"
Team:St Andrews/Human-practices
From 2012.igem.org
(Difference between revisions)
| Line 597: | Line 597: | ||
<div class="accordion-group"> | <div class="accordion-group"> | ||
<div class="accordion-heading"> | <div class="accordion-heading"> | ||
| - | <a class="accordion-toggle" data-toggle="collapse" data-parent="#accordion2" href="# | + | <a class="accordion-toggle" data-toggle="collapse" data-parent="#accordion2" href="#collapseFour"> |
Journal of Biological Engineering. Recommended by iGEM. | Journal of Biological Engineering. Recommended by iGEM. | ||
</a> | </a> | ||
</div> | </div> | ||
| - | <div id=" | + | <div id="collapseFour" class="accordion-body collapse" style="height: 0px; "> |
<div class="accordion-inner"> | <div class="accordion-inner"> | ||
<table class="table table-striped"> | <table class="table table-striped"> | ||
Revision as of 11:46, 3 July 2012
Scientific impact of iGEM
"The most influential Synthetic Biology competition" vs. "let the kids play"
Introduction
Team St Andrews forms, uniting nine students, seven world class researchers and four PhD advisors from disciplines as diverse as Computer Science and Physics, to Biology, Medicine and Chemistry.
January - March 2012
Applications for sponsorship are made to specifically chosen businesses and organisations with an interest in advancing the Life Sciences. Very quickly, "BioSilta", "GenScript", "Clontech", "Geneious", "Integrated DNA Technologies" and "Thermo Fisher" pledge their support and Team St Andrews grows...
10 March 2012
National Science and Engineering Week explodes in Fife with a regional "Science Discovery Day". Team St Andrews works to convey fundamental concepts in Genetic Engineering and Synthetic Biology to members of the public in new and exciting ways. The interactive "Codon Game", the 3 Dimensional visualisations of DNA and DNA polymerase 3 and display "E. Coli: under the Microscope" are all well received. Children and adults alike are fascinated when DNA is extracted from bananas, using everyday kitchen utensils, before their eyes.
April 2012
Brainstorming sessions are held as the team researches project ideas. Some promising titles include:
"E. Coli and Omega 3: A Project to Feed the Minds of Our Generation"
"Enzymatic Methane Conversion in Cows: a Sweet Smelling Approach to Reducing Climate Change"
"Resurfacing Science, Resurfacing our Roads: Cell Factories and Metal Binding Proteins Recover Pavement Platinum"
"Project Bio-logic-al: Optimizing Soil Composition by Method of Biological Computation"
27 April 2012
Team member Josi presents "Spider Mutants and Bioterrorism - an Overview of Synthetic Biology as an Emerging Scientific Discipline" to a “TEDx” audience of over eighty scientists and non - scientists akin. Josi views the field as "ground breaking" and by the end of her talk, members of her audience too admit surprise at the wealth of possibilities that this new research area makes available. There is excitement at the tantalizing proximity of reality of these ideas.
May 2012
Project ideas are discussed in greater detail and are filtered until only two research topics remain. Those preferred ideas are: the production of Omega 3 Fatty Acids by E. Coli Cells ("E. Coli and Omega 3: A Project to Feed the Minds of Our Generation") and the production of Metal – Binding Proteins ("Resurfacing Science, Resurfacing our Roads: Cell Factories and Metal Binding Proteins Recover Pavement Platinum").
