The BioBricks Foundation:RFC: Difference between revisions
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*[http://hdl.handle.net/1721.1/46747 DSpace], doi: 1721.1/46747 | *[http://hdl.handle.net/1721.1/46747 DSpace], doi: 1721.1/46747 | ||
===BBF RFC 22: BBΩ-- An Extended BioBricks™ Assembly Standard that Utilizes Hierarchical Manipulation of Parts to Address Limitations in the Original BioBricks Assembly Standard=== | ===BBF RFC 22: BBΩ-- An Extended BioBricks™ Assembly Standard that Utilizes Hierarchical Manipulation of Parts to Address Limitations in the Original BioBricks™ Assembly Standard=== | ||
*by Julie Norville, Angela Belcher and Tom Knight | *by Julie Norville, Angela Belcher and Tom Knight | ||
*[[The_BioBricks_Foundation:BBFRFC22|RFC Draft]] | *[[The_BioBricks_Foundation:BBFRFC22|RFC Draft]] | ||
===BBF RFC 23: A New | ===BBF RFC 23: A New BioBrick™ Assembly Strategy Designed for Facile Protein Engineering=== | ||
*by Karmella Haynes, Ira Phillips and Pamela Silver | *by Karmella Haynes, Ira Phillips and Pamela Silver | ||
*(Original technical report available at [http://hdl.handle.net/1721.1/32535 DSpace], [http://dspace.mit.edu/bitstream/handle/1721.1/32535/PhillipsSilverFusion.pdf?sequence=1 PDF] (direct link)) | *(Original technical report available at [http://hdl.handle.net/1721.1/32535 DSpace], [http://dspace.mit.edu/bitstream/handle/1721.1/32535/PhillipsSilverFusion.pdf?sequence=1 PDF] (direct link)) | ||
===BBF RFC 24: Conversion of Freiburg (Fusion) | ===BBF RFC 24: Conversion of Freiburg (Fusion) BioBricks™ to the Silver (BioFusion) format=== | ||
*by Raik Grünberg | *by Raik Grünberg | ||
*[http://hdl.handle.net/1721.1/44961 DSpace], doi: 1721.1/44961 | *[http://hdl.handle.net/1721.1/44961 DSpace], doi: 1721.1/44961 | ||
*[[BBF RFC 24 | Add comments here]] | *[[BBF RFC 24 | Add comments here]] | ||
===BBF RFC 25: Fusion Protein (Freiburg) | ===BBF RFC 25: Fusion Protein (Freiburg) BioBrick™ assembly standard=== | ||
*by Kristian M. Müller, Katja M. Arndt, the 2007 Freiburg iGEM team, and Raik Grünberg | *by Kristian M. Müller, Katja M. Arndt, the 2007 Freiburg iGEM team, and Raik Grünberg | ||
*[http://hdl.handle.net/1721.1/45140 DSpace]; doi:1721.1/45140 | *[http://hdl.handle.net/1721.1/45140 DSpace]; doi:1721.1/45140 | ||
===BBF RFC 26: In-Fusion BioBrick Assembly=== | ===BBF RFC 26: In-Fusion BioBrick™ Assembly=== | ||
*by Sean C. Sleight | *by Sean C. Sleight | ||
*[http://hdl.handle.net/1721.1/46328 DSpace], doi:1721.1/46328 | *[http://hdl.handle.net/1721.1/46328 DSpace], doi:1721.1/46328 | ||
*[[BBF RFC 26 | Add comments here]] | *[[BBF RFC 26 | Add comments here]] | ||
===BBF RFC 27: Fast ligation-free construction of BioBricks with PCR & In-Fusion=== | ===BBF RFC 27: Fast ligation-free construction of BioBricks™ with PCR & In-Fusion=== | ||
*requested by Raik Grünberg | *requested by Raik Grünberg | ||
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*[http://hdl.handle.net/1721.1/46721 DSpace], doi:1721.1/46721 | *[http://hdl.handle.net/1721.1/46721 DSpace], doi:1721.1/46721 | ||
===BBF RFC 29: Naming of standards of physical composition of BioBrick parts=== | ===BBF RFC 29: Naming of standards of physical composition of BioBrick™ parts=== | ||
*by Reshma Shetty and Randy Rettberg | *by Reshma Shetty and Randy Rettberg | ||
*[http://hdl.handle.net/1721.1/45137 DSpace], doi: 1721.1/45137 | *[http://hdl.handle.net/1721.1/45137 DSpace], doi: 1721.1/45137 | ||
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*[[BBF RFC 30 | Add comments here]] | *[[BBF RFC 30 | Add comments here]] | ||
