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Synthetic Biology Resources

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Synthetic Biology Labs Ellis Lab (577) Tom Ellis' Lab is actively involved in advancing foundational synthetic biology and applying synthetic biology to a variety of different research areas. The laboratory is part of CSynBI, The Centre for Synthetic Biology and Innovation and The Department of Bioengineering at Imperial College, London. Gehring Lab (360) Chris Gehring's lab at KAUST, Saudi Arabia - working on stress responses and signalling in plant systems. Gos Micklem (1990) Modern biology is becoming increasingly dependent on computers, due mainly to the rise of genomics technologies. As a result the dual challenges of organising the large volumes of data produced and developing effective analysis methods have become ever more important. We are interested in both these areas and have a particular interest in projects that combine wet lab and computational methods. Microsoft Research in Cambridge (1840) Computational Biology at Microsoft Research in Cambridge. Application and development of computational methods and tools for modeling and analyzing complex biological systems. Haseloff Lab, Cambridge (1730) Jim Haseloff's lab at the University of Cambridge - with resources for synthetic biology in plant systems, and engineering of morphogenesis. Imperial College, Institute of Systems and Synthetic Biology (2360) Imperial College London has established an Institute of Systems and Synthetic Biology, with the aim of bringing together the extensive, world-leading systems biology research from across Imperial, in the Faculties of Natural Sciences, Medicine and Engineering. Hasty Lab, UCSD (1776) Jeff Hasty's lab use microfluidics and molecular biology techniques to build novel synthetic gene networks and to modify naturally-occurring regulatory modules. Elfick Lab, Edinburgh (2259) Alistair Elfick's lab adapts optical techniques and engineering principles for synthetic biology Chin Lab, Cambridge (1889) Jason Chin's lab uses evolutionary techniques to construct orthogonal systems for gene expression in bacteria. Ajioka Lab, Cambridge (1831) Jim Ajioka's lab works on synthetic circuits in Gram positive bacteria and protozoan biology Panke Lab, Basel (1695) Sven Panke's lab works on the fundamentals of designing novel multi-enzyme reaction networks for the production of high-value-added chemicals in vivo and in vitro. Serrano Lab, CRG (1756) Luis Serrano's lab works on Mycoplasma pneumoniae and protein DNA engineering. Schwille Lab, Dresden (1702) Petra Schwille's lab studies artificial plastids and in vitro cell division mechanisms. Ellington Lab, UT Austin (1727) Andy Ellington's lab uses RNA aptamers, ribozymes and evolutionary techniques to engineer biopolymers and cells. Gardner Lab, BU (1748) Tim Gardner's lab engineering microbes to synthesize fuels, electricity and materials, and deciphering microbial mechanisms of antibiotic resistance. Kortemme Lab, UCSF (1647) Tanja Kortemme's lab focuses on simulation, analysis, design and evolution of proteins, protein interactions and networks. Kool Lab, Stanford (1732) Eric Kool's lab and chemistry-based approaches to designer molecules and synthetic biology. Arkin Lab, Berkeley (1618) Adam Arkin's lab, developing and applying mathematical theory, computational and experimental approaches to analysis of cellular function. Asthagiri Lab, Caltech (1658) Anand Asthagiri's lab uses interdisciplinary approaches to study how biomolecular signaling networks control mammalian cell behaviors and guide multicellular organization. Pierce Lab, Caltech (1715) Niles Pierce's lab is constructing molecular sensors, transducers and motors for therapeutic, bioimaging, and transport applications. Elowitz Lab, Caltech (1708) The Elowitz Lab is interested in how genetic circuits, composed of interacting genes and proteins, enable individual cells to make decisions, oscillate, and communicate with one another. Benenson Lab, Harvard (1727) Kobi Benenson's lab working on automata that function at the level of individual cells. They comprise sensor, computation and actuation molecular modules. Voigt Lab, UCSF (2136) Chris Voight's lab is developing methods for programming cells like robots to perform complex, coordinated tasks for pharmaceutical and industrial applications. They are engineering new sensors that give bacteria the senses of touch, sight, and smell. Lim Lab, UCSF (1696) Wendell Lim's lab works on engineering the logic of cell signaling systems. Keasling Lab, Berkeley (1536) Jay Keasling's lab research is organized around three primary themes: synthetic biology, systems biology and environmental biotechnology for a wide range of bioproduction projects. Dueber Lab, Berkeley (1807) John Dueber's lab is using modular strategies in a forward engineering effort to rewire/reprogram metabolic pathways and two-component signaling. Anderson Lab, Berkeley (1725) Chris Anderson's lab develops foundational technologies and applications for Synthetic Biology, a ground-up approach to genetic engineering.	