Browsing Requests for Comments (RFCs) by Title

Now showing items 55-74 of 74

    • Open licensing of BioBrick parts 

      Lower, Michal; Olchowik, Anna; Pankowski, Jaroslaw; Bazlekowa, Milena; Blaszkiewicz, Marta; e.a. (2010-12-05)
      This document provides recommendations for licensing of community-created biological parts, especially in BioBrick standard.

    • Open Sequence Initiative: a part submission standard to complement modern DNA assembly techniques 

      Hammerling, Michael J.; Gottel, Neil R.; Alnahas, Razan N.; Slater, Ben; Huang, Yunle; e.a. (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 ...

    • PCR - Ligation Assembly Standard for BioBrick Parts 

      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 ...

    • Promoter and Coding Sequence Considerations for Caenorhabditis elegans and Other Eukaryotes 

      Palmer, Chris; Halliday, Geoff (2010-11-07)
      Our primary aim is to provide a standard format for protein-coding BioBricks intended for eukaryotes, especially in the nematode worm Caenorhabditis elegans, so that future teams will be able to correctly take advantage ...

    • Proposed Conceptual Guidelines for the Design of a BioBrick Graphical Language & an Example 

      Fernandez, Eric (2009-03-12)
      As we update the current BioBrick symbols we have an opportunity to look at the end users of a BioBrick Graphical language and develop design guidelines so that the new symbols best suit their needs. This document explores ...

    • Provisional BioBrick Language (PoBoL) 

      Galdzicki, Michal; Chandran, Deepak; Nielsen, Alec; Morrison, Jason; Cowell, Mackenzie; e.a. (2009-05-15)
      This BioBricks Foundation Request for Comments (BBF RFC) describes a semantic markup language for publishing and sharing information about BioBricks on the World Wide Web. This BBF RFC includes the recommendation for the ...

    • Quantitative measurement of mammalian cell invasion by bacteria using flow cytometry 

      Lower, Michal; Olchowik, Anna (2010-10-31)
      Purpose of this RFC is to provide method of measurement of bacterial invasion into mammalian cells. Also this RFC defines Percent of INvasion (PIN) unit.

    • RA-PCR, a method for the generation of randomized promoter libraries 

      Velten, Lars; Haas, Simon; Rademacher, Anne; Meyer, Hannah; Eils, Roland (2009-10-21)
      The purpose of this RFC is to provide instructions for the synthesis of promoters in mammalian cells that are active at a desired cellular condition (where a cellular condition is specified by the activity of a set of ...

    • Recombination Based Part Assembly 

      Deming, Laura; Slusarczyk, Adrian; Jiao, Yunxin; iGEM, 2010 MIT (2010-12-05)
      Here we propose a new recombination-based assembly standard, optimized to allow for efficient cloning of mammalian vectors.

    • A RESTful API for Supporting Automated BioBrick Model Assembly 

      Steyn, J S; Boyd, R M; Essa, Y; Hall, P; Koh, A; e.a. (2010-12-05)
      Constructing simulatable models for BioBricks by hand is a complex and time-consuming task. The time taken could be reduced by using Computer Aided Design (CAD) tools to aid in designing models, but these tools need to be ...

    • Reusable rapid assembly of genetic parts for Neurospora crassa 

      Odsen, Raymond; Baretta, Kayla; Zakrewski, Helena; Simpson, Michael; Guo, Yuan; e.a. (2011-10-17)
      This BBF RFC provides a method in which standardized parts can be easily created for Neurospora crassa.

    • Standard Biological Part Automatic Modeling Database Language (MoDeL) 

      Wang, Zhen; Liao, Chen; Jiang, Hao; Yao, Xiaomo; Jiang, Kun (2010-11-09)
      This BioBricks Foundation Request for Comments (BBF RFC) describes the Standard Biological Part Automatic Modeling Database Language (MoDeL). MoDeL provides a language and syntax standard for automatic modeling databases ...

    • Standard for Synthesis of Customized Peptides by Non-Ribosomal Peptide Synthetases 

      Beer, Ralf; Christiansen, Tania; Herbst, Konrad; Ignatiadis, Nikos; Kats, Ilia; e.a. (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 ...

    • Standard for the Electronic Distribution of SBOLv Diagrams 

      Johnson, Jeffrey; Galdzicki, Michal; Sauro, Herbert M (2010-12-05)
      A common method for publicly distributing design diagrams on the Web would enhance understanding of the mechanisms and intended function of synthetic DNA constructs. We aim to improve the usefulness of the depicted design ...

    • Synthetic Biology Open Language (SBOL) Version 1.1.0 

      Galdzicki, Michal; Wilson, Mandy; Rodriguez, Cesar A.; Pocock, Matthew R.; Oberortner, Ernst; e.a. (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 ...

    • Synthetic Biology Open Language Visual (SBOL Visual), version 1.0.0 

      Quinn, Jacqueline; Beal, Jacob; Bhatia, Swapnil; Cai, Patrick; Chen, Joanna; e.a. (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.

    • Title: Synthetic Biology Open Language (SBOL) Version 1.0.0 

      Wipat, Anil; Villalobos, Alan; Stan, Guy-Bart; Smith, Trevor; Sauro, Herbert; e.a. (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 ...

    • Units for Promoter Measurement in Mammalian Cells 

      Velten, Lars; Iwamoto, Nao; Hiller, Corinna; Uckelmann, Hannah; Zhu, Chenchen; e.a. (2009-10-21)
      The purpose of this RFC is to provide units for the characterization of promoter strength for use in mammalian cells. RMPU is mRNA based and directly proportional to PoPS, whereas REU is protein based and not proportional ...

    • The USER cloning standard 

      Kaas, Christian Schrøder; Hansen, Niels Bjørn; Genee, Hans Jasper; Olsen, Lars Rønn; Matos, Cláudia; e.a. (2009-11-01)
      This BioBricks Foundation Request for Comments (BBF RFC) provides information about the design of uracil-containing primers used for USER cloning and USER fusion.

    • Yeast Golden Gate: Standardized Assembly of S. cerevisiae Transcriptional Units 

      Boeke, Jef; Mitchell, Leslie; Cai, Yizhi; Stracquadanio, Giovanni; Chuang, James; e.a. (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 ...