===BBF RFC 31: Provisional BioBrick Language (PoBoL)=== | ===BBF RFC 31: Provisional BioBrick™ Language (PoBoL)=== | ||
*by Michal Galdzicki, Deepak Chandran, Alec Nielsen, Jason Morrison, Mackenzie Cowell, Raik Grünberg, Sean Sleight, Herbert Sauro | *by Michal Galdzicki, Deepak Chandran, Alec Nielsen, Jason Morrison, Mackenzie Cowell, Raik Grünberg, Sean Sleight, Herbert Sauro | ||
*[http://hdl.handle.net/1721.1/45537 DSpace], doi: 1721.1/45537 | *[http://hdl.handle.net/1721.1/45537 DSpace], doi: 1721.1/45537 | ||
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*requested by Geoff Baldwin, James Brown, Jane Calvert, Vincent Danos, Kim de Mora, Alistair Elfick, Paul Freemont, Chris French, Emma Frow, Jennifer Hallinan, Matt Pocock, Vincent Rouilly, Anil Wipat, Goksel Misirli, Jan-Willem Veening, Leendert Hamoen | *requested by Geoff Baldwin, James Brown, Jane Calvert, Vincent Danos, Kim de Mora, Alistair Elfick, Paul Freemont, Chris French, Emma Frow, Jennifer Hallinan, Matt Pocock, Vincent Rouilly, Anil Wipat, Goksel Misirli, Jan-Willem Veening, Leendert Hamoen | ||
===BBF RFC 35: Context-free grammar representation of design strategies for BioBrick constructs=== | ===BBF RFC 35: Context-free grammar representation of design strategies for BioBrick™ constructs=== | ||
* requested by Jean Peccoud, Yizhi Cai and Matthew Lux | * requested by Jean Peccoud, Yizhi Cai and Matthew Lux | ||
===BBF RFC 36: ''deprecated''=== | ===BBF RFC 36: ''deprecated''=== | ||
===BBF RFC 37: Fusion protein BioBrick assembly standard with optional linker extension=== | ===BBF RFC 37: Fusion protein BioBrick™ assembly standard with optional linker extension=== | ||
* by Mojca Benčina and Roman Jerala | * by Mojca Benčina and Roman Jerala | ||
*[http://hdl.handle.net/1721.1/46705 DSpace], doi: 1721.1/46705 | *[http://hdl.handle.net/1721.1/46705 DSpace], doi: 1721.1/46705 | ||
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*[http://hdl.handle.net/1721.1/49522 DSpace], doi:1721.1/49522 | *[http://hdl.handle.net/1721.1/49522 DSpace], doi:1721.1/49522 | ||
===BBF RFC 40: How to Build Kinetic Models of BioBricks=== | ===BBF RFC 40: How to Build Kinetic Models of BioBricks™=== | ||
* by Emma Weeding, Jason Houle, Ben Swiniarski, Patrick Smadbeck, Kristen Lindblad, Katherine Volzing, Poonam Srivastava, Vassilios Sotiropoulos, Kostas Biliouris, Yiannis Kaznessis | * by Emma Weeding, Jason Houle, Ben Swiniarski, Patrick Smadbeck, Kristen Lindblad, Katherine Volzing, Poonam Srivastava, Vassilios Sotiropoulos, Kostas Biliouris, Yiannis Kaznessis | ||
* [http://hdl.handle.net/1721.1/49504 DSpace], doi: 1721.1/49504 | * [http://hdl.handle.net/1721.1/49504 DSpace], doi: 1721.1/49504 | ||
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*[http://hdl.handle.net/1721.1/49505 DSpace], doi: 1721.1/49505 | *[http://hdl.handle.net/1721.1/49505 DSpace], doi: 1721.1/49505 | ||
===BBF RFC 45: Cloning Standard for Mammalian BioBrick Parts and Devices=== | ===BBF RFC 45: Cloning Standard for Mammalian BioBrick™ Parts and Devices=== | ||
*by Michael Bartoschek, Douaa Mugahid, Anne Rademacher, Hannah Meyer, Lars Velten, Yara Reis, Jens Keienburg, Roland Eils | *by Michael Bartoschek, Douaa Mugahid, Anne Rademacher, Hannah Meyer, Lars Velten, Yara Reis, Jens Keienburg, Roland Eils | ||
*[http://hdl.handle.net/1721.1/49503 DSpace], doi: 1721.1/49503 | *[http://hdl.handle.net/1721.1/49503 DSpace], doi: 1721.1/49503 | ||
===BBF RFC 46: Large-Scale Peptide Modification on BioBrick Proteins=== | ===BBF RFC 46: Large-Scale Peptide Modification on BioBrick™ Proteins=== | ||
*by Feng Tian, GuoQiang Chen, Zhao Wang | *by Feng Tian, GuoQiang Chen, Zhao Wang | ||
