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Browsing Synthetic Biology by Issue Date

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Browsing Synthetic Biology by Issue Date

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  • Wang, Lingjue; Tong, Yin; Zhou, Liqun; Ni, Zhuangdian; Zhu, Xiaodan; Li, Hanrun (2013-11-01)
    This Request for Comments (RFC) describes a new framework for standardize logic gene relations among gene circuits. Each type of logic module in gene circuit can be summarized in a standard device in electronics. In this ...
  • Wang, Lingjue; Zhu, Xiaodan; Li, Hanrun; He, Huiyu; Ni, Zhuangdian; Zhou, Liqun (2013-10-29)
    Current, there is well adopted documentation of biobricks. The Registry of Standard Biology Part set the standard documentation for biobrick. However, there is no standard way to document a genetic circuit, what information ...
  • Hammerling, Michael J.; Gottel, Neil R.; Alnahas, Razan N.; Slater, Ben; Huang, Yunle; Okasheh, Yousef; Howard, Marco; Mortensen, Catherine; Monk, Jordan; Detelich, Madeline; Lannan, Ryan S.; Pitaktong, Areen; Weaver, Evan; Das, Siddharth; Barrick, Jeffrey E. (2013-10-06)
    The discipline of synthetic biology emphasizes the application of engineering principles such as standardization, abstraction, modularity, and rational design to complex biological systems. The archetypical example of such ...
  • 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, ...
  • Wolf, Christopher; Albrecht, Florian; Brüggenthies, Johanna; Brunner, Andreas; Ciccone, Rosario; Fischer, Katrin; Froehlich, Fabian; Funke, Louise; Morath, Volker; Polte, Ingmar; Reichart, Leonie; Schneider, Philipp; Truong, Jeffery (2013-10-04)
    For protein-encoding BioBricks a large number of useful parameters, such as the amino acid sequence or the molecular weight, can easily be computed. Furthermore alignments against databases and predictions of various ...
  • Beer, Ralf; Christiansen, Tania; Herbst, Konrad; Ignatiadis, Nikos; Kats, Ilia; Kurzawa, Nils; Meichsner, Johanna; Rabe, Sophie; Riedel, Anja; Sachs, Joshua; Schessner, Julia; Schmidt, Florian; Walch, Philipp; Adlung, Lorenz; Genreith, Katharina; Georgi, Fanny; Heinemann, Tim; Meyer, Hannah; Niopek, Dominik; Di Ventura, Barbara; Eils, Roland (2013-10-04)
    The purpose of this RFC is to introduce a standardized framework for the engineering of customizable non-ribosomal peptide synthetases (NRPS) and their application for in vivo and in vitro synthesis of short non-ribosomal ...
  • 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 ...
  • Quinn, Jacqueline; Beal, Jacob; Bhatia, Swapnil; Cai, Patrick; Chen, Joanna; Clancy, Kevin; Hillson, Nathan; Galdzicki, Michal; Maheshwari, Akshay; P, Umesh; Pocock, Matthew; Rodriguez, Cesar; Stan, Guy-Bart; Endy, Drew (2013-03-31)
    In this BioBricks Foundation Request for Comments (BBF RFC), we specify the Synthetic Biology Open Language Visual standard (SBOL Visual) to enable consistent, human-readable depiction of genetic designs.
  • 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.
  • 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 ...
  • Galdzicki, Michal; Wilson, Mandy; Rodriguez, Cesar A.; Pocock, Matthew R.; Oberortner, Ernst; Adam, Laura; Adler, Aaron; Anderson, J. Christopher; Beal, Jacob; Cai, Yizhi; Chandran, Deepak; Densmore, Douglas; Drory, Omri A.; Endy, Drew; Gennari, John H.; Grünberg, Raik; Ham, Timothy S.; Hillson, Nathan J.; Johnson, Jeffrey D.; Kuchinsky, Allan; Lux, Matthew W.; Madsen, Curtis; Misirli, Goksel; Myers, Chris J.; Olguin, Carlos; Peccoud, Jean; Plahar, Hector; Platt, Darren; Roehner, Nicholas; Sirin, Evren; Smith, Trevor F.; Stan, Guy-Bart; Villabos, Alan; Wipat, Anil; Sauro, Herbert M. (2012-10-11)
    In this BioBricks Foundation Request for Comments (BBF RFC), we specify the Synthetic Biology Open Language (SBOL) Version 1.1.0 to enable the electronic exchange of information describing DNA components used in synthetic ...