Data collection
| Authors | Title | Year | Source title | Cited by |
| Boyle P.M.; Burrill D.R.; Inniss M.C.; Agapakis C.M.; Deardon A.; DeWerd J.G.; Gedeon M.A.; Quinn J.Y.; Paull M.L.; Raman A.M.; Theilmann M.R.; Wang L.; Winn J.C.; Medvedik O.; Schellenberg K.; Haynes K.A.; Viel A.; Brenner T.J.; Church G.M.; Shah J.V.; Silver P.A. | A BioBrick compatible strategy for genetic modification of plants | 2012 | Journal of Biological Engineering | |
| Hesselman M.C.; Odoni D.I.; Ryback B.M.; de Groot S.; van Heck R.G.A.; Keijsers J.; Kolkman P.; Nieuwenhuijse D.; van Nuland Y.M.; Sebus E.; Spee R.; de Vries H.; Wapenaar M.T.; Ingham C.J.; Schroen K.; Martins dos Santos V.A.P.; Spaans S.K.; Hugenholtz F.; van Passel M.W.J. | A multi-platform flow device for microbial (co-) cultivation and microscopic analysis | 2012 | PLoS ONE | |
| Materi W. | Leading a successful iGEM team | 2012 | Methods in Molecular Biology | |
| Ho-Shing O.; Lau K.H.; Vernon W.; Eckdahl T.T.; Campbell A.M. | Assembly of standardized DNA parts using biobrick ends in E. coli | 2012 | Methods in Molecular Biology | |
| Giavitto J.-L. | The modeling and the simulation of the fluid machines of synthetic biology | 2012 | Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) | |
| Muller K.M.; Arndt K.M. | Standardization in synthetic biology | 2012 | Methods in Molecular Biology | |
| Kuldell N. | Living machines: Some assembly required: Kit-based competitions challenge teams of students to learn microbiology and design principles in the context of synthetic biology | 2012 | Microbe | |
| Stewart D.; Wilson-Kanamori J.R. | Modular modelling in synthetic biology: Light-based communication in E. coli | 2011 | Electronic Notes in Theoretical Computer Science | |
| Dixon J.; Kuldell N. | BioBuilding: Using banana-scented bacteria to teach synthetic biology | 2011 | Methods in Enzymology | 1 |
| Mitchell R.; Dori Y.J.; Kuldell N.H. | Experiential Engineering Through iGEM-An Undergraduate Summer Competition in Synthetic Biology | 2011 | Journal of Science Education and Technology | |
| Dress L. | iGEM 2010: Synthetic biologists compete for the future | 2010 | Industrial Biotechnology | |
| Hafner S. | IGEM 2009: Synthethic biology and ethics [Les iGEM 2009 la biologie synth-éthique] | 2010 | Medecine/Sciences | 2 |
| Gu X.; Trybilo M.; Ramsay S.; Jensen M.; Fulton R.; Rosser S.; Gilbert D. | Engineering a novel self-powering electrochemical biosensor | 2010 | Systems and Synthetic Biology | |
| Cai Y.; Wilson M.L.; Peccoud J. | GenoCAD for iGEM: A grammatical approach to the design of standard-compliant constructs | 2010 | Nucleic Acids Research | 12 |
| Cooling M.T.; Rouilly V.; Misirli G.; Lawson J.; Yu T.; Hallinan J.; Wipat A. | Standard virtual biological parts: A repository of modular modeling components for synthetic biology | 2010 | Bioinformatics | 10 |
| Smolke C.D. | Building outside of the box: IGEM and the BioBricks Foundation | 2009 | Nature Biotechnology | 15 |
| Hafner S. | iGEM competition 2008; two French teams! [Compétition iGEM 2008: Deux équipes françaises!] | 2009 | Medecine/Sciences | 2 |
| Jerala R. | I like iGEM | 2009 | Scientist | |
| Edwards C. | The gene machines | 2008 | Engineering and Technology | |
| Bikard D.; Kepes F. | First French team success during iGEM Synthetic biology competition [Succès de la première équipe française lors de la compétition iGEM de biologie synthétique] | 2008 | Medecine/Sciences | 6 |
| Bachman R. | An iGEM of an idea? [2] | 2008 | Scientist | |
| Kaczkowski P. | An iGEM of an idea? [1] | 2008 | Scientist | |
| Goodman C. | Engineering ingenuity at iGEM | 2008 | Nature Chemical Biology | 16 |
| Gallagher R. | An iGEM of an idea | 2007 | Scientist | 2 |