*[http://dspace.mit.edu/handle/1721.1/49521 DSpace], doi: 1721.1/49521 | *[http://dspace.mit.edu/handle/1721.1/49521 DSpace], doi: 1721.1/49521 |
Revision as of 21:37, 15 June 2010
RFCsThe 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
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
BBF RFC 1: Definition of the nature of a part
BBF RFC 2: The information stored with a with a part
BBF RFC 3: Restriction sites for the construction of fusion proteins
BBF RFC 4: Synthetic Biology Diagram Standard
BBF RFC 5: BioBrick™ Placeholders
BBF RFC 6: Synthetic Terminators for Transcription Attenuation
BBF RFC 7: Original Biobrick™ distribution data sheet, May 22, 2002
BBF RFC 8: Early Biobrick™ standard design
BBF RFC 9: Idempotent vector design for the standard assembly of Biobricks™
BBF RFC 10: Draft standard for Biobrick™ biological parts
BBF RFC 11: Biobrick™ assembly standard modifications
BBF RFC 12: Draft Biobrick™ BB-2 standard for biological parts
BBF RFC 13: Rethinking the boundaries and composition of coding regions
BBF RFC14: Protein domain fusions in BB-2 assembly
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
BBF RFC 16: Synthetic Biology Open Language Visual (SBOLv) Specification
BBF RFC 17: deprecatedBBF 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
BBF RFC 20: Constraint Relaxation of RFC 10 for Assembling Standard Biological Parts
BBF RFC 21: BglBricks Assembly Standard
BBF RFC 22: BBΩ-- An Extended BioBricks™ Assembly Standard that Utilizes Hierarchical Manipulation of Parts to Address Limitations in the Original BioBricks™ Assembly Standard
BBF RFC 23: A New BioBrick™ Assembly Strategy Designed for Facile Protein Engineering
BBF RFC 24: Conversion of Freiburg (Fusion) BioBricks™ to the Silver (BioFusion) format
BBF RFC 25: Fusion Protein (Freiburg) BioBrick™ assembly standard
BBF RFC 26: In-Fusion BioBrick™ Assembly
BBF RFC 27: Fast ligation-free construction of BioBricks™ with PCR & In-Fusion
BBF RFC 28: A method for combinatorial multi-part assembly based on the Type IIs restriction enzyme AarI
BBF RFC 29: Naming of standards of physical composition of BioBrick™ parts
BBF RFC 30: Draft of an RDF-based framework for the exchange and integration of Synthetic Biology data
BBF RFC 31: Provisional BioBrick™ Language (PoBoL)
BBF RFC 32: Revised draft of an RDF-based framework for the exchange and integration of Synthetic Biology data
BBF RFC 33: A Core Data Model for Biological System Design
BBF RFC 34: A Promoter Measurement Kit for Bacillus subtilis
BBF RFC 35: Context-free grammar representation of design strategies for BioBrick™ constructs
BBF RFC 36: deprecatedBBF RFC 37: Fusion protein BioBrick™ assembly standard with optional linker extension
BBF RFC 38: Building Blocks - Standard Large DNA/Genome Construction
BBF RFC 39: The USER cloning standard
BBF RFC 40: How to Build Kinetic Models of BioBricks™
BBF RFC 41: Units for Promoter Measurement in Mammalian Cells
BBF RFC 42: RA-PCR, a method for the generation of randomized promoter libraries
BBF RFC 43: Design of specific mammalian promoters by in silico prediction
BBF RFC 44: Bioscaffold-Linker
BBF RFC 45: Cloning Standard for Mammalian BioBrick™ Parts and Devices
BBF RFC 46: Large-Scale Peptide Modification on BioBrick™ Proteins
BBF RFC 47: BioBytes Assembly Standard
BBF RFC 48: Automatic Biological Circuit Design
BBF RFC 49: Draft Characterization Standard for describing Biosensor Sensitivity Tuners
BBF RFC 50: Synthetic Biology Data Transfer Protocol (SB/DTP)
deprecated by authors 5/12/2010 BBF RFC 51: Final Expression Vectors for RFC 10 Expression parts
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