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Browsing Synthetic Biology by Title

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  • Fusion Protein (Freiburg) Biobrick assembly standard 
    Grünberg, Raik; Arndt, Katja; Müller, Kristian (2009-04-18)
    This Request for Comments (RFC) describes an extension to the original BioBrick assembly standard (BBF RFC 10). The Fusion Assembly strategy described here is fully backwards compatible with RFC 10 and supports the ...
  • GenBrick – A Rapid Multi-Part Assembly Method for BioBricks 
    Gasiūnaitė, Lina; Lewicka, Aleksandra; Pashkuleva, Hristiana; Villanueva, Hugo; Thornton, Harry; Trubitsyna, Maryia; French, Chris (2013-10-04)
    This BioBricks Foundation Request for Comments (BBF RFC) describes a novel approach, GenBrick, for the rapid assembly of multiple BioBrick RFC10-compatible parts in a single reaction, with completely flexible part order, ...
  • GeneJax: A Prototype CAD tool in support of Genome Refactoring 
    Anand, Ishan; Kosuri, Sriram; Endy, Drew (2006-05-26)
    Refactoring is a technique used by computer scientists for improving program design. The Endy Laboratory has adapted this process to make the genomes of biological organisms more amenable to human understanding and design ...
  • General updating scheme for the design and construction of assembly vectors that are compatible with BBF RFC 10 and BBF RFC 28 
    Billerbeck, Sonja; Zwicky, Katharina; Lang, Moritz; Pestalozzi, Luzius; Rosenberger, George; Constantinescu, Simona; Ambegoda, Thanuja; Sotiriadis, Elsa (2010-12-05)
    BBF RFC 75 intends to link the BBF RFC 28-based combinatorial multi-part assembly method to BBF RFC 10. Its aim is to easily redesign an expression vector to make it compatible to BBF RFC 10 for the construction of fusion ...
  • The GoldenBricks assembly: A standardized one-shot cloning technique for complete cassette assembly 
    Pauthenier, Cyrille; El-Sayyed, Hafez; Rostain, William; Cerisy, Tristan; Lopez, Carolina Gallo; Ferreira, Raphael; Moreira, Jorgelindo Da Veiga; Souterre, Tiffany; Eeckhout, Joachim; Nogue, Pierre Yves; Llamosi, Artemis; Parutto, Pierre; Nikolayeva, Iryna; Machat, Mohamed; Marquet, Clement; Młynarczyk, Anna; Thelie, Aurore; Landrain, Thomas; Tolonen, Andrew; Pollet, Nicolas; Faulon, Jean-Loup; Jaramilo, Alfonso (2012-11-05)
    BBF RFC 92 proposes a new standard assembly method for the Parts Registry. The method makes one-shot cloning of a complete eukaryotic or prokaryotic cassette possible in one day while keeping compatibility with the BBF RFC ...
  • HiCT: High Throughput Protocols For CPE Cloning And Transformation 
    Beer, Ralf; Christiansen, Tania; Herbst, Konrad; Ignatiadis, Nikolaos; Kats, Ilia; Kurzawa, Nils; Meichsner, Johanna; Rabe, Sophie; Riedel, Anja; Sachs, Joshua; Schessner, Julia; Schmidt, Florian; Walch, Philipp; Adlung, Lorenz; Genereith, Katharina; Georgi, Fanny; Heinemann, Tim; Meyer, Hannah; Niopek, Dominik; Di Ventura, Barbara; Eils, Roland (2013-10-04)
    The purpose of this RFC is to provide instructions for a rapid and cost efficient cloning and transformation method which allows for the manufacturing of multi-fragment plasmid constructs in a parallelized manner: High ...
  • How to Build Kinetic Models of BioBricks 
    Weeding, Emma; Houle, Jason; Swiniarski, Ben; Smadbeck, Patrick; Lindblad, Kristen; Volzing, Katherine; Srivastava, Poonam; Sotiropoulos, Vassilios; Biliouris, Kostas; Kaznessis, Yiannis (2009-10-21)
    This BioBricks Foundation Request for Comments (BBF RFC) provides instructions on how to automatically generate a model of any BioBrick sequence. These models can be used in computer simulations of the dynamic behavior of ...
  • Idempotent Vector Design for Standard Assembly of Biobricks 
    Knight, Thomas (MIT Artificial Intelligence Laboratory; MIT Synthetic Biology Working Group, 2003)
    The lack of standardization in assembly techniques for DNA sequences forces each DNA assembly reaction to be both an experimental tool for addressing the current research topic, and an experiment in and of itself. One ...
