Team:USTC-Software

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    <title> USTC-Software Home</title>
 
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    <meta name="Description" content="Our teammates have designed a software to help the  synthetic biologists work more efficiently
 
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in the summer holiday.we enjoyed igem ,we enjoyed the competition ">
 
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                        <div class="camera_caption fadeFromBottom"><em>Take a gNAP before wearing your gloves!<br/>Genetic Network Analyze and Predict</em></div>
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<h1>Welcome to our wiki!</h1>
 
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                    <div data-thumb="https://static.igem.org/mediawiki/2013/9/9f/USTC-Software-main2s.jpg" data-src="https://static.igem.org/mediawiki/2013/1/15/2.jpg">
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                        <div class="camera_caption fadeFromBottom"><em>The sketch and final GUI of gNAP!</em></div>
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    <div data-thumb="https://static.igem.org/mediawiki/2013/4/4a/USTC-Software_1.jpg" data-src="https://static.igem.org/mediawiki/2013/c/c4/USTC-Software_1.png">
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            <div class="camera_caption fadeFromBottom"> <em>USTC-Software —— The unicorn consists "USTC".</em> </div>
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                        <div class="camera_caption fadeFromBottom"><em>We compare the result of our software with gene expression profile in literature.</em></div>
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            <div class="camera_caption fadeFromBottom"><em>Having discussion with iGEM Software co-head judge, Gil Alterovitz.</em></div>
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                        <div class="camera_caption fadeFromBottom"><em>We are USTC-Software!</em></div>
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            <div class="camera_caption fadeFromBottom"> <em>Team members were working.</em>           </div>
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    <div data-thumb="https://static.igem.org/mediawiki/2013/e/e0/USTC-Software_4.jpg" data-src="https://static.igem.org/mediawiki/2013/9/9a/USTC-Software_4.png">
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            <div class="camera_caption fadeFromBottom"> <em>What's your opinion?</em>           </div>
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<h2>Overall</h2>
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<p align="justify">Gene Network Analyze and Predict (gNAP) is a software which can model and analyze the change of new GRN constructing after exogenous gene’s import. What’s more, gNAP's reverse analysis based on global GRN gives some advise to experimenters before choosing the imported gene meeting their purpose.</p>
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<h2><span class="head">Software</span></h2>
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<p align="justify"><span style="font-family:Arial, Helvetica, sans-serif;">gNAP, gene network analyze and predict, is our main software which could analyze the input gene’s effects forward and reversely. gFinder, gene finder, is a website software which could find a specific gene in a database by gene’s function of regulation. gRNA, gene regulatory network analysts, is a small game which could improve the children’s ability of network analysis.<br/></span></p>
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        <h1>Description</h1>
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        <p>Synthetic biology has been working on transforming target organisms, which usually means integrating new genes with an available network to achieve a high expression level of certain compounds. Nevertheless, the new-integrated genes are always not the original parts of the target metabolic network, so it is hard to predict how the new genes will affect the network. </p>
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        <p>Our application aims to simulate genetic networks. The application analyzes the stability of genetic networks after introduction of exogenous genes. Meanwhile, given the original network and specific purposes, the application traces the regulative process back and gives possible regulative patterns.</p>
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            <h3>Map</h3>
 
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            <p>Map is a simple and easy software to visualize your experimental data. Click to import the data and you will get exactly what you want.</p>
 
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<h2>Methodologies</h2>
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<p align="justify">In order to simulate the GRN’s working and analyze the changing after exogenous gene imported, some advanced algorithms and classical methods are employed in the software. These algorithms and methods include Binary Tree method, Needle-Wunsch Algorithm, Decision Tree method, Hill Equation and PSO Algorithm.</p>
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            <p>Map is a simple and easy software to visualize your experimental data. Click to import the data and you will get exactly what you want.</p>
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<p align="justify">Our team hope to create a better community for iGEM software, so we <a href="https://2013.igem.org/Team:USTC-Software/collaboration" id="homelink">collaborate</a> with other teams. Open source on github with detailed <a href="https://2013.igem.org/Team:USTC-Software/Project/Develop" id="homelink">API</a> of our source code make our software’s development more easy and convenient. What’s more, to <a href="https://2013.igem.org/Team:USTC-Software/Human_practice" id="homelink">popularize</a> iGEM in our campus, we also give “Hi” from iGEM to all the students and teachers and give their “Hello” back.</p>
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            <div id="ash_container"><h3>Console</h3>
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                  <p>Console is where you manage heavy computing and complex tasks. With different buttons controlling each parameter, you can optimize the behaviors of the software. We applied evolution algorithm and machine learning techniques in the network inferences to provide the best simulation of your data.</p>
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                              <div><span><a href=" ">Read More</a></span></div>
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                        <p>SandBox displays the Genetic Regulatory Networks in a clean and interactive way, with clear connection and 3-D interaction, you will get better understanding of how genes and proteins regulating each other.</p>
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                              <div><span><a href="">Read More</a></span></div>
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Latest revision as of 14:26, 7 November 2013

Header2

Slide

Take a gNAP before wearing your gloves! Genetic Network Analyze and Predict
The sketch and final GUI of gNAP!
We compare the result of our software with gene expression profile in literature.
We are USTC-Software!

Home

Overall

Gene Network Analyze and Predict (gNAP) is a software which can model and analyze the change of new GRN constructing after exogenous gene’s import. What’s more, gNAP's reverse analysis based on global GRN gives some advise to experimenters before choosing the imported gene meeting their purpose.

Software

gNAP, gene network analyze and predict, is our main software which could analyze the input gene’s effects forward and reversely. gFinder, gene finder, is a website software which could find a specific gene in a database by gene’s function of regulation. gRNA, gene regulatory network analysts, is a small game which could improve the children’s ability of network analysis.

Methodologies

In order to simulate the GRN’s working and analyze the changing after exogenous gene imported, some advanced algorithms and classical methods are employed in the software. These algorithms and methods include Binary Tree method, Needle-Wunsch Algorithm, Decision Tree method, Hill Equation and PSO Algorithm.

Communication

Our team hope to create a better community for iGEM software, so we collaborate with other teams. Open source on github with detailed API of our source code make our software’s development more easy and convenient. What’s more, to popularize iGEM in our campus, we also give “Hi” from iGEM to all the students and teachers and give their “Hello” back.

Sponsors

Retrieved from "http://2013.igem.org/Team:USTC-Software"