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Informa Tics for Genome Analysis, Biomarkers,And Ta Rget Disco Very
Register by March 14 and Save up to $200! Final Agenda Cambridge Healthtech Institute’s Sixth Annual April 28 – 30, 2008 • World Trade Center • Boston, MA Keynote Presentations by: Concurrent Tracks: • Informatics and IT Infrastructure & Operations • Informatics for Genome Analysis, Biomarkers, and Target Discovery Linda Avey co-Founder • Predictive and in silico Science 23andMe, Inc. • eChemistry Solutions • Clinical and Medical Informatics Joshua Boger, Ph.D. President & Chief Executive Offi cer Keynote Panel: A Must-Attend Event for the Life Vertex Pharmaceuticals, Inc. The Future of Personal Genomics: A special plenary panel discussion featuring George Church,Science Ph.D., Harvard IT Medical& Informatics School Community Dietrich Stephan, Ph.D., Navigenics John Reynders, Ph.D. Jeffrey M. Drazen, M.D., New England Journal of Medicine/Harvard Vice President & Chief Information Offi cer Medical School Johnson & Johnson, Pharma R&D Fred D. Ledley, M.D., Bentley College ...and more 2008 Benjamin Franklin Award EEventvent FFeatures:eatures: presented by Bioinformatics.org • Access All Five Tracks for One Price • Network with 1,500+ Delegates Platinum Sponsors: • Hear 85+ Technology and Scientifi c Presentations • Choose from Four Pre-conference Workshops, the Oracle Life Sciences and Healthcare User Group Meeting, and Symyx Software Symposium 2008 Gold Sponsors: • Attend Bio-IT World’s Best Practices Awards NEW Bronze Sponsor: • Connect with Attendees Using CHI’s Intro-Net Corporate Support: • Participate in the Poster Competition • See the Winners of the following 2008 Awards: Offi cial Publication: Benjamin Franklin Best of Show Lead Sponsoring Publications: Best Practices • View Who’s Who & What’s New in the Exhibit Hall • And Much More! www.Bio-ITWorldExpo.com Organized & Managed by: Cambridge Healthtech Institute 250 First Avenue, Suite 300, Needham, MA 02494 • Phone: 781-972-5400 • Fax: 781-972-5425 • Toll-free in the U.S. -
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Downloaded from rsif.royalsocietypublishing.org on 20 April 2009 Towards programming languages for genetic engineering of living cells Michael Pedersen and Andrew Phillips J. R. Soc. Interface published online 15 April 2009 doi: 10.1098/rsif.2008.0516.focus Supplementary data "Data Supplement" http://rsif.royalsocietypublishing.org/content/suppl/2009/04/15/rsif.2008.0516.focus.D C1.html References This article cites 19 articles, 7 of which can be accessed free http://rsif.royalsocietypublishing.org/content/early/2009/04/14/rsif.2008.0516.focus.full. html#ref-list-1 P<P Published online 15 April 2009 in advance of the print journal. Subject collections Articles on similar topics can be found in the following collections synthetic biology (9 articles) Email alerting service Receive free email alerts when new articles cite this article - sign up in the box at the top right-hand corner of the article or click here Advance online articles have been peer reviewed and accepted for publication but have not yet appeared in the paper journal (edited, typeset versions may be posted when available prior to final publication). Advance online articles are citable and establish publication priority; they are indexed by PubMed from initial publication. Citations to Advance online articles must include the digital object identifier (DOIs) and date of initial publication. To subscribe to J. R. Soc. Interface go to: http://rsif.royalsocietypublishing.org/subscriptions This journal is © 2009 The Royal Society Downloaded from rsif.royalsocietypublishing.org on 20 April 2009 J. R. Soc. Interface doi:10.1098/rsif.2008.0516.focus Published online Towards programming languages for genetic engineering of living cells Michael Pedersen1,2 and Andrew Phillips1,* 1Microsoft Research Cambridge, Cambridge CB3 0FB, UK 2LFCS, School of Informatics, University of Edinburgh, Edinburgh EH8 9AB, UK Synthetic biology aims at producing novel biological systems to carry out some desired and well-defined functions. -
SYNTHETIC BIOLOGY and ITS POTENTIAL IMPLICATIONS for BIOTRADE and ACCESS and BENEFIT-SHARING ©2019, United Nations Conference on Trade and Development
