User:Vincent Rouilly: Difference between revisions
From OpenWetWare
Jump to navigationJump to search
| Line 71: | Line 71: | ||
==DIY Synthetic Biology== | ==DIY Synthetic Biology== | ||
===General=== | |||
* [http://www.scifair.org/kid-science-project-molbio.html Dr. Shawn's Molecular Biology Science Fair Projects] | * [http://www.scifair.org/kid-science-project-molbio.html Dr. Shawn's Molecular Biology Science Fair Projects] | ||
* [http://biohackery.com/ BioHackery] | * [http://biohackery.com/ BioHackery] | ||
* [http:// | * [http://www.sciencemadness.org/ experimental DIY] | ||
===DNA manipulation=== | |||
* [http://www.scq.ubc.ca/?p=40 THE MACGYVER PROJECT: GENOMIC DNA EXTRACTION AND GEL ELECTROPHORESIS EXPERIMENTS USING EVERYDAY MATERIALS] | * [http://www.scq.ubc.ca/?p=40 THE MACGYVER PROJECT: GENOMIC DNA EXTRACTION AND GEL ELECTROPHORESIS EXPERIMENTS USING EVERYDAY MATERIALS] | ||
* [http://www.makezine.com/blog/archive/2006/12/extracting_dna.html MAKE zine] | * [http://www.makezine.com/blog/archive/2006/12/extracting_dna.html MAKE zine] | ||
| Line 80: | Line 82: | ||
* [http://www.newscientist.com/article.ns?id=dn11763 DIY PCR cycler (New Scientist)] | * [http://www.newscientist.com/article.ns?id=dn11763 DIY PCR cycler (New Scientist)] | ||
* [http://www.york.ac.uk/res/sots/activities/diydna.htm DIY DNA extraction] | * [http://www.york.ac.uk/res/sots/activities/diydna.htm DIY DNA extraction] | ||
===Measuremements and Characterization=== | |||
* [http://technology.newscientist.com/article/dn12688-diy-lab-scanner-made-from-standard-cd-drive.html DIY lab scanner (New Scientist)] | |||
* [http://cmgm.stanford.edu/pbrown/mguide/ DIY microarrays] | |||
* [http://www.springerlink.com/content/gmtnx79g8gfd5qhu/ An Inexpensive LED-Based Fluorometer Used to Study a Hairpin-Based DNA Machines, Hanwen Yan] | * [http://www.springerlink.com/content/gmtnx79g8gfd5qhu/ An Inexpensive LED-Based Fluorometer Used to Study a Hairpin-Based DNA Machines, Hanwen Yan] | ||
* [http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6THH-4G1V68J-2&_user=217827&_coverDate=11%2F11%2F2005&_rdoc=1&_fmt=&_orig=search&_sort=d&view=c&_acct=C000011279&_version=1&_urlVersion=0&_userid=217827&md5=c06e6c717614cd6361a0989ef4b238f9 Improvements in LED-based fluorescence analysis systems] | * [http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6THH-4G1V68J-2&_user=217827&_coverDate=11%2F11%2F2005&_rdoc=1&_fmt=&_orig=search&_sort=d&view=c&_acct=C000011279&_version=1&_urlVersion=0&_userid=217827&md5=c06e6c717614cd6361a0989ef4b238f9 Improvements in LED-based fluorescence analysis systems] | ||
* [http://ieeexplore.ieee.org/xpls/abs_all.jsp?arnumber=1403614 Enhanced fluorescence emission using a programmable] | * [http://ieeexplore.ieee.org/xpls/abs_all.jsp?arnumber=1403614 Enhanced fluorescence emission using a programmable] | ||
* [http://www.prizmatix.com/docs/app_notes_fluorometer.cfm Prizmatix] | * [http://www.prizmatix.com/docs/app_notes_fluorometer.cfm Prizmatix] | ||
* [http:// | * [http://www3.interscience.wiley.com/cgi-bin/abstract/112781514/ABSTRACT Do-it-yourself microelectrophoresis chips with integrated sample recovery] | ||
== OWW ideas (random) == | == OWW ideas (random) == | ||
Revision as of 06:17, 2 October 2007
|
Vincent Rouilly, PhD Candidate Department of Bioengineering email: vincent.rouilly03 (at) imperial.ac.uk
|
Education and Past Work Experiences
- PhD candidate at Imperial College London
- GE Medical Systems, Paris, Software R&D Engineer.
- Visiospace, Paris, Software R&D Engineer.
