User:Scmohr/Documentation Score

< User:Scmohr
Revision as of 16:57, 27 June 2008 by Scmohr (Talk | contribs) (→‎Main Page)

ESSENTIAL ITEMS FOR ALL PARTS

Main Page

Answers the question: "What is it?"

0. Designer/iGEM team.* (1)

1. Part number. (alternatively “Accession number”)* (0)

2. Short name.* (1)

3. Extended name. (alternatively an informative title)* (2)

4. Origin (biological species if available, otherwise name the source: "supplied by __________" or "designed, based on ____________").* (3)

5. A short abstract that tells (a) what the part does (function), (b) how it works (mechanism) and (c) why you made it (purpose).* (3)

6. Dependencies: other parts, special materials, chassis, etc. (if applicable)

Design Page

Answers the question: "How did you make it?"

7. Raison d’être for constructing the part.* Links to related parts from the same project. [Details in addition to those under items (5) and (6).] 8. DNA sequence without the BioBrick ends.* 9. Primers used (if part was created using PCR*). 10. Synthesis details (if part was created by DNA synthesis*). 11. Special design features: (a) insertion/removal of BioBrick cloning sites, (b) codon optimization, (c) reverse orientation, (d) added tags…* 13. Graphical sequence bar with all appropriate feature annotations. 14. One-to-three references to literature* on the part’s biological function and uses in synthetic biology. Frequently there is a key reference reporting on the first use or design of a modified version of the protein (see entries under “Reporters”). If no published references are available, cite other sources used (such as online, open-access textbooks, Open Wetware pages, etc.) 15. Difficulties/pitfalls encountered in the design process. Unworkable designs, necessary revisions etc. If everything worked exactly as planned, say so!* 16. List all applicable patents and materials transfer agreements (MTAs). [Give link to disclaimer page on IP & iGEM issues.] [edit] Experience Page (How well does it work?) 17. Summary of actual applications to date in originating laboratory.* 18. Measurements or tests of part. Include efficiency. 19. Uploaded data, figures etc. can be put on the Registry wiki and linked here. [edit] Hard Information Page (Reference data) 20. Sequence (FASTA format).* 21. Exact source of the original sequence(s) used to construct the part. GenBank accession number (“VERSION”) and/or “GI” (aka “gi”) number if available. Otherwise any available published sequence or other source of information, including experimental sequence reads (which can be put on the Registry wiki and linked here).* 22. More features (exact details of modified sequences). [edit] POSSIBLE ENHANCEMENTS (Liven it up, use visual materials!) [edit] Main Page 1. Structure cartoon(s). PDB_IDs. 2. Figures relating to the function and/or physical characteristics of the part. (Include forward and reverse efficiencies if known.) [edit] Experience Page 3. Tables of measurements. 4. Figures depicting functional output. 5. Links to additional databases.