Jayson M. Harshbarger
PROFILE
Areas of experience include scientific computing, visualization and simulations. Looking to expand my knowledge in the fields of scientific computing and visualization. I am interested in systems that enable analysis, archiving, and dissemination of scientific data across broad scientific fields. Currently focused on developing visualization systems using node, AngularJS and D3. I'm passionate about programming, programming languages and open-source.
- Advanced physics and mathematics skills.
- Advanced computer skills on PC, MacOS and Linux.
- Many years of computer programming experience across multiple languages including: C++, FORTRAN, Visual Basic and Java.
- Many years of experience with web development. Knowledgeable in server side programming using PHP, node, and MySQL. Advanced understanding of HTML, CSS and JavaScript. Advanced experienced with AngularJS and d3.
- Advanced experience with, and strong advocate of, version control systems such as git and github.
- Contributor to various open source projects including AngularJS, DocPad, and Semantic MediaWiki. Passionate about open source software.
- Github user Hypercubed with over 70 public repositories. Over 25 packages published to npm.
- Maintainer of various open source projects including Project χ, svgsaver, mini-signals angular-marked and angular-primer.
- Advanced skills using CAD tools including AutoCAD, ProE, CATIA and Patran.
- Proven ability to deliver under critical time constraints.
- Beginning level Japanese.
PROFESSIONAL EXPERIENCE
RIKEN Center for Life Science Technologies, Division of Genomic Technologies, 2011 - Present
Technical Scientist / Web Visualization Development
- Designed and developed various web sites and web applications in support of a large international consortium research project including the consortium website consortium website.
- Developed web applications for retrieval and visualization of large genomic datasets using node, d3 and AngularJS including FANTOM5 Table Extraction Tool.
- Developed web applications for visualization of scientific data associated with various publications including a tool for exploring cell-cell ligand-receptor mediated communication networks.
- Developed and released various open-source tools and applications including Project χ
- Performed bioinformatics analysis of CAGE sequencing on RNA isolated from human and mouse samples.
- Contributed to the code base of a powerful web based scientific collaborations, data integration and omics visualization tool.
- Contributed to and co-authored several publications.
Boeing S&IS / El Segundo, 2000 – 2011
Senior Scientist / Survivability Engineering
- Developed in-depth understanding of space environment effects and knowledge across broad scientific topics such as molecular gas dynamic, diffusion, sublimation, thin film optics, radiation and plasma physics.
- Responsible for modeling of contamination on satellite optical systems due to molecular and particulate contamination, plume impingement of electric and liquid propulsion systems and evaluation of gas flow within complex vessel for susceptibility to multipaction.
- Responsible for statistical analysis of spacecraft reliability under the influence of micro-meteoroid bombardment.
- Researched and developed various scientific analysis applications including best in industry simulation tools for modeling of molecular gas dynamics in collision-less environments and semi-empirical simulation of the effects of electric and liquid thruster plume impingement.
- Developed expert knowledge in various engineering tools such as Thermal Desktop (AutoCAD based thermal modeler), COMSOL (Multiphysics modeler), and FilmStar (thin film optics software). Tested and implemented new tools such as thermal modeling software, multiphysics tool for diffusion modeling, and thin film optics software for modeling of contamination effects on optically sensitive instruments.
- Responsible for improvement of contamination engineering standard processes including leading a multi-year project to improve enterprise wide process for control of outgassing materials.
- Designed, procured, and analyzed various extensive laboratory experiments in support of empirical model development in the areas of thin film deposition including surface sputtering and ultraviolet deposition within high vacuum systems.
- Heavy involvement in anomaly investigation teams under critical time constraints.
UCLA, Center for High Frequency Electronics, 1996 – 2000
Assistant Engineer
- Responsible for general laboratory duties, maintenance of laboratory hardware, and assisting graduate level researchers, school faculty and industry researchers in various research projects.
- Developed various software tools for laboratory management.
- Developed an in-depth understanding of high frequency electronics including network analysis of microwave devices and circuits up to 105 GHz.
Ventura College Chemistry Department, 1993 – 1996
Laboratory Assistant
- Responsible for general laboratory duties, maintenance of laboratory equipment, and assisting faculty in conducting of in-class experiments.
- Developed various software tools for laboratory management.
PUBLICATIONS
- ARR Forrest, ..., A promoter level mammalian expression atlas. Nature 2014
- E Arner, ..., Transcribed enhancers lead waves of coordinated transcription in transitioning mammalian cells. Science 2015
- D Smedley, ..., The BioMart community portal: an innovative alternative to large, centralized data repositories. Nucleic acids research 2015
- M Lizio, J Harshbarger, ..., Gateways to the FANTOM5 promoter level mammalian expression atlas. Genome Biology 2015
- J Severin, M Lizio, J Harshbarger, ..., Interactive visualization and analysis of large-scale sequencing datasets using ZENBU. Nature Biotechnology 2014
- JA Ramilowski, T Goldberg, J Harshbarger, ..., A draft network of ligand–receptor-mediated multicellular signalling in human. Nature Communications 2015
- I Abugessaisa, H Shimoji, S Sahin, A Kondo, J Harshbarger, ..., FANTOM5 transcriptome catalog of cellular states based on Semantic MediaWiki. Database 2016
EDUCATION
University of California, Los Angeles, 1996 - 1999
Bachelors of Science in Physics
Graduated with a 3.40 GPA. Attended classes while working as an Assistant Engineer in the Electrical Engineering Department. In addition to core requirements attended courses on microbiology, biotechnology and biophysics.
University of Southern California, 2002/2006
Attended individual class on C++ programming. Attended class on computational methods in rarefied gas dynamics. Studied Direct Simulation Monte Carlo/Particle-in-Cell codes. Developed a 2D DSMC code as a term project.
El Camino Community College, 2011
Attended Japanese language classes