| Brown J. | The iGEM competition: Building with biology | 2007 | IET Synthetic Biology | 7 |
| Haynes K.A.; Broderick M.L.; Brown A.D.; Butner T.L.; Harden L.; Heard L.; Jessen E.; Malloy K.; Ogden B.; Rosemond S.; Simpson S.; Zwack E.; Campbell A.M.; Eckdahl T.; Heyer L.J.; Poet J.L. | Computing with living hardware | 2007 | IET Synthetic Biology | 2 |
| Dabholkar S.; Thattai M. | Brainstorming biology | 2007 | IET Synthetic Biology | 1 |
| Brown T.; Chang C.; Heinze B.; Hollinger P.; Kittleson J.; MacDow K.; Reavis D.; Curry J.; Riley M. | Development of an inducible three colour bacterial water colour system | 2007 | IET Synthetic Biology | 1 |
| Rodrigo G.; Montagud A.; Aparici A.; Aroca M.C.; Baguena M.; Carrera J.; Edo C.; Fernandez-De-Cordoba P.; Ferrando A.; Fuertes G.; Gimenez D.; Mata C.; Medrano J.V.; Navarrete C.; Navarro E.; Salgado J.; Tortosa P.; Urchueguia J.; Jaramillo A. | Vanillin cell sensor | 2007 | IET Synthetic Biology | 1 |
| Quiroz J.N.A.; Flores R.B.; Cisneros T.G.B.; Rosales I.Y.F.; Naranjo A.G.; Sanchez J.C.G.; Jimenez M.E.G.; Padilla R.E.G.; Baena A.J.L.; Hernandez P.A.L.; Padilla P.G.; Miller R.P.; Gaspar I.N.R.; Chico J.C.R.; Martinez A.R.; Romero J.P.; Arzate A.S.; Barradas J.S.A.; Diaz D.A.; Bracho A.B.; Benitez C.; Arteag C.I.F.; Quiroz F.H.; Martinez G.J.; Rabadan J.L.; Salvador M.C.O.; Longoria P.P.; Orozco R.P.; Corona F.R.; Majarrez E.S.; Hassan E.S.; Sanchez C.S.; Saldana U.V.; Segura P.B.Z. | Biological implementation of algorithms and unconventional computing | 2007 | IET Synthetic Biology | |
| King P.; Lavrovsky V.; Von Mammen S.; Jacob C. | Teaching bacteria how to dance | 2007 | IET Synthetic Biology | |
| Badalamenti J.P.; Weiss L.E.; Buckno C.J.; Richard T.L.; Weiss P.S.; Cirino P.C. | Synthetic sports: A bacterial relay race | 2007 | IET Synthetic Biology | 1 |
| Lohmueller J.; Neretti N.; Hickey B.; Kaka A.; Gao A.; Lemon J.; Lattanzi V.; Goldstein P.; Tam L.-K.; Schmidt M.; Brodsky A.S.; Haberstroh K.; Morgan J.; Palmore T.; Wessel G.; Jaklenec A.; Urabe H.; Gagnon J.; Cumbers J. | Progress toward construction and modelling of a tri-stable toggle switch in E. coli | 2007 | IET Synthetic Biology | 2 |
| Ravi M.; Ngeleka M.; Kim S.-H.; Gyles C.; Berthiaume F.; Mourez M.; Middleton D.; Simko E. | Contribution of AIDA-I to the pathogenicity of a porcine diarrheagenic Escherichia coli and to intestinal colonization through biofilm formation in pigs | 2007 | Veterinary Microbiology | 10 |
| Authors | Title | Year | Source title | Cited by |
| Cooling, M. T.; Rouilly, V.; Misirli, G.; Lawson, J.; Yu, T.; Hallinan, J.; Wipat, A. | Standard virtual biological parts: a repository of modular modeling components for synthetic biology | 2010 | BIOINFORMATICS | Not collected |
| Mitchell, Rudolph; Dori, Yehudit Judy; Kuldell, Natalie H. | Experiential Engineering Through iGEM-An Undergraduate Summer Competition in Synthetic Biology | 2011 | JOURNAL OF SCIENCE EDUCATION AND TECHNOLOGY | Not collected |
| Haefner, Sophia | iGEM competition 2008, two French teams! | 2009 | M S-MEDECINE SCIENCES | Not collected |
| Bikard, David; Kepes, Francois | First French team success during iGEM synthetic biology competition | 2008 | M S-MEDECINE SCIENCES | Not collected |
| Hafner, Sophia | [IGEM 2009: synthetic biology and ethics]. | 2010 | Medecine sciences : M/S | Not collected |
| Dixon, James; Kuldell, Natalie | BIOBUILDING: USING BANANA-SCENTED BACTERIA TO TEACH SYNTHETIC BIOLOGY | 2011 | METHODS IN ENZYMOLOGY, VOL 497: SYNTHETIC BIOLOGY, METHODS FOR PART/DEVICE CHARACTERIZATION AND CHASSIS ENGINEERING, PT A | Not collected |