UNITED NATIONS CONFERENCE ON TRADE AND DEVELOPMENT SYNTHETIC BIOLOGY AND ITS POTENTIAL IMPLICATIONS FOR BIOTRADE AND ACCESS AND BENEFIT-SHARING ©2019, United Nations Conference on Trade and Development. All rights reserved. The trends, figures and views expressed in this publication are those of UNCTAD and do not necessarily represent the views of its member States. The designations employed and the presentation of material on any map in this work do not imply the expression of any opinion whatsoever on the part of the United Nations concerning the legal status of any country, territory, city or area or of its authorities, or concerning the delimitation of its frontiers or boundaries. This study can be freely cited provided appropriate acknowledgment is given to UNCTAD. For further information on UNCTAD’s BioTrade Initiative please consult the following website: http://www.unctad. org/biotrade or contact us at: [email protected] This publication has not been formally edited. UNCTAD/DITC/TED/INF/2019/12 AND ITS POTENTIAL IMPLICATIONS FOR BIOTRADE AND ACCESS AND BENEFIT-SHARING iii Contents Acknowledgements ................................................................................................................................iv Abbreviations ...........................................................................................................................................v EXECUTIVE SUMMARY ............................................................................................. vi SECTION 1: INTRODUCTION TO BIOTRADE, -
Realizing the Potential of Synthetic Biology
Nature Reviews Molecular Cell Biology | AOP, published online 12 March 2014; doi:10.1038/nrm3767 PERSPECTIVES computer-aided-design (CAD), safety sys- VIEWPOINT tems, integrating models, genome editing and accelerated evolution. Synthetic biology Realizing the potential of synthetic is less like highly modular (or ‘switch-like’) electrical engineering and computer science biology and more like civil and mechanical engineer- ing in its use of optimization of modelling of whole system-level stresses and traffic flow. George M. Church, Michael B. Elowitz, Christina D. Smolke, Christopher A. Voigt and Ron Weiss Michael B. Elowitz. At the most general level, synthetic biology expands the subject Abstract | Synthetic biology, despite still being in its infancy, is increasingly matter of biology from the (already enor- providing valuable information for applications in the clinic, the biotechnology mous) space of existing species and cellular industry and in basic molecular research. Both its unique potential and the systems that have evolved to the even larger challenges it presents have brought together the expertise of an eclectic group of space of non-natural, but feasible, species scientists, from cell biologists to engineers. In this Viewpoint article, five experts and systems. Although we started with circuits to carry out the simplest kinds of discuss their views on the future of synthetic biology, on its main achievements in dynamic behaviours, synthetic approaches basic and applied science, and on the bioethical issues that are associated with the can be applied broadly to all types of bio design of new biological systems. logical functions from metabolism to multi cellular development. Synthetic biology allows us to figure out what types of genetic An increasing number of publications For instance, insight gained from systems circuit designs are capable of implement- and institutions are dedicated to biology investigations of natural processes ing different cellular behaviours, and what synthetic biology. -
Frontiers in Optics 2010/Laser Science XXVI
Frontiers in Optics 2010/Laser Science XXVI FiO/LS 2010 wrapped up in Rochester after a week of cutting- edge optics and photonics research presentations, powerful networking opportunities, quality educational programming and an exhibit hall featuring leading companies in the field. Headlining the popular Plenary Session and Awards Ceremony were Alain Aspect, speaking on quantum optics; Steven Block, who discussed single molecule biophysics; and award winners Joseph Eberly, Henry Kapteyn and Margaret Murnane. Led by general co-chairs Karl Koch of Corning Inc. and Lukas Novotny of the University of Rochester, FiO/LS 2010 showcased the highest quality optics and photonics research—in many cases merging multiple disciplines, including chemistry, biology, quantum mechanics and materials science, to name a few. This year, highlighted research included using LEDs to treat skin cancer, examining energy trends of communications equipment, quantum encryption over longer distances, and improvements to biological and chemical sensors. Select recorded sessions are now available to all OSA members. Members should log in and go to “Recorded Programs” to view available presentations. FiO 2010 also drew together leading laser scientists for one final celebration of LaserFest – the 50th anniversary of the first laser. In honor of the anniversary, the conference’s Industrial Physics Forum brought together speakers to discuss Applications in Laser Technology in areas like biomedicine, environmental technology and metrology. Other special events included the Arthur Ashkin Symposium, commemorating Ashkin's contributions to the understanding and use of light pressure forces on the 40th anniversary of his seminal paper “Acceleration and trapping of particles by radiation pressure,” and the Symposium on Optical Communications, where speakers reviewed the history and physics of optical fiber communication systems, in honor of 2009 Nobel Prize Winner and “Father of Fiber Optics” Charles Kao. -