Physical Computing OpenMoCo (272) A community site for Open-source Photographic Motion Control technology. The site's focus is to create open-source solutions for motion control in photographic techniques including time-lapse, gigapixel panoramas, focus stacking, live video, etc. async_labs (1289) Async_labs - makers of wifi shields for teh Arduino platform. Grand Idea Studio (1528) Grand Idea Studio is a firm specialising in the design of consumer electronics and video game accessories. Their web site contains details of hardware and DIY electronic projects Hack-a-day (1530) Collection of hardware hacks and project descriptions, with heavy emphasis on Arduino-based hardware and news. YourITronics (2372) Blog with details of DIY electronics projects, IT and gadgets. Libelium (1625) Libelium is a Spanish company that designs, builds and sells hardware for the implementation of sensor networks, mesh networks and communication protocols for all types of wireless distributed networks. the daily duino (2175) Blog by a group of friends who enjoy playing with electronics, especially the Arduino platform. The site was built to share projects and ideas with each other. d.tools (2103) d.tools is a hardware and software system that enables designers to rapidly prototype the bits (the form) and the atoms (the interaction model) of physical user interfaces in concert. d.tools was built to support design thinking rather than implementation tinkering. Brillidea (1686) Brilldea provides prototyping goods for engineers, hobbyists and makers, including output devices and components for microcontrollers. Arduino hardware support (1740) Examples and information for a multitude of output devices and peripherals: How to connect and wire up devices and code to drive them. Arduino Programming Notebook (2066) A beginner's reference to the programming syntax of the Arduino microcontroller. Includes information on program structure, variables, datatypes, arithmetic, constants, flow control, common functions of the core library and an appendix with schematics and simple programs for several common tasks. Roguescience Arduino Tutorials (1532) A series of tutorials based on a workshop on Physical Computing for Artists by Justin Love. Sanguino (1563) The Sanguino is an elaboration of the Arduino concept, based on the atmega644P chip. Lady Ada Projects (1648) Ladyada.net - a open source content with descriptions of Arduino-based projects and tutorials, and linked to AdaFruit Industries, for purchase of kits, etc. Seeeduino (2348) Seeed Studio is based in Shenzhen, China where a vast number of exciting and innovative products are manufactured. They offer Arduino-compatible development boards. Liquidware (2268) Open source electronics based on the Arduino platform, with a store that sells a range of components and boards. Antipasto Arduino blog (2157) A blog about Open Source Hardware and experiences with www.liquidware.org Fritzing (2673) Fritzing is an open-source initiative to support designers and artists to take the step from physical prototyping to actual product. We are creating this software in the spirit of Processing and Arduino, that allows the researcher to document their Arduino-based prototype and create a PCB layout for manufacturing. Gainer (1483) Gainer is an environment for user interfaces and media installations. By using the Gainer environment, the user can handle sensors and/or actuators with a PC on various programming environments such as Flash, Max/MSP and Processing. Modern Device (1655) Manufacturers of the Bare Bones Board, an Arduino-compatible board (Freeduino) that implements the functionality of the Arduino Diecimila, on a smaller printed circuit board, by removing the USB communications chip to a cable. Arduino: playground (1671) A wiki where all the users of Arduino can contribute and benefit from their collective research - to post and share code, circuit diagrams, tutorials, DIY instructions, tips and tricks, and demonstrate projects.