| Ho-Shing, Olivia; Lau, Kin H; Vernon, William; Eckdahl, Todd T; Campbell, A Malcolm | Assembly of standardized DNA parts using BioBrick ends in E. coli. | 2012 | Methods in molecular biology (Clifton, N.J.) | Not collected |
| Materi, Wayne | Leading a successful iGEM team. | 2012 | Methods in molecular biology (Clifton, N.J.) | Not collected |
| Muller, Kristian M; Arndt, Katja M | Standardization in synthetic biology. | 2012 | Methods in molecular biology (Clifton, N.J.) | Not collected |
| Smolke, Christina D. | Building outside of the box: iGEM and the BioBricks Foundation | 2009 | NATURE BIOTECHNOLOGY | Not collected |
| Goodman, Catherine | Engineering ingenuity at iGEM | 2008 | NATURE CHEMICAL BIOLOGY | Not collected |
| Cai, Yizhi; Wilson, Mandy L.; Peccoud, Jean | GenoCAD for iGEM: a grammatical approach to the design of standard-compliant constructs | 2010 | NUCLEIC ACIDS RESEARCH | Not collected |
| Hesselman, Matthijn C; Odoni, Dorett I; Ryback, Brendan M; de Groot, Suzette; van Heck, Ruben G A; Keijsers, Jaap; Kolkman, Pim; Nieuwenhuijse, David; van Nuland, Youri M; Sebus, Erik; Spee, Rob; de Vries, Hugo; Wapenaar, Marten T; Ingham, Colin J; Schroen, Karin; Martins Dos Santos, Vitor A P; Spaans, Sebastiaan K; Hugenholtz, Floor; van Passel, Mark W J | A multi-platform flow device for microbial (co-) cultivation and microscopic analysis. | 2012 | PloS one | Not collected |
| Vinson, Valda | iGEM 2010 Jamboree | 2010 | SCIENCE | Not collected |
| Jerala, Roman | I like iGEM | 2009 | SCIENTIST | Not collected |
| Bachman, Robert | An iGEM of an idea? | 2008 | SCIENTIST | Not collected |
| Kaczkowski, Peter | An iGEM of an idea? | 2008 | SCIENTIST | Not collected |
| Gallagher, Richard | An iGEM of an Idea - How to get students to go into science | 2007 | SCIENTIST | Not collected |
| Mueller, Kristian M.; Arndt, Katja M. | Standardization in Synthetic Biology | 2011 | SYNTHETIC GENE NETWORKS: METHODS AND PROTOCOLS | Not collected |
| Gu, X; Trybilo, M; Ramsay, S; Jensen, M; Fulton, R; Rosser, S; Gilbert, D | Engineering a novel self-powering electrochemical biosensor. | 2010 | Systems and synthetic biology | Not collected |
| Authors | Title | Year | Source title | Cited by |
| Anderson, J. Christopher, John Dueber, Mariana Leguia, Gabriel Wu, Jonathan Goler, Adam Arkin, and Jay Keasling. | BglBricks: A Flexible Standard for Biological Part Assembly. | 2010 | Journal of Biological Engineering | No data |
| Baumgardner, Jordan, Karen Acker, Oyinade Adefuye, Samuel Crowley, Will DeLoache, James Dickson, Lane Heard, et al. | Solving a Hamiltonian Path Problem with a Bacterial Computer. | 2009 | Journal of Biological Engineering | No data |
| Chen, Joanna, Douglas Densmore, Timothy Ham, Jay Keasling, and Nathan Hillson. | DeviceEditor Visual Biological CAD Canvas. | 2012 | Journal of Biological Engineering | No data |
| Hatch, Alex. | Four Suggestions for Addressing Public Concern Regarding Synthetic Biology | 2010 | Journal of Biological Engineering | No data |
| Haynes, Karmella, Marian Broderick, Adam Brown, Trevor Butner, James Dickson, W. Lance Harden, Lane Heard, et al. | Engineering Bacteria to Solve the Burnt Pancake Problem. | 2008 | Journal of Biological Engineering | No data |
| Kelly, Jason, Adam Rubin, Joseph Davis, Caroline Ajo-Franklin, John Cumbers, Michael Czar, Kim de Mora, Aaron Glieberman, Dileep Monie, and Drew Endy. | Measuring the Activity of BioBrick Promoters Using an in Vivo Reference Standard. | 2009 | Journal of Biological Engineering | No data |
| Kuldell, Natalie. | Authentic Teaching and Learning Through Synthetic Biology. | 2007 | Journal of Biological Engineering | No data |