2018 Semiconductor Synthetic Biology Roadmap
2018 Semiconductor Synthetic Biology Roadmap Editor’s Note Victor Zhirnov Chief Scientist at Semiconductor I am delighted to introduce the 1st Edition of the SemiSynBio Roadmap, a collective Research Corporation and Editor of work by many dedicated contributors from industry, academia and government. the 1st Edition of the Semiconductor It can be argued that innovation explosions often occur at the intersection of Roadmap. scientific disciplines, and Semiconductor Synthetic Biology or SemiSynBio is an excellent example of this. The objective of this Roadmap is to serve as a vehicle to realize the transformative potential of the new technology emerging at the interface between semiconductors and synthetic biology. The SemiSynBio Roadmap is intended to catalyze both interest in and rapid technological advances that provide new capabilities that benefit humankind. Victor Zhirnov is Chief Scientist at the Semiconductor Research Corporation. His research interests include nanoelectronics devices and systems, properties of materials at the nanoscale, bio-inspired electronic systems etc. He has authored and co-authored over 100 technical papers and contributions to books. Victor Zhirnov served as the Chair of the Emerging Research Device (ERD) Working Group for the International Technology Roadmap for Semiconductors (ITRS). Victor Zhirnov also holds adjunct faculty position at North Carolina State University and has served as an advisor to a number of government, industrial, and academic institutions. Victor Zhirnov received the M.S. in applied physics from the Ural Polytechnic Institute, Ekaterinburg, Russia, and the Ph.D. in solid state electronics and microelectronics from the Institute of Physics and Technology, Moscow, in 1989 and 1992, respectively. From 1992 to 1998 he was a senior scientist at the Institute of Crystallography of Russian Academy of Science in Moscow. -
Genocad Introduction
GenoCAD Introduction Computer-Assisted Design Software for Synthetic Biology Materials prepared by: Mary E. Mangan PhD www.openhelix.com/genocad Version 1 GenoCAD Introduction Agenda Introduction to GenoCAD genocad.org Introduction and Credits Register and Log In Step 1: Parts Parts Grammar Import the Training Set Step 2: Design Step 3: Simulate Summary Exercises GenoCAD: http://www.genocad.org/ Computer-assisted design software for synthetic biology Visit GenoCAD.org 1 Support for GenoCAD Process Flow click peccoud.org nsf.gov Parts and grammars, public or custom collections Peccoud team Design constructs NSF support Simulate processes Conceptual Framework for GenoCAD Data Model, Concepts Promoters Coding Seqs Terminators peccoud.vbi.vt.edu/publications 2007: 10.1093/bioinformatics/btm446 2009: 10.1371/journal.pcbi.1000529 Promoter A Coding Seq A Promoter B Coding Seq B Your constructs Parts form the foundation, stored in project libraries Aspects of DNA function explained with language metaphors: transcription, translation, code Grammar rules specify the way the parts work in series GenoCAD lets you develop language for programming cells Parts + Grammars give you synthetic construct designs 2 Further Reading Getting Assistance doi: 10.1093/bioinformatics/btm446 doi: 10.1371/journal.pcbi.1000529 doi: 10.1093/nar/gkp361 doi: 10.1016/j.tibtech.2011.09.001 support Help: context-sensitive help from ? Button Publications: theoretical, software, ongoing development Support link for asking questions or offering feedback -
Computational Tools and Algorithms for Designing Customized
