, P., Zheng, M., Johnson, N.F., Wuchty, S., "Resurgence of Online Hate Group Activity Reveals New Viral Epidemiology" (2021) In Submission.
1.
Chamling, X., Kallman, A., Fang, W., Berlinicke, C., Mertz, J., Devkota, P., Pantoja, I. M., Smith, M., Ji, Z., Chang, C., Kaushik, A., Chen, L., Whartenby K., Calabresi P. A., Mao, H., Ji, H., Wang, T., Zack, D.J. "Single-cell transcriptomic reveals molecular diversity and developmental heterogeneity of human stem cell-derived oligodendrocyte lineage cells" Nature Communications. (2021).
2.
Devkota, P., Danzi, M., Lemmon, V., Bixby, J., Wuchty, S., "Computational Identification of Kinases that Control Axon Growth in Mouse," SLAS Discovery. 2020.
3.
Devkota, P., Wuchty, S., "Controllability analysis of molecular pathways points to proteins that control the entire interaction network" Scientific reports. (2020).
4.
Boltz, T. A., Devkota, P., Wuchty, S., "Collective influencers in protein interaction networks." Scientific reports. (2019).
5.
Johnson, N.F., Leahy, R., Johnson Restrepo, N., Velasquez, N., Zheng, M., Manrique, P., Devkota, P., Wuchty, S., "Hidden resilience and adaptive dynamics of the global online hate ecology" Nature 573 (2019).
6.
Devkota, P., Danzi M, Wuchty, S., "Beyond degree and betweeness centrality: Alternative topological measures to predict viral targets," PloS-one (2018)
7.
Goodacre, N., Devkota, P., Bae, E., Wuchty, S., Uetz, P., "Protein-protein interactions of human viruses," Seminars in Cell & Developmental Biology. Academic Press, 2018.
POSTER PRESENTATION |
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1.
Devkota, P., Kirkpartrick, B., Blanton, S., Bouchard-Côtè, A., "Correcting for Cryptic Relatedness in Genome-Wide Association Studies," 23rd Annual International Conference on Intelligent System for Molecular Biology 14th European Conference on Computational Biology (ISMB/ECCB), 2015.
WORK EXPERIENCE |
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Software Developer
Sniperdyne Systems, Belleville IL
May 2008 - Aug 2014
Sniperdyne Systems, Belleville IL
May 2008 - Aug 2014
Responsible for developing ERP integrated eCommerce system. Involved in creation of custom SQL replication tool that synced data using web services. Integrated 3rd party shipping, payment, and tax solutions to the in house eCommerce complete with CMS.
TEACHING EXPERIENCE |
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Teaching Assistant
University of Miami
University of Miami
CSC210 - Computing for Scientists
Spring 2020
CSC220 - Computer Programming II (JAVA)
Fall 2019
CSC645 - Introduction to Artificial Intelligence
Fall 2019
CSC427 - Theory of Computations
Spring 2016
AWARDS |
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University of Miami
Outstanding TA for 2020 (among CS graduate students)
UM Fellow
UM Fellow
McKendree University
Presidential Scholar
Dean's List
Dean's List
SKILLS |
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JAVA, C++, R, Python, ASP.Net, PHP, C#, MSSQL, MySQL, MongoDB, Javascript