Difference between revisions of "Davidson Missouri W/Web tool"
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==The First Page== | ==The First Page== | ||
| + | The initial page begins with an overview of what the tool does and how to use it. There are 3 inputs required from the user: | ||
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| + | # The DNA sequence for the gene to split. | ||
| + | # The '''amino acid''' number where the insertion is desired. The HixC site will be inserted immediately after the given amino acid. | ||
| + | # The choice for an extra nucleotide. Inserting a HixC site amounts to an addition of 38 bases. Unless a 39th base is added, a frameshift will occur since 38 is not a multiple of 3. The nucleotide choice results in either a glutamate or aspartate. | ||
| + | |||
| + | Once the user has entered this information, he or she can then click the 'submit' button to initiate the calculations. | ||
==The Output== | ==The Output== | ||
Revision as of 16:33, 1 July 2007
The gene-flipping mechanism that powers our computer requires the positioning of HixC sites within reporter genes' coding sequences. Through the use of PCR, a gene can be split into two pieces with BioBrick ends attached at the extremities. This allows for the ligation with a HixC site in the middle. Our team has developed a web-based tool to automate the generation of these PCR primers. It also predicts the resultant DNA sequences for the two intermediary parts, the final part, and the resultant polypeptide. By using this program we hope to make the gene-splitting process faster and to remove the potential for human error.
Contents
Tutorial
What follows here is an explanation of how to use the web tool and what it does.
The First Page
The initial page begins with an overview of what the tool does and how to use it. There are 3 inputs required from the user:
- The DNA sequence for the gene to split.
- The amino acid number where the insertion is desired. The HixC site will be inserted immediately after the given amino acid.
- The choice for an extra nucleotide. Inserting a HixC site amounts to an addition of 38 bases. Unless a 39th base is added, a frameshift will occur since 38 is not a multiple of 3. The nucleotide choice results in either a glutamate or aspartate.
Once the user has entered this information, he or she can then click the 'submit' button to initiate the calculations.
