Synthetic Biology:Tools

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(Protein Tools)
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===Protein Tools===
===Protein Tools===
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* [http://www.scripps.edu/mb/barbas/zfdesign/zfdesignhome.php Zinc Finger Tools] by Barbas Lab
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*[http://www.scripps.edu/mb/barbas/zfdesign/zfdesignhome.php Zinc Finger Tools] by Barbas Lab
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**Design Zinc Finger DNA binding proteins
*[http://us.expasy.org/ ExPASy Proteomics server]
*[http://us.expasy.org/ ExPASy Proteomics server]
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**links to many pages to calculate parameters of your favorite proteins
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**Collection of links to many pages to calculate parameters of your favorite proteins
===General Tools===
===General Tools===
* [http://parts.mit.edu/ Registry of Standard Biological Parts]
* [http://parts.mit.edu/ Registry of Standard Biological Parts]
*[http://genolist.pasteur.fr/Colibri/ Colibri] ''E. coli'' genome site; get sequences, see the position of your gene in the chromosome, see the function of your gene, and other fun stuff
*[http://genolist.pasteur.fr/Colibri/ Colibri] ''E. coli'' genome site; get sequences, see the position of your gene in the chromosome, see the function of your gene, and other fun stuff

Revision as of 20:28, 17 September 2005

Via this page, we hope to maintain a collection of links to online tools that are related to Synthetic Biology

Contents

DNA Tools

  • Vector NTI by Informax, Inc.
    • Free-to-academics Windows-only tool for sequence analysis and data management.
  • Biopolymer calculator by Schepartz lab
    • Calculate extinction coefficients, Tm's, and base composition for your DNA or RNA; calculate amino acid composition and extinction coefficient for your protein

RNA Tools

  • mFold by Michael Zuker. This is the main page with links to sites for predicting RNA and DNA folds, calculating Tm's and free energies.

Protein Tools

General Tools

Personal tools