  • 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 ...
  • Zhou, Mubing; Zhang, Junqiu; He, Jiankui (2012-10-11)
    Since the information of many existing BioBricks is incomplete, thus the usage of the BioBricks will be affected. It is necessary to standardize the minimum information required for a qualified BioBrick. Furthermore this ...
  • Boeke, Jef; Mitchell, Leslie; Cai, Yizhi; Stracquadanio, Giovanni; Chuang, James; Tan, Scott; Heston, Margo; Wang, Jiarui; Kim, Dong Won; Noronha, Anne Marie (2012-10-11)
    BBF RFC 88 describes a new standard for the assembly of basic Saccharomyces cerevisiae transcriptional units (TUs) consisting of a promoter/5’untranslated region (UTR), open reading frame (ORF), and 3’UTR/terminator. Note ...
  • Xu, Kenneth O.; Walters, Eric M. (2011-12-29)
    The current registry system accommodates normal parts fairly well but has difficulty when adding mutant libraries. If all mutant offspring were added as new parts, the registry would be comprehensive but the parts registry ...
  • He, Tony PeiYuan; Campbell, Alexander; Zhou, Stefanie Yifan (2011-12-15)
    This Request for Comments (RFC) describes a novel method for the assembly of standard BioBrick parts. This assembly method for BioBrick parts is an improvement upon the conventional methods of BioBrick part assembly. This ...
  • Abbas, Yassen; Crossman, Allan; Fletcher, Eugene; French, Chris; Gibson, Clare; Isapanie, Sylvia; Kopec, Lukasz; Lee, Mun Ching; Li, Di; Tynan-O'Mahony, Fionn (2011-10-17)
    This Request for Comments (RFC) describes a strategy for using homology-based assembly methods to assemble parts from a library in any order.
  • Odsen, Raymond; Baretta, Kayla; Zakrewski, Helena; Simpson, Michael; Guo, Yuan; Pelech, Murray; Foster, Adam; Ridgway, Douglas; Ellison, Michael (2011-10-17)
    This BBF RFC provides a method in which standardized parts can be easily created for Neurospora crassa.
  • Wipat, Anil; Villalobos, Alan; Stan, Guy-Bart; Smith, Trevor; Sauro, Herbert; Roehner, Nicholas; Pocock, Matthew; Plahar, Hector; Peccoud, Jean; Myers, Chris; Misirli, Goksel; Madsen, Curtis; Lux, Matthew; Kuchinsky, Allan; Ham, Timothy; Grünberg, Raik; Gennari, John; Endy, Drew; Drory, Omri; Densmore, Douglas; Chandran, Deepak; Beal, Jacob; Anderson, J. Christopher; Adler, Aaron; Adam, Laura; Rodriguez, Cesar; Wilson, Mandy; Galdzicki, Michal (2011-10-03)
    In this BioBricks Foundation Request for Comments (BBF RFC), we specify the Synthetic Biology Open Language (SBOL) Version 1.0.0 to enable the electronic exchange of information describing DNA components used in synthetic ...
  • Shetty, Reshma; Lizarazo, Meagan; Rettberg, Randy; Knight, Thomas F., Jr. (Elsevier Inc., 2011-05-20)
    An underlying goal of synthetic biology is to make the process of engineering biological systems easier and more reliable. In support of this goal, we developed BioBrick assembly standard 10 to enable the construction of ...
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