Components Little Bird Electronics (1586) Source of a wide range of components for experiments with microcontrollers LED-Tech (2058) Source of a wide range of LEDs (including exotic wavelengths) and associated components. OKW Enclosures (1510) OKW is the UK's leading specialist in small/medium size enclosures for electronics - with online details of a large range of plastic and aluminium cases. Sensor Systems (1467) Sensor Systems is an Italian Company that specialises in the production of industrial sensors and design and manufacture of Contactless Inclinometers and Rotary Sensors (Magnetoresistive, Hall Effect, Electrolytic and MEMS). Electronics Weekly (1766) The products pages on ElectronicsWeekly.com. Here are details of the latest components including op-amps, amplifiers, single board computers, connectors, memory, resistors, capacitors, relays, Fets, digital signal processors, microcontrollers, power supplies and converters, radiofrequency and optoelectronic circuits, sensors, and software. Rapid Electronics (1722) A leading UK supplier of electronic components, electrical products, tools and educational resources. AVR Freaks (1718) Atmel sponsored forum and news site with information about AVR microcontrollers - with lots of information about components and projects. Mouser Electronics (1736) US based components supplier that ships internationally - wide range of products with online data sheets. Sparkfun Electronics (1508) US based supplier of microcontroller boards and components, with tutorials, forum - with wide range of international distributors. Peltier Effect devices (1620) A directory of information on Peltier Devices, also known as thermoelectric coolers (TE or TEC), thermoelectric modules, heat pumps, and thermoelectric power generators Picaxe Microcontrollers (1573) PICAXE microcontrollers are exciting, low-cost, re-programmable chips that can be used as low-cost 'brains' in many kinds of electronic project. Nuelectronics (2000) UK supplier of low-cost Arduino compatible components Surplectronics (2257) UK based source for low cost surplus electronic components Jencolor optics and sensors (1442) JENCOLOR provides high-quality LED light sources, optics and mulitspectral sensors. MAZeT sensors (2371) MAZeT products are specially picked components for applications in metrology, control and automation engineering, as well as specific ICs, sensors and boards for Embedded Computing applications. Pacer International (1587) Pacer International - a leading specialist supplier of optoelectronic components and systems Thor Labs (1410) Worldwide suppliers of a large range of optical and mechanical parts and devices. Ocean Optics (1634) Ocean Optics offer miniature fiber optic spectrometers with high performance at (relatively) low cost in a convenient, modular packages. Techsupplies (1612) Online shop for PICAXE, electronic, robotic and educational technology projects. HacknMod store (1881) Launched in 2006, HacknMod has grown to be a large hacking and modding community on the web, with tutorials and guides with hacks, mods and DIY projects from around web. This is their storefront.	Synthetic Biology Journals Journal of Biological Engineering (34) Journal of Biological Engineering, the official journal of the Institute of Biological Engineering, is an open access, online journal that publishes articles on all aspects of biological engineering. BMC Systems Biology (2605) BMC Systems Biology is an open access journal publishing original peer-reviewed research articles in systems-level analysis of biological events, whether experimental or theoretical, at the level of molecules, cells or organisms. The journal especially welcomes quantitative analyses and those that integrate different levels of information to understand how biological systems function or can be perturbed, as well as articles involving the modeling or engineering of biological systems, and synthetic biology. Molecular Systems Biology (1696) Molecular systems biology is an integrative discipline that seeks to explain the properties and behaviour of complex biological systems in terms of their molecular components and their interactions. Systems and Synthetic Biology (2138) The emerging field of synthetic biology combines knowledge from various disciplines including molecular biology, engineering, mathematics, and physics to design and implement new cellular behaviors. The goal of synthetic biology is both to improve our quantitative understanding of natural phenomenon as well as to foster an engineering discipline for obtaining new complex cell behaviors in a predictable and reliable fashion. Systems and Synthetic Biology is a new biomedical journal publishing original papers and articles on all aspects of Systems and Synthetic Biology. Beyond traditional features, the journal offers online access to supplementary material: three dimensional figures, sequence data and alignments, animations and short videos.