| Norville, Julie, Ratmir Derda, Saurabh Gupta, Kelly Drinkwater, Angela Belcher, Andres Leschziner, and Thomas Knight. | Introduction of Customized Inserts for Streamlined Assembly and Optimization of BioBrick Synthetic Genetic Circuits. | 2010 | Journal of Biological Engineering | No data |
| Pasotti, Lorenzo, Susanna Zucca, Manuel Lupotto, Maria Cusella De Angelis, and Paolo Magni. | Characterization of a Synthetic Bacterial Self-destruction Device for Programmed Cell Death and for Recombinant Proteins Release. | 2011 | Journal of Biological Engineering | No data |
| Pearson, Brianna, Sam Snell, Kyri Bye-Nagel, Scott Tonidandel, Laurie Heyer, and A. Malcolm Campbell. | Word Selection Affects Perceptions of Synthetic Biology. | 2011 | Journal of Biological Engineering | No data |
| Shetty, Reshma, Drew Endy, and Thomas Knight. | Engineering BioBrick Vectors from BioBrick Parts. | 2008 | Journal of Biological Engineering | No data |
| Speer, Michael, and Tom Richard. | Amplified Insert Assembly: An Optimized Approach to Standard Assembly of BioBrickTM Genetic Circuits. | 2011 | Journal of Biological Engineering | No data |
| Authors | Title | Year | Source title | Cited by |
| Anderson, J. Christopher, John Dueber, Mariana Leguia, Gabriel Wu, Jonathan Goler, Adam Arkin, and Jay Keasling. | BglBricks: A Flexible Standard for Biological Part Assembly. | 2010 | Journal of Biological Engineering | No data |
| Baumgardner, Jordan, Karen Acker, Oyinade Adefuye, Samuel Crowley, Will DeLoache, James Dickson, Lane Heard, et al. | Solving a Hamiltonian Path Problem with a Bacterial Computer. | 2009 | Journal of Biological Engineering | No data |
| Chen, Joanna, Douglas Densmore, Timothy Ham, Jay Keasling, and Nathan Hillson. | DeviceEditor Visual Biological CAD Canvas. | 2012 | Journal of Biological Engineering | No data |
| Hatch, Alex. | Four Suggestions for Addressing Public Concern Regarding Synthetic Biology | 2010 | Journal of Biological Engineering | No data |
| Haynes, Karmella, Marian Broderick, Adam Brown, Trevor Butner, James Dickson, W. Lance Harden, Lane Heard, et al. | Engineering Bacteria to Solve the Burnt Pancake Problem. | 2008 | Journal of Biological Engineering | No data |
| Kelly, Jason, Adam Rubin, Joseph Davis, Caroline Ajo-Franklin, John Cumbers, Michael Czar, Kim de Mora, Aaron Glieberman, Dileep Monie, and Drew Endy. | Measuring the Activity of BioBrick Promoters Using an in Vivo Reference Standard. | 2009 | Journal of Biological Engineering | No data |
| Kuldell, Natalie. | Authentic Teaching and Learning Through Synthetic Biology. | 2007 | Journal of Biological Engineering | No data |
| Norville, Julie, Ratmir Derda, Saurabh Gupta, Kelly Drinkwater, Angela Belcher, Andres Leschziner, and Thomas Knight. | Introduction of Customized Inserts for Streamlined Assembly and Optimization of BioBrick Synthetic Genetic Circuits. | 2010 | Journal of Biological Engineering | No data |
| Pasotti, Lorenzo, Susanna Zucca, Manuel Lupotto, Maria Cusella De Angelis, and Paolo Magni. | Characterization of a Synthetic Bacterial Self-destruction Device for Programmed Cell Death and for Recombinant Proteins Release. | 2011 | Journal of Biological Engineering | No data |
| Pearson, Brianna, Sam Snell, Kyri Bye-Nagel, Scott Tonidandel, Laurie Heyer, and A. Malcolm Campbell. | Word Selection Affects Perceptions of Synthetic Biology. | 2011 | Journal of Biological Engineering | No data |
| Shetty, Reshma, Drew Endy, and Thomas Knight. | Engineering BioBrick Vectors from BioBrick Parts. | 2008 | Journal of Biological Engineering | No data |
| Speer, Michael, and Tom Richard. | Amplified Insert Assembly: An Optimized Approach to Standard Assembly of BioBrickTM Genetic Circuits. | 2011 | Journal of Biological Engineering | No data |
