Team:VT-ENSIMAG/Notebook

From 2010.igem.org

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{{Template:Team:VT_Ensimag_2010-Biosecurity/Templates/main|Safety page| content=
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__NOTOC__
__NOTOC__
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The entire focus of the VT-ENSIMAG Biosecurity team is on safety and security. Since our software does not construct or assemble BioBricks, it does not pose any direct threats to the environment, researchers or the public. However, our projects addresses the threats posed by synthetic biology and potentially dangerous iGEM projects. <br>
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=June=
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==June, 1st to June, 7th==
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'''Begining of the intership'''
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* Meeting of the team
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* Installation in the team's room in Virginia Bioninformatics Institut
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* Reading and understanding of the government guideline
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* Discovery and adaptation to BLAST
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==June, 8th to June, 15th==
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* Reflexion on the global algorithm [[Image:VTIMAG_Download.png|150px|right]]
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* Download the Genbank database for local version
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* Finding of how to call Blast from the Java code
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Synthetic Biology is a revolutionary, new branch of the life sciences which bridges several disciplines such as biology, chemistry, mathematics, physics and engineering. Its focus rests on the assembly and manipulation of biological systems for novel uses. While synthetic biology may lead to new vaccines and more efficiently produced biofuels, there are drawbacks. The same techniques use to benefit man kind may also be used to create viruses and bacteria with novel or unforeseen capabilities. <br>
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==From June, 15th to end of June==
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[[Image:VTIMAG_Computer.png|140px|right]]
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'''Beginning of the implementation'''
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* Beginning of the software implementation for the software students
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* Beginning of the creation of database for the biologist students
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<br>
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<br>
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=July=
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==From July, 1st to July, 8th==
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'''Continuing the implementation'''
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* Continuing to implement the software for software students
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* Work on the databases for the biologist students
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==From July, 8th to July, 15th==
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* Basic debugging
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==From July 15th, to July, 28th==
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* Debugging, modifications, primary result
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* Development of other versions
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==From July, 28th to end of July==
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Debugging, again and again, and '''begining of tests'''
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* Debugging
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* Creating tests
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* Analysing results
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To a great extent, synthetic biology would not be possible without the technology to inexpensively and efficiently manufacture genes de novo. However, as evidenced by the reconstruction of the 1918 Spanish flu virus in 2005, synthetic genomics is a dual use technology. With millions of sequences available on NCBI-Genbank, it has never been easier to locate dangerous sequences and then produce them at a low cost. <br>
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=August=
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==From August, 1st to August, 13th==
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Our software is capable of efficiently and accurately identifying sequences of concern. We have shown by our results that it is possible to implement the “Best Match” method to screen sequences. If screening software such as ours were to screen all BioBricks before they enter the registry as well as all sequences ordered from gene synthesis companies, the threats posed by synthetic genomics would be greatly mitigated. <br>
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* Tests and anaylses
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* Redaction of the article
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The biosafety officer at Virginia Tech is ______________________.  
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* Beginning of the creation of the iGEM wiki
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==From August, 13th to the end of August==
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Although our software is functional, there is still surely room for optimization and additional functions. To deal with safety issues that could be useful for future iGEM competitions, parts submitted to the Registry could undergo required screening procedures. This step would not preclude the inclusion of sequences of concern in the registry; it would only ensure that those sequences which raise concern are further investigated. The purpose of the Registry of Standard Biological Parts is to facilitate the designing of novel biological parts or systems. Allowing dangerous sequences to be entered into the Registry facilitates the construction of dangerous, new synthetic system and poses an unnecessary risk to iGEM students, synthetic biologists, and the public.
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[[Image:VTIMAG_Wiki1.png|600px|right]]
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'''Screening of the iGEM registry'''
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* End of the intership for American students
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* Screening of the iGEM registry
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* Last tests and results
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* Working on the iGEM wiki
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<br>
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<br>
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<br>
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<br>
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=End of the intership=
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[[Image:VTIMAG_End.png|center|200px]]
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Latest revision as of 03:27, 28 October 2010


VT-ENSIMAG over VT campus long.png

Notebook page




DNAside.png

Home

Our team

Sequence screening

The software: GenoTHREAT

Tests and Results

Screening of the iGEM registry

PCR fusion primer

Lab notebook

Safety

Media Links

Comments

SAIC.jpeg

Mitre.jpeg



June

June, 1st to June, 7th

Begining of the intership

  • Meeting of the team
  • Installation in the team's room in Virginia Bioninformatics Institut
  • Reading and understanding of the government guideline
  • Discovery and adaptation to BLAST

June, 8th to June, 15th

  • Reflexion on the global algorithm
    VTIMAG Download.png
  • Download the Genbank database for local version
  • Finding of how to call Blast from the Java code

From June, 15th to end of June

VTIMAG Computer.png

Beginning of the implementation

  • Beginning of the software implementation for the software students
  • Beginning of the creation of database for the biologist students



July

From July, 1st to July, 8th

Continuing the implementation

  • Continuing to implement the software for software students
  • Work on the databases for the biologist students

From July, 8th to July, 15th

  • Basic debugging

From July 15th, to July, 28th

  • Debugging, modifications, primary result
  • Development of other versions

From July, 28th to end of July

Debugging, again and again, and begining of tests

  • Debugging
  • Creating tests
  • Analysing results

August

From August, 1st to August, 13th

  • Tests and anaylses
  • Redaction of the article
  • Beginning of the creation of the iGEM wiki

From August, 13th to the end of August

VTIMAG Wiki1.png

Screening of the iGEM registry

  • End of the intership for American students
  • Screening of the iGEM registry
  • Last tests and results
  • Working on the iGEM wiki





End of the intership

VTIMAG End.png
ALIEN DNA.png
VT-ENSIMAG logo.png
ALIEN DNA.png
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