Daniel J. B. Clarke


SUMMARY


My name is Daniel J. B. Clarke. An active programmer presently seeking admittance into graduate school. I received a BS in Electrical Engineering and a MS in Computer Engineering in May 2017. With more than a decade of independent programming experience, several summers of industry and research experience in software engineering, and training as an Electrical Engineering student heavily involved in research and competitions, I have a broad exposure to the hardware-software stack and have research interests ranging from big data analytics to analog circuit design with focuses on machine learning, artificial intelligence, and cybersecurity, and in particular, I am most interested in the places where they come together.

EDUCATION


MS Computer Engineering, Fairleigh Dickinson University, Teaneck NJ
Spring 2017

BS Electrical Engineering, Fairleigh Dickinson University, Teaneck NJ
Magna Cum Laude, Global Scholars, Spring 2017

EMPLOYMENT


PRESENT

Associate Biomedical Software Developer, Ma’ayan Laboratory of Computational Systems Biology, Icahn School of Medicine at Mount Sinai in New York
February 2018 - Present

PREVIOUS

Cyberlab Research and Development, Center for Cybersecurity and Information Assurance, Fairleigh Dickinson University, Teaneck NJ
Summer 2014, Fall 2017 - December 2017

  • Conducted research in planning and implementing a virtual Cyber Defense and Forensics Laboratory
  • Incorporated concepts from cybersecurity, embedded systems, and IoT in developed labs

Student Tutor, Fairleigh Dickinson University, Teaneck NJ
Fall 2016 - Spring 2017

  • Available as tutor for every class I’d ever taken
  • Typically tutored higher level math/engineering courses including but not limited to:
    • Calculus 2 & 3, Signals and Systems I & II, Physics I & II, Electronics II, & III

BD2K-LINCS Summer Research in Biomedical Big Data Science, Ma’ayan Laboratory of Computational Systems Biology, Icahn School of Medicine at Mount Sinai in New York
Summer 2016

Student Worker, Grants and Sponsored Projects, Fairleigh Dickinson University, Teaneck NJ
Summer 2015 - Summer 2017

  • Created a data acquisition and reformatting pipeline for cybersecurity and grants websites
  • Assisted with Annual Cybersecurity Symposiums and NSA National Centers of Academic Excellence in Information Assurance/Cyber Defense designation

Intern, NIKSUN, Inc, Princeton NJ
Summer 2013

  • Re-engineered existing proprietary security application interfaces for extended use cases
  • Modified embedded device system firmware
  • Assisted front-end developers by shaping a backend API to meet application requirements

AWARDS AND HONORS


  • 1st Place Winner: IEEE Region 1 Student Paper Competition 2017
  • 1st Place Winner: FDU IEEE Local Student Paper Competition 2017
  • 1st Place Winner: IEEE Region 1 Student Ethics Competition 2015
  • 1st Place Winner: FDU Cybersecurity Symposium Poster Competition 2014
  • 15th Place Winner: NJ Governors Cyber Challenge 2013
  • Radio Club of America Scholarship 2016
  • Outstanding Poster Award: LSAMP Research Conference 2016
  • IEEEXtreme Competitor: Team Marshmallow 2012 - 2016
  • Editor and Writer, FDU Equinox: Student Newspaper 2015 - 2017
  • President, FDU Green Team: Campus Environmental Advocacy Club 2014 - 2016
  • FDU Global Scholar, 2012 - 2017

PUBLICATIONS


Daniel J B Clarke, Maxim V Kuleshov, Brian M Schilder, Denis Torre, Mary E Duffy, Alexandra B Keenan, Alexander Lachmann, Axel S Feldmann, Gregory W Gundersen, Moshe C Silverstein, Zichen Wang, Avi Ma’ayan; eXpression2Kinases (X2K) Web: linking expression signatures to upstream cell signaling networks, Nucleic Acids Research, Volume 46, Issue W1, 2 July 2018, Pages W171–W179, https://doi.org/10.1093/nar/gky458

A. R. Rao, S. Garai, D. Clarke and S. Dey, “A system for exploring big data: an iterative k-means searchlight for outlier detection on open health data,” 2018 International Joint Conference on Neural Networks (IJCNN), Rio de Janeiro, 2018, pp. 1-8, https://doi.org/10.1109/IJCNN.2018.8489448

A. R. Rao and D. Clarke, “A comparison of models to predict medical procedure costs from open public healthcare data,” 2018 International Joint Conference on Neural Networks (IJCNN), Rio de Janeiro, 2018, pp. 1-8. https://doi.org/10.1109/IJCNN.2018.8489257

A. R. Rao, D. Clarke, M. Bhdiyadra and S. Phadke, “Development of an embedded system course to teach the Internet-of-Things,” 2018 IEEE Integrated STEM Education Conference (ISEC), Princeton, NJ, 2018, pp. 154-160. https://doi.org/10.1109/ISECon.2018.8340468

A. R. Rao and D. Clarke, “An open-source framework for the interactive exploration of Big Data: Applications in understanding health care,” 2017 International Joint Conference on Neural Networks (IJCNN), Anchorage, AK, 2017, pp. 1641-1648, https://doi.org/10.1109/IJCNN.2017.7966048

A. R. Rao and D. Clarke, “A fully integrated open-source toolkit for mining healthcare big-data: architecture and applications,” 2016 IEEE International Conference on Healthcare Informatics (ICHI), Chicago, IL, 2016, pp. 255-261, https://doi.org/10.1109/ICHI.2016.35

A. Ravishankar Rao & Daniel Clarke (2018) Hiding in Plain Sight: Insights about Health-Care Trends Gained through Open Health Data, Journal of Technology in Human Services, 36:1, 48-55, https://doi.org/10.1080/15228835.2017.1416515

Ravishankar Rao A., Clarke D. (2018) Facilitating the Exploration of Open Health-Care Data Through BOAT: A Big Data Open Source Analytics Tool. In: Tadj L., Garg A. (eds) Emerging Challenges in Business, Optimization, Technology, and Industry. Springer Proceedings in Business and Economics. Springer, Cham, https://doi.org/10.1007/978-3-319-58589-5_7

Nandikotkur et al. (2016). A Spectral Variability Study Using the Entire FERMI Data from the Blazar 3C 454.3, http://adsabs.harvard.edu/abs/2016AAS...22831410N

TECHNICAL SKILLS AND HOBBIES


Amateur Radio License, Technician, KD2IQK
Spring 2015

Open Source Software Development http://github.com/u8sand/
2007 - Current

  • Research, led, and developed a wide variety of projects
  • Was exposed to a substantial number of technologies and systems including but not limited to:
    • Unix: awk, sed, rsync, iptables, bpf, git, gdb, radare
    • C/C++; stl (c++11), boost, win32, .NET, Qt, CMake, OGRE, DirectX
    • Python3; pandas, sklearn, networkx, django, selenium, scapy, tensorflow
    • HTML/Javascript; jQuery, Node, Typescript, React, Loopback, Jekyll, latex, mathjax

Baka MPlayer, http://bakamplayer.u8sand.net/
Summer 2014 - Winter 2017

  • Lead programmer, maintainer, and manager
  • Contributed to dependent projects including mpv and qt
  • Collaborated with UX designer and open source community