Team:HFUT CHINA/Examples.html

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Results

In order to test the performance of our software, we collected about 3600 device chains from Registry of Standard Parts, and extracted the associate relationships among these chains. All these information are stored in our database.

Firstly, we tested the response time of different functions of our software. Table 1 shows the results of different query functions. The results are averaged from 10 independent runs. From the results, we can find that all the time is really short, less than 0.1 seconds.

Table 1 Response time for different functions

Function	Response Time (sec.)
Query of Biobrick information	0.04
Query of Biobrick’s twins	0.03
Ambiguous Query of Biobrick	0.1

We also tested the response time of recommendation. Table 2 listed the results in terms of different number of given biobricks. Since our software recommend biobrick based on at most 4 biobricks’ information. Thus, the maximum number of given biobricks is 4. These times are really short, less than 0.4 seconds. Users could get the recommendation almost instantly. This could greatly reduce the time used for designing.

Table 2 Response time for recommending based on different number of biobricks

Number of Biobricks	Response Time(sec.)
0	0.3
1	0.19
2	0.14
3	0.27
4	0.35

Secondly, we tested the performance of recommendation. 10 device chains were randomly selected for this test. Table 3 shows the results, where the recommendation ratio is the ratio of the number of correctly recommended biobricks over the length of device chains, and the correctly recommended biobricks means these biobricks are in recommended lists. The average recommendation ratio is 75.4%. This ratio actually is really high, since only 24.6% of biobricks are not in the recommended lists.

Device Chain	Correctly recommended biobricks	Recommendation ratio
BBa_R0040-BBa_B0034-BBa_J36835-BBa_J36837-BBa_K283009-BBa_B0010-BBa_B0012	BBa_B0034 BBa_J36837 BBa_K283009 BBa_B0010 BBa_B0012	71.4%
BBa_R0010-BBa_B0030-BBa_K233307-BBa_I732005-BBa_E0040-BBa_B0010-BBa_B0012	BBa_B0030 BBa_K233307 BBa_I732005 BBa_E0040 BBa_B0010 BBa_B0012	85.7%
BBa_J23118-BBa_B0030-BBa_K233306-BBa_I732005-BBa_E0040-BBa_B0010-BBa_B0012	BBa_K233306 BBa_I732005 BBa_E0040 BBa_B0010 BBa_B0012	71.4%
BBa_R0040-BBa_B0034-BBa_K255000-BBa_B0010-BBa_B0012-BBa_R0040-BBa_B0034-BBa_E0030-BBa_B0010-BBa_B0012	BBa_B0034 BBa_B0010 BBa_B0012 BBa_R0040 BBa_B0034 BBa_E0030 BBa_B0010 BBa_B0012	80%
BBa_J23119-BBa_B0034-BBa_C0040-BBa_B0034-BBa_E1010-BBa_B0010-BBa_B0012	BBa_B0034 BBa_C0040 BBa_B0034 BBa_E1010 BBa_B0010 BBa_B0012	85.7%
BBa_J23106-BBa_B0034-BBa_C0012-BBa_B0034-BBa_C0062-BBa_B0012-BBa_B0011	BBa_C0012 BBa_B0034 BBa_C0062 BBa_B0012 BBa_B0011	71.4%
BBa_K145150-BBa_B0034-BBa_K145151-BBa_B0034-BBa_E1010-BBa_B0012-BBa_B0011	BBa_K145151 BBa_B0034 BBa_E1010 BBa_B0012 BBa_B0011	71.4%
BBa_R0040-BBa_B0034-BBa_C0179-BBa_B0010-BBa_B0012-BBa_R0079	BBa_B0034 BBa_B0010 BBa_B0012 BBa_R0079	66.7%
BBa_R0040-BBa_K118012-BBa_I742151-BBa_J15001-BBa_K118002	BBa_I742151 BBa_J15001 BBa_K118002	60%
BBa_I14032-BBa_B0034-BBa_C0062-BBa_B0010-BBa_B0012-BBa_R0062-BBa_J61127-BBa_K228000-BBa_B0010-BBa_B0012	BBa_B0034 BBa_C0062 BBa_B0010 BBa_B0012 BBa_R0062 BBa_J61127 BBa_K228000 BBa_B0010 BBa_B0012	90%

We also use the new designed chains from BIT team to test the performance of our software. Table 4 shows the results. The averaged recommendation ratio is 66.9%. This ratio is smaller than the ratio tested above. The reason is that the new designed chains consist of some new biobricks that the database does not contain. These biobricks are hardly to recommend and effect the recommendation of next biobrick. However, this ratio still proves our software works well even when using new designed biobricks. We could believe that as more and more biobricks and device chains are added into our database, our software could recommend more and more efficiently and accurately.

Table 4 Performance of BioDesigner with BIT’s new designed device chains

Device Chain	Correctly recommended biobricks	Recommendation ratio
BBa_B0034-BBa_C0071-BBa_B0010-BBa_B0012-BBa_R0071-BBa_B0030-BBa_E1010	BBa_B0010 BBa_B0012 BBa_R0071 BBa_E1010	57.1%
BBa_J23100-BBa_B0034-BBa_C0179-BBa_B0010-BBa_B0012-BBa_R0079-BBa_B0030-BBa_E1010	BBa_B0034 BBa_B0010 BBa_B0012 BBa_R0079 BBa_E1010	62.5%
BBa_R0079-BBa_B0034-BBa_E0040-BBa_B0010-BBa_B0012	BBa_B0034 BBa_E0040 BBa_B0010 BBa_B0012	80%
BBa_R0079-BBa_B0030-BBa_E1010-BBa_B0010-BBa_B0012	BBa_E1010 BBa_B0010 BBa_B0012	60%
BBa_J23100-BBa_B0034-BBa_C0179-BBa_B0010-BBa_B0012-BBa_R0079-BBa_B0034-BBa_E0040	BBa_B0034 BBa_B0010 BBa_B0012 BBa_R0079 BBa_B0034 BBa_E0040	75%
BBa_B0034-BBa_C0171-BBa_B0010-BBa_B0012-BBa_R0071-BBa_B0030-BBa_E1010-BBa_B0010-BBa_B0012	BBa_B0010 BBa_B0012 BBa_R0071 BBa_E1010 BBa_B0010 BBa_B0012	66.7%

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      Table 4 Performance of  BioDesigner with BIT’s new designed device chains</p>
    <p>&nbsp;</p>
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+   <table border="1" cellspacing="0" cellpadding="0" style="background-color:#eee">
      <tr>
        <td width="195" height="25" valign="top"><div align="center">Device Chain </div></td>