Computational Biologist
Education
Professional Experience
- Pre-doctoral associate, June 2010 - Present
The Jackson Laboratory, Bar Harbor, ME
Supervisor: Elissa J. Chesler, Ph. D.
- Research Assistant, January 2007 - May 2010
Oak Ridge National Laboratory, Oak Ridge, TN
Interdisciplinary Supervisors:
Michael A. Langston, Ph. D. (Computer Science) and
Elissa J. Chesler, Ph. D. (Life Sciences)
- Teaching Assistant, August 2006 - December 2006
CS 100: Introduction to Computer Science for Non-Majors
University of Tennesse, Knoxville, TN
Instructor: Heather Booth, Ph. D.
Selected Publications
-
Baker, EJ, Jay, JJ, Bubier, JA, Langston, MA, Chesler, EJ: "GeneWeaver: a web-based system for integrative functional genomics".
Nucleic Acids Research. (2011). [nar]
- Jay, JJ, Eblen, J, Zhang, Y, Benson, M, Perkins, A, Saxton, A, Voy, B, Chesler, EJ, Langston, MA: "A Systematic Comparison of Genome Scale Clustering Algorithms". 7th International Symposium on Bioinformatics Research and Applications, Changsha, China May 27 (2011).
[acm-dl]
- Meehan, TF, Carr, CJ, Jay, JJ, Bult, CJ, Chesler, EJ, Blake, JA: "Autism candidate genes via mouse phenomics". Journal of Biomedical Informatics. (2011).
[pubmed]
- Baker, EJ, Jay, JJ, Philip, VM, Zhang, Y, Li, Z, Kirova, R, Langston, MA, Chesler, EJ: "Ontological Discovery Environment: a system for integrating gene-phenotype associations". Genomics. 94, 377- 387 (2009).
[pubmed]
Selected Presentations
- Jay, JJ, Baker, EJ, Chesler, EJ. "Extracting relationships from integrated functional genomics data with the Ontological Discovery Environment". 19th Annual International Conference on Intelligent Systems for Molecular Biology and 10th European Conference on Computational Biology. Vienna, Austria. (2011).
[link, J32]
- Jay, JJ, Langston, MA, Baker, EJ, Chesler, EJ: "The Ontological Discovery Environment: A Web-based Software System for Combinatorial Cross-Species Functional Genomic Data Integration". 18th Annual International Conference on Intelligent Systems for Molecular Biology. Boston, MA (2010).
[link, G31]
- Philip, VM, Jay, JJ, Langston, MA, Baker, EJ, Chesler, EJ: "Integrating convergent evidence across species to find QTL candidate genes using the Ontological Discovery Environment". 40th Annual Meeting of the Society for Neuroscience. San Diego, CA (2010).
[link]
- Jay, JJ, Philip, VM, Langston, MA, Baker, EJ, Chesler, EJ: "Navigating a sea of genes: Using convergent data to find common and unique substrates for predisposing behavior, drug abuse and alcoholism with the Ontological Discovery Environment". 40th Annual Meeting of the Society for Neuroscience. San Diego, CA (2010).
[link]
- Adams, R, Harris, J, Jay, JJ, Johnson, B, Land, M, Hauser, L: "Developing measures for microbial genome assembly quality control". BMC Bioinformatics. 11, P14 (2010).
[link]
- Jay, JJ: "Synthesized data analysis with the Ontological Discovery Environment". GAGGLE Workshop. Institute for Systems Biology, Seattle, WA (2009).
[link]
- Jay, JJ, Philip, VM, Li, Z, Zhang, Y, Kirova, R, Langston, MA, Baker, EJ, Chesler, EJ: "The Ontological Discovery Environment : Integrating gene centered data across diverse experiments". UT-ORNL-KBRIN Bioinformatics Summit. Pikeville, TN (2009).
[link]
- Jay, JJ, Philip, VM, Li, Z, Zhang, Y, Kirova, R, Baker, EJ, Langston, MA, Chesler, EJ: "The Phenome Interdependency and Similarity Hierarchy: A tool for genome-scale phenotypic analysis". 22nd International Mammalian Genome Conference. Prague, Czech Republic (2008).
[link, Session 1, P19]
- Jay, JJ, Li, Z, Philip, VM, Zhang, Y, Perkins, A, Kirova, R, Baker, EJ, Langston, MA, Chesler, EJ: "Ontological Discovery Environment Web Tools". UT-ORNL-KBRIN Bioinformatics Summit. Buchanan, TN (2007).
[link]
- Chesler, EJ, Hulvey, JP, Kirova, R, Jay, JJ, Li, Z, Philip, VM, Zhang, Y, Glenn, HR, Swanson, DJ, Langston, MA, Goldowitz, DA, Baker, EJ: "The Ontological Discovery Environment: an internet resource for integration of phenomic information through gene-centric analysis". 37th Annual Meeting of the Society for Neuroscience. San Diego, CA (2007).
[link]
Awards
- NSF IGERT Fellowship,
Scalable Computing and Leading Edge Innovative Technologies (SCALE-IT), 2010
- Travel Award,
Frontiers in Addiction Research NIDA Mini-Convention, 2010
- Travel Fellowship,
International Mammalian Genome Conference, 2008
- Provost's Merit Scholarship,
Baylor University 2002-2006
Technical Skills
- Platforms: Linux, Windows, Mac OS X, Android, iOS
- Turing-complete Languages: Python, C/C++, Java, Lisp, PHP, Unix Shell (bash/zsh), Perl, Javascript
- Other Languages: SQL (PostgreSQL, MySQL, Sqlite, Oracle, MSSQL), HTML, CSS, SVG, Regular Expressions