The BioBricks Foundation:RFC

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**requested by Jason R Kelly and Drew Endy
**requested by Jason R Kelly and Drew Endy
* [http://dspace.mit.edu/bitstream/handle/1721.1/44962/BBFRFC20.pdf?sequence=1 BBF RFC 20: Constraint Relaxation of RFC 10 for Assembling Standard Biological Parts]
* [http://dspace.mit.edu/bitstream/handle/1721.1/44962/BBFRFC20.pdf?sequence=1 BBF RFC 20: Constraint Relaxation of RFC 10 for Assembling Standard Biological Parts]
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**[http://hdl.handle.net/ DSpace], doi: 1721.1/44962
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**[http://hdl.handle.net/1721.1/44962 DSpace], doi: 1721.1/44962
**Austin Che
**Austin Che
**[[BBF RFC 20 | Add comments here]]
**[[BBF RFC 20 | Add comments here]]

Revision as of 22:23, 30 March 2009


RFCs

The BioBricks Foundation is dedicated to promoting and protecting the open development, sharing, and reuse of BioBrick™ standard biological parts. Taking inspiration from the Internet Engineering Task Force, we are now implementing a Request for Comments process. A Request for Comments, abbreviated RFC, is a short document that is intended for review by the rest of the community.

An RFC might

  • propose a standard of some sort (i.e. Tom Knight's 2003 BioBrick physical assembly standard or the Freiburg protein fusion assembly standard)
  • describe best practices or protocols (i.e. a protocol for assembling two parts)
  • provide information (i.e. a description of how to design transcriptional terminators)
  • simply comment, extend, or replace an earlier RFC

RFC's are static documents or digital objects like video's intended to get an idea, proposed standard, or method out to the rest of the community for comment. RFC's are numbered, for ease of referencing, and the numbers are assigned by the BBF.

Instructions for requesting a BBF RFC number, preparing an RFC, and submitting an RFC to the BBF are described in BBF RFC 0.

The complete list of all assigned RFC numbers and RFC documents (for those submitted) is listed below.

  • BBF RFC 0: Instructions to BBF RFC Authors
    • by Chris Anderson, Austin Che, Mackenzie Cowell, Alistair Elfick, Kim de Mora, Drew Endy, Chris French, Tom Knight, Antonia Mayer, George McArthur, Randy Rettberg, Douglas Ridgway, Reshma Shetty, Sean Sleight, and Daniel Tarjan
    • DSpace, doi: 1721.1/44960
  • BBF RFC 1: Definition of the nature of a part
    • requested by Kristian Müller and Katja Arndt
  • BBF RFC 2: The information stored with a with a part
    • requested by Kristian Müller and Katja Arndt
  • BBF RFC 3: Restriction sites for the construction of fusion proteins
    • requested by Kristian Müller and Katja Arndt
  • BBF RFC 4: Synthetic Biology Diagram Standard
    • requested by Mackenzie Cowell
  • BBF RFC 5: BioBrick Placeholders
    • requested by George McArthur IV and Daniel R Tarjan
  • BBF RFC 6: Synthetic Terminators for Transcription Attenuation
    • requested by George McArthur IV and Daniel R Tarjan
  • BBF RFC 7: Original Biobrick distribution data sheet, May 22, 2002
    • This is the data sheet accompanying the first public Biobrick distribution
    • RFC Draft
    • Tom Knight
  • BBF RFC 8: Early Biobrick standard design
    • Early description of a (now defunct) Biobrick standard
    • RFC Draft
    • Tom Knight
  • BBF RFC 9: Idempotent vector design for the standard assembly of Biobricks
    • Initial detailed motivation and definition of the Biobrick standard
    • RFC Draft
    • Tom Knight, Randall Rettberg, Leon Chan, Drew Endy, Reshma Shetty, Austin Che
  • BBF RFC 10: Draft standard for Biobrick biological parts
    • Formal description of the initial Biobrick standard
    • RFC Draft
    • Tom Knight, May 3, 2007
  • BBF RFC 11: Biobrick assembly standard modifications
    • Proposed modification of enzymes to facilitate protein fusions (SpeI/NheI replaces XbaI/SpeI)
    • RFC Draft
    • Tom Knight, July 8, 2008
  • BBF RFC 12: Draft Biobrick BB-2 standard for biological parts
    • Formal description of the Biobrick BB-2 standard
    • RFC draft
    • Tom Knight, November 19, 2008
  • BBF RFC 13: Rethinking the boundaries and composition of coding regions
    • Logical split of the protein coding region into domains
    • RFC draft
    • Tom Knight
  • BBF RFC14: Protein domain fusions in BB-2 assembly
    • Application of the RFC13 ideas to assembly with BB-2
    • RFC draft
    • Tom Knight
  • BBF RFC 15: Innovations Mean Nothing Unless You Use Them -- The New BioScaffold Family of BioBrick Parts To Enable Manipulations Such as Protein Fusions, Library Construction, and Part Domestication
    • RFC Draft
    • by Julie Norville, Angela Belcher and Tom Knight
  • BBF RFC 16: BioBrick Open Graphical Language (BOGL)
    • requested by Cesar Rodriguez, Drew Endy, and others TBA
  • BBF RFC 17: BioBrick Open Language (BOL)
    • requested by Cesar A. Rodriguez, Herbert M. Sauro and Drew Endy
  • BBF RFC 18: Proposed Conceptual Guidelines for the Design of a BioBrick Graphical Language & an Example
  • BBF RFC 19: Measuring the Activity of BioBrick Promoters Using an In Vivo Reference Standard
    • requested by Jason R Kelly and Drew Endy
  • BBF RFC 20: Constraint Relaxation of RFC 10 for Assembling Standard Biological Parts
  • BBF RFC 21: BglBricks Assembly Standard
    • requested by J. Christopher Anderson, John E. Dueber, Jonathan A. Goler, Adam P. Arkin, and Jay D. Keasling
  • BBF RFC 22: BBΩ-- An Extended BioBricks Assembly Standard that Utilizes Hierarchical Manipulation of Parts to Address Limitations in the Original BioBricks Assembly Standard
    • requested by Julie Norville, Angela Belcher and Tom Knight
  • BBF RFC 23: A New Biobrick Assembly Strategy Designed for Facile Protein Engineering
    • requested by Ira Phillips and Pamela Silver
    • Original technical report available at DSpace, PDF (direct link)
  • BBF RFC 24: Conversion of Freiburg (Fusion) Biobricks to the Silver (BioFusion) format
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