- M.Sc, ENST Paris and ERASMUS exchange at ETSIT Madrid (Signal and Image Processing Major).
Research Interests
- Computational Biology: stochastic processes, Generalized Petri Nets, Agent Based modelling, Design of Experiments.
- Contributing to build a Synthetic Biology framework (establishing standards, design for modularity and re-usability, parts characterization) + societal impact of Synthetic Biology.
- Laboratory Information System.
- Lab Automation
Current Research Projects
- Writing-up PhD thesis: "An Engineering Approach To The Modeling Of Genetic Circuits"
- iGEM instructor (2006, 2007)
- Supervising master project: "Sensitivity analysis applied to genetic circuit induction protocols".
- Supervising UROP project: "Building modular biobricks models implemented with CellML"
OWW Contributions
- Steering committee member and outreach co-chair.
- minicells
- Cell-Free Systems
- Hands on BioBrick Activity for a science fair
- Lab Automation Review
- Stochastic Gene Expression
- Registry of Standard Models
- Registry of Standard Models/Architecture
- Catalog of standard models in CellML
- Basic Components in CellML
- iGEM@imperial project framework
- iGEM@imperial Instructor
- iGEM@imperial template to document a part
- IGEM WetLab Planning Tool
- OWW Image Annotation Tool
Other:
Interesting links found on OWW
Recommended Books
- 'An Introduction to Systems Biology', Uri Alon
- 'System Modeling in Cellular Biology: From Concepts to Nuts and Bolts', Szallasi, Stelling and Periwal
- 'Stochastic Modelling for Systems Biology', D. Wilkinson
- 'Design And Analysis of Experiments', D.C. Montgomery
- 'Sensitivity Analysis', A. Saltelli
DIY Synthetic Biology
General
DNA manipulation
- THE MACGYVER PROJECT: GENOMIC DNA EXTRACTION AND GEL ELECTROPHORESIS EXPERIMENTS USING EVERYDAY MATERIALS
- MAKE zine
- WIRED: DNA Sequence Kit
- DIY PCR cycler (New Scientist)
- DIY DNA extraction
Measuremements and Characterization
- DIY lab scanner (New Scientist)
- DIY microarrays
- An Inexpensive LED-Based Fluorometer Used to Study a Hairpin-Based DNA Machines, Hanwen Yan
- Improvements in LED-based fluorescence analysis systems
- Enhanced fluorescence emission using a programmable
- Prizmatix
- Do-it-yourself microelectrophoresis chips with integrated sample recovery
OWW ideas (random)
building a stronger community
- get people to define on their User page their area(s) of interest using 'wiki-categories' (could help to find collaborators).
- if people defines their area of interest using references, would be interesting to use that information to match people's profiles.
support to find relevant info
- 'contextual' browsing ('hacking' google-ads-type-of-service to show other relevant wiki-pages or wiki-users on the side of a wiki page ... instead of ads).
- set essential keywords pages. 'Experts', in a given field, would recommend a set of keywords to help new comers to google more efficiently.
- setting-up a calendar with info about conferences, workshops, submission deadlines ...
adding features
- implementing java applets which are enable to read/write an xml-like format into the wiki:
- image annotation (microscope images, gel analysis, colonies plate ..) see iNote, SVG.
- graph editor/viewer to build/view/run kinetic models (SBML, CellML ...)
Project
Here is an overview of the modelling framework I am working on:
Who is visiting my page?
<html> <a href="http://clustrmaps.com/counter/maps.php?url=http://openwetware.org/wiki/User:Vincent" id="clustrMapsLink"><img src="http://clustrmaps.com/counter/index2.php?url=http://openwetware.org/wiki/User:Vincent" border=1 alt="Locations of visitors to this page"onError="this.onError=null; this.src='http://www.meetomatic.com/images/clustrmaps-back-soon.jpg'; document.getElementById('clustrMapsLink').href='http://clustrmaps.com/'"> </a>
<!-- Start of StatCounter Code --> <script type="text/javascript" language="javascript"> var sc_project=1775726; var sc_invisible=0; var sc_partition=16; var sc_security="e9fd94f4"; </script>
<script type="text/javascript" language="javascript" src="http://www.statcounter.com/counter/frames.js"></script><noscript><a href="http://www.statcounter.com/" target="_blank"><img src="http://c17.statcounter.com/counter.php?sc_project=1775726&java=0&security=e9fd94f4&invisible=0" alt="website tracking" border="0"></a> </noscript> <!-- End of StatCounter Code -->
</html>