View metadata, citation and similar papers at core.ac.uk brought to you by CORE REVIEW ARTICLE published: 06provided October by 2014 Frontiers - Publisher Connector BIOENGINEERING AND BIOTECHNOLOGY doi: 10.3389/fbioe.2014.00041 Computational tools and algorithms for designing customized synthetic genes Nathan Gould 1, Oliver Hendy 2 and Dimitris Papamichail 1* 1 Department of Computer Science, The College of New Jersey, Ewing, NJ, USA 2 Department of Biology, The College of New Jersey, Ewing, NJ, USA Edited by: Advances in DNA synthesis have enabled the construction of artificial genes, gene cir- Ilias Tagkopoulos, University of cuits, and genomes of bacterial scale. Freedom in de novo design of synthetic constructs California, Davis, USA provides significant power in studying the impact of mutations in sequence features, and Reviewed by: verifying hypotheses on the functional information that is encoded in nucleic and amino Yinjie Tang, Washington University, USA acids. To aid this goal, a large number of software tools of variable sophistication have M. Kalim Akhtar, University College been implemented, enabling the design of synthetic genes for sequence optimization London, UK based on rationally defined properties. The first generation of tools dealt predominantly *Correspondence: with singular objectives such as codon usage optimization and unique restriction site incor- Dimitris Papamichail, Department of Computer Science, The College of poration. Recent years have seen the emergence of sequence design tools that aim to New Jersey, 2000 Pennington Road, evolve sequences toward combinations of objectives.The design of optimal protein-coding Ewing, NJ 08628, USA sequences adhering to multiple objectives is computationally hard, and most tools rely on e-mail: [email protected] heuristics to sample the vast sequence design space. -
Bioinformatics in Metabolic Engineering
International Journal of Research Studies in Biosciences (IJRSB) Volume 7, Issue 11, 2019, PP 10-13 ISSN No. (Online) 2349-0365 DOI: http://dx.doi.org/10.20431/2349-0365.0711002 www.arcjournals.org Bioinformatics in Metabolic Engineering Nida Tabassum Khan*, Namra Jameel, Muhammad Jibran Khan Department of Biotechnology, Faculty of Life Sciences and Informatics, Balochistan University of Information Technology Engineering and Management Sciences, (BUITEMS), Quetta, Pakistan *Corresponding Author: Nida Tabassum Khan, Department of Biotechnology, Faculty of Life Sciences and Informatics, Balochistan University of Information Technology Engineering and Management Sciences, (BUITEMS), Quetta, Pakistan. Abstract: The emergence of metabolic engineering is strengthened by the tools of bioinformatics that not only supports experimental techniques employed for the manipulation of biological pathways but also provides an insilco platform for their study. There are numerous bioinformatics tools and software such as KEGG, MetaCyc,PH USER, Cytoscape etc that could be utilized by researchers in effectively transforming cellular pathways. Keywords: Systems biology ontology; Metabolic pathways; Gene network; Network visualization 1. INTRODUCTION Metabolic engineering integrates efficient exploration of metabolic and cellular pathways with molecular systems to enhance biological properties by formulating and applying genetic alterations [1].Decades ago, computational tools were used in metabolic engineering to design single enzymes by using analog computers, and digital computers were used to design the dynamics of metabolic pathways [2]. In recent years, bioinformatics tools are used to search huge metabolic databases leading to better understanding, managing, analyzing and visualizing of metabolic pathways [3, 4]. 2. APPLICATIONS OF BIOINFORMATICS TOOLS IN METABOLIC ENGINEERING There are several applications of bioinformatics tools in metabolic engineering which are as follows: 2.1. -
Quantum Radar the Follow-Up Story
Quantum Radar The follow-up story TOMMY HULT, PER JONSSON, MAGNUS HÖIJER FOI-R--5014--SE ISSN 1650-1942 October 20202 Tommy Hult, Per Jonsson, Magnus Höijer Quantum Radar The follow-up story FOI-R--5014--SE Title Quantum Radar Titel Kvantradar - Uppföljningen Rapportnr/Report no FOI-R--5014--SE Månad/Month Okt/Oct Utgivningsår/Year 2020 Antal sidor/Pages 45 Kund/Customer Försvarsdepartementet/Ministry of Defence Forskningsområde Telekrig FoT-område Inget FoT-område Projektnr/Project no A74017 Godkänd av/Approved by Christian Jönsson Ansvarig avdelning Ledningssystem Exportkontroll The content has been reviewed and does not contain information which is subject to Swedish export control. Detta verk är skyddat enligt lagen (1960:729) om upphovsrätt till litterära och konstnärliga verk, vilket bl.a. innebär att citering är tillåten i enlighet med vad som anges i 22 § i nämnd lag. För att använda verket på ett sätt som inte medges direkt av svensk lag krävs särskild överenskommelse. This work is protected by the Swedish Act on Copyright in Literary and Artistic Works (1960:729). Citation is permitted in accordance with article 22 in said act. Any form of use that goes beyond what is permitted by Swedish copyright law, requires the written permission of FOI. 2 (45) FOI-R--5014--SE Summary In the year 2019, a boom is seen for the Quantum Radar. Theoretical thoughts are taken into experimental results claiming a supremacy for the Quantum Radar compared to its classical counterpart. In 2020, a race between the classical radar and the Quantum Radar continues. The 2019 experimental results are not explicitly doubted. -