Publications EMBO Journal (1836) The EMBO Journal provides for rapid publication of full-length papers describing original research of general rather than specialist interest in molecular biology and related areas. The journal encourages and publishes articles that report novel findings of wide biological significance. Journal of Molecular Biology (1938) The Journal of Molecular Biology publishes original scientific research concerning studies of organisms or their components at the molecular level. Published weekly, the journal provides up-to-date and comprehensive coverage of all aspects of molecular biology. Journal of Visualized Experiments (1678) Journal of Visualized Experiments (JoVE) is a video journal for biological research. E-print network (1997) The E-print Network is . . . . . . a vast, integrated network of electronic scientific and technical information created by scientists and research engineers active in their respective fields, all full-text searchable. E-print Network is intended for use by other scientists, engineers, and students at advanced levels. Molecular and Cellular Biology (2467) Journal is a source of fundamental knowledge and new developments in all aspects of the molecular biology of eukaryotic cells. It publishes work on microbial as well as higher organisms and on viral systems where the emphasis is clearly on the cell. Some areas of emphasis include gene expression, chromosome structure and dynamics, signal transduction, intracellular trafficking, and mammalian genetic models with minimal or complex phenotypes. Published by the American Society for Microbiology. Microbiology and Molecular Biology Reviews (1664) Journal published by the American Society for Microbiology. Nature Reviews (1648) Collections of articles on topics of broad general interest from across the Nature Reviews journals. Published by Nature Publishing Group. Current Opinion in Cell Biology (1537) Current Opinion in Cell Biology Journal published by Elsevier. Current Opinion in Biotechnology (1563) Current Opinion in Biotechnology published by Elsevier. Annual Review of Biochemistry (1578) Annual Review of Biochemistry. Annual Review of Cell and Developmental Biology (1573) Annual Review of Cell and Developmental Biology. Annual Review of Genetics (1600) Annual Review of Genetics. Gene (1483) Journal for research published by Elsevier.	Cambridge Labs Oren Scherman (1266) Self-Assembly: Our research interests include the synthesis of functional nanosystems, controlled polymer architectures and dynamic supramolecular assemblies through molecular recognition processes. David Klenerman (1620) Advanced Imaging: David is developing and applying a range of new biophysical methods, based on laser fluorescence spectroscopy and scanning probe microscopy, to important problems in biology, which have not been addressed to date due to the lack of suitable methods. While the experiments range from studies of individual biomolecules to living cells. Alan Tunnacliffe (1246) Anhydrobiotic Engineering: Work in Dr Tunnacliffe's laboratory aims to increase our understanding of anhydrobiosis and to examine possible cell-based applications. Julian Parkhill (1623) Pathogen Genomics: We use genome sequencing and analysis to investigate a wide range of human and animal pathogens, ranging from human and bacterial viruses, through bacteria and protist parasites to multicellular worms. We currently have over 100 ongoing projects, and we collaborate widely within the UK and world scientific community to generate the best possible biological interpretation of the data. John Archer (1245) Microbial Technology: Our research effort is directed at the following areas: Actinomycete comparative genomics; Synthesis of high value chiral products and novel therapeutics; Modelling systems control of genetic responses to environmental stimuli; Genetic technologies for the Rhodococcus complex; Directed evolution of enzyme function Lorenz Wernisch (1154) Biostatistics: Research interests include: Genscend - gene-regulatory networks in single cells during neuronal development. Microarray analysis package YASMA - analysis of replicates of spotted cDNA arrays. Regulatory motifs in upstream sequences - some tools for regulatory motif detection. Dennis Bray (1556) Chemotaxis: Current work includes the development of a graphical display of swimming bacteria to test their responses to spatial gradients of attractants; use of an individual based stochastic program to analyze the responses of E. coli to conflicting gradients; and Brownian diffusion simulations of the diffusive movements of signalling proteins through the bacterial cytoplasm and their transient association with membrane bound receptors. Julian Huppert (1599) DNA Biophysics: We use biophysical methods to study DNA architecture, and enable prediction of their structure and stability, and then to combine this work with bioinformatic analyses in order to identify and understand their functions. Ultimately this work may lead to novel insights into natural regulatory processes, as well as new targets for pharmaceutical development.
DIY Lab Equipment Sugru (1399) Sugru's magical properties mean it can hack almost anything better. Sugru is like modeling clay when you take it from its pack. Once it's exposed to air, it cures to a tough flexible silicone overnight using the moisture in the air. Dolomite Microfluidics (1580) Dolomite is a supplier of devices for microfluidics. Their expertise covers a wide range of applications relating to control and measurement of fluids at a microscale, including complete microfluidic systems, custom devices, chips, pumps, connectors / interconnects, valves, etc. Algae Geek (1271) Designs for algal bioreactors using Arduino controllers Halfluck DIY fermentation (1305) One man's pioneering efforts to automate the fermentation process using Arduino hardware. An automated beer brewing system. LabSmith (1730) Laboratory components, including breadboard-based connections and components for capillary and tubing-based microfluidic setups.	Developing world UK Department for International Development (1038) The UK government created the Department for International Development (DFID) - to meet the many challenges of tackling world poverty. DFID coordinates British aid for the world’s poor. Research for Development (1610) R4D is a free access on-line database containing information about research programmes supported by DFID (Department for International Development). R4D provides you with the latest information about research funded by DFID, including news, case studies and details of current and past research in over 20,000 project and document records.