  • iGEM 2005 Invitation Supplement 
    Endy, Drew (2005-09-29)
    This document provides background material in support of the 2005 intercollegiate Genetically Engineered Machine Competition (aka iGEM). Herein, you can read quick summaries of earlier competitions and courses, obtain a ...
  • Impact of Synthetic Genomics on the Threat of Bioterrorism with Viral Agents 
    Collett, Marc (2007-12-04)
    In 2002, a team of researchers at the State University of New York led by Eckard Wimmer assembled a DNA template for the RNA poliovirus using an internet-available nucleotide sequence and mail order synthetic ...
  • The Imperative of Synthetic Biology: A Proposed National Research Initiative 
    Lazowska, Ed; Endy, Drew (2008-12-23)
  • Instructions to BBF RFC Authors 
    Tarjan, Daniel; Sleight, Sean; Shetty, Reshma; Ridgway, Doug; Rettberg, Randy; McArthur, George; Mayer, Antonia; Knight, Tom; French, Chris; Endy, Drew; de Mora, Kim; Elfick, Alistair; Cowell, Mackenzie; Che, Austin; Anderson, Chris (OpenWetWare, 2008-11-10)
    This BioBricks Foundation Request for Comments (BBF RFC) provides in- formation about the preparation and submission of BBF RFCs to The Bio- Bricks Foundation (BBF).
  • Integrases, Aliens, & Bill Joy 
    Endy, Drew (2013-03-27)
    Research presentation on recent and unpublished work before the MIT Synthetic Biology Working Group on 24 September 2012 in MIT Building 56.
  • In the valley of the shadow of death 
    Brent, Roger (2006-11-22)
    During the 20th century, advances in biological understanding sparked a global revolution in biological capability, or RBC. Since that time, the revolution has proceeded in a Moore's-law-like fashion for many decades. ...
  • LabView VIs for operating Sortostat 
    Kelly, Jason (2008-05-14)
  • Large-Scale Peptide Modification on BioBrick Proteins 
    Tian, Feng; Chen, GuoQiang; Wang, Zhao (2009-10-30)
    With the established BioBrick Assembly standards, fusion proteins with diversified functions are easy to manipulate. However, we realized that the existing BBF RFC do not clearly defining the standard for peptide display ...
  • May 2006 correspondance between James Randerson and Drew Endy 
    Endy, Drew (2006-06-15)
    I am a science journalist with the Guardian newspaper in London. We are a national daily paper. I am hoping to put together an investigative piece on how easy (or not) it would be for a would-be terrorist to put together ...
  • Measurement of bacterial promoter absolute activity and determination of dynamic performance in cell-free expression system by qPCR 
    Olchowik, Anna; Lower, Michal; Moreno, Cherry; Pankowski, Jaroslaw (2010-12-05)
    The purpose of this RFC is to provide standard methodology for the measurement of the absolute strength of bacterial promoters. The absolute activity can be experimentally measured in Moles of RNA per Moles of DNA in time, ...
  • The Measurement of rho‐independent Transcription Terminator Efficiency 
    He, Jiankui; Jing, Shui; Zhang, Mengshi; Liu, Xianggeng; Chen, Yao; Qie, Boyu; Shen, Liuxing; Wu, Zishan (2012-10-11)
    The purpose of this RFC is to provide standard methodology for the measurement of the absolute strength of terminators in bacteria. Because we have characterized the performance of terminator in E. coli and used a simple ...
  • miMeasure – a standard for miRNA binding site characterization in mammalian cells 
    Adlung, Lorenz; Sabah, Jude Al; Bayer, Philipp; Berrens, Rebecca; Cristiano, Elena; Flocke, Lea; Kleinsorg, Stefan; Kolodziejczyk, Aleksandra; Kraemer, Stephen; Torre, Alejandro Macias; Mathur, Aastha; Mayilo, Dmytro; Neumann, Stefan; Niopek, Dominik; Pisa, Rudolf; Schad, Jan-Ulrich; Schumacher, Laura-Nadine; Uhlig, Thomas; Wu, Xiaoting; Keienburg, Jens; Boerner, Kathleen; Grimm, Dirk; Eils, Roland (2010-12-05)
    This RFC proposes a standard for the quantitative characterization of miRNA binding sites (miRNA-BS) in mammalian cells. The miMeasure standard introduces a ready-to-use standard measurement plasmid (pSMB_miMeasure, ...
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