Joshua S. Martin

**** ********* ***** 781-***-****

Durham, NC 27707 acub1d@r.postjobfree.com

Career Summary

Accomplished and highly flexible scientist with over 15 years research experience in a variety of disciplines ranging from synthetic chemistry to bioinformatics. Possessing an entrepreneur spirit with an ability to adapt and adjust quickly in response to new challenges and responsibilities whether it is learning a different skill set or developing new techniques. Now looking for new challenges and the opportunity to expand an already diverse skill set including:

Extremely Interdisciplinary: Ph.D. in theoretical statistical physics, 3 years experimental molecular biology at MIT, 7+ years of bioinformatics/biostatistics with a speciality in RNA structure, and 3 years computational evolutionary biology

Extensive Programming Experience: 10+ years Linux/Unix experience as administrator and user, 10+ year BASH shell scripting, 10+ years Matlab (including GUI creation), 7+ years OSX, 7+ years python (including biopython, matplotlib, scipy, & numpy), experienced with high-performance computation and minor experience with SQL, R, HTML, JavaScript, and C/C+

Excellent Oral and Written Communication Skills: 9 first or co-first author papers out of 15 total scientific papers (the latest being in Nature Methods), helped with the preparation of grants, numerous talks and posters at national and local scientific conferences, multiple and extensive outreach, teaching, and mentoring experiences, additional customer service and managerial skills

Knowledgable in a Variety of Applications: Microsoft Office & LibreOffice suites, Adobe Illustrator & InkScape, Gimp & Adobe Photoshop, BLAST, ClustalW, Emacs, VARNA, SSH, RNA folding software (RNAfold, S-Fold & RNAstructure)

Education

Ph.D. - Physics, May 2008

Brandeis University

Thesis Advisor: Jané Kondev.

Thesis: Polymer Models of Chromatin

B.A.(Hons) - Physics, May 2002

College of Wooster

Thesis Advisor: Shila Garg.

Awards and Honors

Postdoctoral Research Day Travel Award,

Wadsworth Center, 2010.

United States Patent 7315345, Kent State

University, 2008.

Integrative Graduate Education and Research

Training Grant, Brandeis University, 2006 - 2007.

David L. Falko Graduate School Prize in

Physics, Brandeis University, 2003.

Outstanding Teaching Fellow Award, Brandeis

University, 2002-2003.

Joseph Albertus Culler prize in Physics, College

of Wooster, 2000.

Martin - pg 2

Professional Experience

Small Business Owner July 2015 - Current

Tempest in a Teapot LLC, Durham, NC

Researched, financed, launched and managed Tempest in a Teapot, a small specialty teashop at the boarder of Chapel Hill and Durham,NC.

Guided customers through the process of identifying teas and products they would enjoy result- ing in multiple returning customers.

Programmed python scripts to analyze transaction data as exported from point of sales database. Post Doctoral Fellow July 2012 - June 2015

National Evolutionary Synthesis Center, Duke University

Conducted research on enumerating, identifying and predicting the evolutional pathways of un- translated RNAs, resulting in three first author papers and one second author paper.

Developed and implemented Python andMATLAB code (including GUI) for an innovative multi- step statistical analysis of extremely large FRET data sets in collaboration with the Laederach Lab

(UNC) and Walter Lab (U of Michigan) for Nature Methods publication (Blanco et al., 2015).

Implemented the integration of BASH and Python code to utilize parallel computing on the Duke shared computing cluster for the investigation of a structural distance metric for millions of RNA structures (Martin, 2014).

Post Doctoral Associate Sept. 2008 - June 2012

Depart. of Biology, University of North Carolina at Chapel Hill (Jan. 2011-June 2012) Depart. of Bioinformatics, Wadsworth Center/HRI (Sept. 2008- Jan. 2011) Principle Investigator: Alain Laederach

Mentored and educated Ph.D. andMaster students in Bash, Matlab and Python coding to produce nine published scientific papers.

Optimized the Kinfold algorithm for a 72x increase in speed and enabled it to be run on a desktop computer instead of a computer cluster (Martin et al., 2009 &Martin et al., 2012).

Pioneered the use of principal component analysis for the analysis and visual representation of data sets consisting of millions of RNA structures to investigate the perturbations to RNA structure from a single point mutation, specifically in relation to disease phenotypes (Halvorsen et al., 2010).

Developed a graphical user interface in Matlab to empower lab members in the investigation and analysis of data from the Beckman high-throughput sequencer.

Maintained and administered the Linux/Unix workstations, laptops and servers in additional to trouble shooting code integration across Python, Bash and C/C++ for biological computations (Sim- mons et al., 2009; Quarrier et al., 2010; Chen et al., 2013). Post Doctoral Associate May 2008 - Sept. 2008

Martin J. Fisher School of Physics, Brandeis University Principle Investigator: Jané Kondev and Paul Wiggins

Performed fluorescent molecular biology experiments under the direction of Dr. Paul Wiggins at MIT’s Whitehead Center to continue investigation of Ph.D. thesis (Wiggins et al., 2010).

Developed automated image analysis software to track, identify, and collect fluorescent signals across three dimensional images and hundreds of time points.

Utilized both theoretical and computational models to investigate and identify the properties of chromatin in S. cerevisiae and E. coli.

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