BRIAN W. BRAMLETT [email protected] | 503.757.8626
BRIAN W. BRAMLETT [email protected] | 503.757.8626 uniquely experienced technology strategist | trans-disciplinary leader | collaborative instigator Driven by an omnivorous curiosity and equipped with a robust foundation in applied physics, electrical engineering, and computer science, my career has been rooted in exploring the design and development of useful systems challenging conventional limits of scale & complexity. The experiences of over two decades of collaborations with highly skilled colleagues from diverse professional backgrounds has provided unparalleled opportunities to learn from and integrate perspectives across many disciplines. Along with the pragmatic focus of these unique expeditions, the process cultivated the deep exposure necessary to develop effective practices, organizational structures, communication techniques, and leadership skills in inter-disciplinary teams and cultures. From this background, I established a strong history of defining technically-grounded business strategies coupled with crafting a coherent, shared vision to motivate and guide successful delivery. HIGHLIGHTS Technology Strategy Developed corporate-wide frameworks and methods for evaluating technology opportunities in conjunction with business goals and user-centered design research. Piloted and refined structured innovation programs to discover and explore new markets and business models through rapid prototyping and direct engagement of customers. Product Design & Development Led agile, interdisciplinary teams combining expertise and techniques of ethnography, industrial, and interaction design with world-leading technologists in board, silicon, mechanical/thermal, and software engineering to create award-winning, real-world products across a broad range of markets. Deep expertise in evaluating approaches to highly complex and technically challenging engineering problems, particularly in the unique patterns that emerge when combining the extremes of very small parts integrated into large coordinated systems. -
Moclo Planner: Interactive Visualization for Modular Cloning Bio-Design
DRAFT MoClo Planner: Interactive Visualization for Modular Cloning Bio-Design Orit Shaer1, Consuelo Valdes1, Sirui Liu1, Kara Lu1, Traci L. Haddock2, Swapnil Bhatia2, Douglas Densmore2, Robert Kincaid3 1Wellesley College, 2Department of Electrical and Computer Engineering Boston University, 3Agilent Technologies The field applies engineering principles such as abstraction ABSTRACT and modularity into biological research, while solving problems MoClo Planner is an interactive visualization system for by applying a forward engineering approach: composing a collaborative bio-design, utilizing a multi-touch interactive specification of the behavior to be designed into an organism, and surface. The system integrates the information gathering, design, then selecting genetic parts and their regulatory architecture to and specification of complex synthetic biological constructs using achieve the functional goal. Here, genetic elements are treated as the Modular Cloning (MoClo) assembly method. Modular standardized biological parts, and used like “Legos” based on data Cloning is a hierarchical DNA construction method that allows about their behavior in a simpler context. An implication of this for the assembly of multi-part constructs from a library of approach is that synthetic biologists must engineer complex biological parts in a one-pot reaction. This cutting-edge method systems based on uncertain biological mechanisms. facilitates and expedites the assembly of complex biological The bottlenecks and challenges along the path to realizing designs. However, it is an intricate multi-step process, which to the full potential of this field are formidable and numerous. For date, has not been adequately supported by existing bio-design one, synthetic biology design requires large design spaces to be tools. Novel visual tools are needed in order to make MoClo more sampled combinatorially while applying voluminous experimental tractable and accessible to a broad range of users, to facilitate a design for each design candidate.