[Slides DEFENSE] Mapping Genotype to Phenotype using Attribute Grammar
MAPPING GENOTYPE TO PHENOTYPE USING ATTRIBUTE GRAMMAR Doctoral Dissertation Defense Thursday, July 25th, 2013 – 1:00PM Virginia Bioinformatics Institute – Room 325LAURA ADAM Genetics, Bioinformatics and Computational Biology Program ADVISORY COMMITTEE: Jean Peccoud (Chair) David Bevan, Harold Garner, François Képès, Naren Ramakrishnan, John Tyson Abstract Over the past 10 years, several synthetic biology research groups …
GenoCAD tutorials
We developed tutorial material on GenoCAD which I used on several occasions. Adam, L. & Peccoud, J. Tutorial : GenoCAD I&II. Modelling Complex Biological Systems in the Context of Genomics in Nice, France, March, 2013. (invited) Adam, L. & Peccoud, J. Tutorial : GenoCAD I&II. Modelling Complex Biological Systems in the Context of Genomics at Evry, France, May 21-25, 2012 and La-Colle-sur-Loup, France, …
News coverage GenoTHREAT
Biosecurity for the Age of Redesigned Life.November 8, 2013 by JOHN DANKOSKY. NPR Science Friday (http://www.sciencefriday.com/segments/biosecurity-for-the-age-of-redesigned-life/) iGEM Team Developing Biosecurity Software for Synthetic Genomics.Jul 23, 2010 by Uduak Grace Thomas. (https://www.genomeweb.com/informatics/igem-team-developing-biosecurity-software-synthetic-genomics) Bioinformatics used to detect rogue use of synthetic biology. July 19-20, 2010 by Barry Whyte, Virginia Tech (PR). Biotechniques, Science Blog, e! Science News, R&D Mag, Eurekalert, ScienceDaily, …
[Slides] Formal languages to map Genotype to Phenotype in Natural Genomes.
Adam, L. Formal languages to map Genotype to Phenotype in Natural Genomes. GBCB seminar, 2012. Speaker: Laura Adam, GBCB Doctoral Candidate Advisor: Jean Peccoud, VBI Title: Formal languages to map Genotype to Phenotype in Natural Genomes Abstract: To formalize Genotype-to-Phenotype mapping and confer predictive powers, missing in current approaches, information from genomic databases and mathematical …
Scientists need to be proactive to foment international biosecurity.
Runner-up essay for the “Young Scientists” essay contest organized by the Implementation and Support Unit of the Biological Weapon Convention at the United Nations
Strengths and limitations of the federal guidance on synthetic DNA
Adam, L., Kozar, M., Letort, G., Mirat, O., Srivastava, A., Stewart, T., Wilson, M.L., Peccoud, J. (2011). Strengths and limitations of the federal guidance on synthetic DNA. Nature Biotechnology.
GenoTHREAT/GenoGUARD goes open source
GenoTHREAT is now open source (find it on Source Forge). The press release: BLACKSBURG, Va., March 21, 2011 – A software package designed to minimize the potential risks of synthetic biology for the nation’s defense and security is now available to the gene synthesis industry and synthetic biology community in an open-source format. Virginia Tech …
GENOTHREAT
Description at http://2010.igem.org/Team:VT-ENSIMAG/Genothreat Paper Adam, L., Kozar, M., Letort, G., Mirat, O., Srivastava, A., Stewart, T., Wilson, M.L., Peccoud, J. (2011). Strengths and limitations of the federal guidance on synthetic DNA. Nature Biotechnology. Code https://sourceforge.net/projects/genoguard/
A step-by-step introduction to rule-based design of synthetic genetic constructs using GenoCAD
Authors Mandy L Wilson, Russell Hertzberg, Laura Adam, Jean Peccoud Publication date 2011/1/1 Book Methods in enzymology Volume 498 Pages 173-188 GenoCAD is an open source web-based system that provides a streamlined, rule-driven process for designing genetic sequences. GenoCAD provides a graphical interface that allows users to design sequences consistent with formalized design strategies specific …
Formal grammars to protect intellectual properties in synthetic biology.
International Conference on Synthetic Biology at Evry, France, December 15-16, 2010. (invited talk+poster)