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%