|
|
| (17 intermediate revisions by 4 users not shown) |
| Line 7: |
Line 7: |
| | | | |
| | // set the active page | | // set the active page |
| − | $(".menu_item").eq(1).find("a").eq(0).css("background-color","rgba(200,200,200,0.5)"); | + | $(".menu_item").eq(2).find("span").eq(0).css("background-color","rgba(200,200,200,0.5)"); |
| − | | + | $(".menu_item").eq(2).find(".submenu_item").eq(4).css("background-color","rgba(200,200,200,0.5)"); |
| | }); | | }); |
| | //////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////// | | //////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////////// |
| Line 15: |
Line 15: |
| | <link rel="stylesheet" type="text/css" href="https://2018.igem.org/wiki/index.php?title=Template:SJTU-BioX-Shanghai/interlab_CSS&action=raw&ctype=text/css" /> | | <link rel="stylesheet" type="text/css" href="https://2018.igem.org/wiki/index.php?title=Template:SJTU-BioX-Shanghai/interlab_CSS&action=raw&ctype=text/css" /> |
| | <link rel="stylesheet" type="text/css" href="https://2018.igem.org/wiki/index.php?title=Template:SJTU-BioX-Shanghai/footnote_CSS&action=raw&ctype=text/css" /> | | <link rel="stylesheet" type="text/css" href="https://2018.igem.org/wiki/index.php?title=Template:SJTU-BioX-Shanghai/footnote_CSS&action=raw&ctype=text/css" /> |
| | + | <style> |
| | + | .text img{ |
| | + | width: 90%; |
| | + | |
| | + | } |
| | + | |
| | + | |
| | + | </style> |
| | | | |
| | <!--****************content of the page**************--> | | <!--****************content of the page**************--> |
| Line 28: |
Line 36: |
| | | | |
| | <div class="content_nav_top"> | | <div class="content_nav_top"> |
| − | <img src="https://static.igem.org/mediawiki/2018/d/de/T--SJTU-BioX-Shanghai--content_nav_bac_0.png | + | <img src="https://static.igem.org/mediawiki/2018/c/c3/T--SJTU-BioX-Shanghai--content_nav_top.png"/> |
| − | "/> | + | |
| | <div class="content_nav_logo"> | | <div class="content_nav_logo"> |
| | <a href="" title="return to homepage"><img src="https://static.igem.org/mediawiki/2018/1/17/T--SJTU-BioX-Shanghai--content_nav_logo.png | | <a href="" title="return to homepage"><img src="https://static.igem.org/mediawiki/2018/1/17/T--SJTU-BioX-Shanghai--content_nav_logo.png |
| Line 78: |
Line 85: |
| | | | |
| | <div class="content_nav_bottom"> | | <div class="content_nav_bottom"> |
| − | <img src="https://static.igem.org/mediawiki/2018/2/21/T--SJTU-BioX-Shanghai--content_nav_bac2.png | + | <img class="content_nav_b_bac" src="https://static.igem.org/mediawiki/2018/1/1f/T--SJTU-BioX-Shanghai--content_nav_bottom.png" /> |
| − | "/> | + | <a title="Go to story page" href="https://2018.igem.org/Team:SJTU-BioX-Shanghai/Story"><img class="content_nav_b_story_badge" src="https://static.igem.org/mediawiki/2018/d/d0/T--SJTU-BioX-Shanghai--story_badge.png"></a> |
| | </div> | | </div> |
| | | | |
| Line 101: |
Line 108: |
| | </a> | | </a> |
| | </h2> | | </h2> |
| − | <p>We took part in the Fifth International Interlab Measurement Study which aims to determine if we can reduce lab-to-lab variability in fluorescence measurements by normalizing $\sum_{i=0}^N\int_{a}^{b}g(t,i)\text{d}t$ to absolute cell count or colony-forming units instead of | + | <p>We took part in the Fifth International Interlab Measurement Study that aims to clarify the possibility of reducing lab-to-lab variability in fluorescence measurements through normalizing to absolute cell count or colony-forming units instead of |
| | <span class="footnote_link">OD | | <span class="footnote_link">OD |
| | <span class="footnote"> | | <span class="footnote"> |
| Line 110: |
Line 117: |
| | .</p> | | .</p> |
| | | | |
| − | <!--********************* storage_box template **************************-->
| |
| | | | |
| − | <div class="storage_box">
| |
| − |
| |
| − | <ul class="storage_box_list">
| |
| − | <li class="storage_box_ele">
| |
| − |
| |
| − | <div class="storage_header">
| |
| − |
| |
| − | <p>Your title1</p>
| |
| − | <img />
| |
| − |
| |
| − | </div>
| |
| − |
| |
| − | <div class="storage_text">
| |
| − |
| |
| − | <p>xxx xx xxxx xxx xxx xxx xx xxxx xxx xxxxx xxx xx xxxx xxx xxxxxxxx xx xxxx xxx xxxxxxxx xx xxxx xxx xxxxxxxx xx xxxx xxx xxxxxxxx xx xxxx xxx xxxxxxxx xx xxxx xxx xxxxxxxx xx xxxx xxx xxxxxxxx xx xxxx xxx xxxxxxxx xx xxxx xxx xxxxxxxx xx xxxx xxx xxxxxxxx xx xxxx xxx xxxxxxxx xx xxxx xxx xxxxxxxx xx xxxx xxx xxxxxxx</p>
| |
| − | </div>
| |
| − |
| |
| − |
| |
| − | </li>
| |
| − | <li class="storage_box_ele">
| |
| − | <div class="storage_header">
| |
| − |
| |
| − | <p>Your title2</p>
| |
| − | <img />
| |
| − |
| |
| − | </div>
| |
| − |
| |
| − | <div class="storage_text">
| |
| − |
| |
| − | <p>xxx xx xxxx xxx xxx xxx xx xxxx xxx xxxxx xxx xx xxxx xxx xxxxxxxx xx xxxx xxx xxxxxxxx xx xxxx xxx xxxxxxxx xx xxxx xxx xxxxxxxx xx xxxx xxx xxxxxxxx xx xxxx xxx xxxxxxxx xx xxxx xxx xxxxxxxx xx xxxx xxx xxxxxxxx xx xxxx xxx xxxxxxxx xx xxxx xxx xxxxxxxx xx xxxx xxx xxxxxxxx xx xxxx xxx xxxxxxxx xx xxxx xxx xxxxxxx</p>
| |
| − | </div>
| |
| − | </li>
| |
| − | <li class="storage_box_ele">
| |
| − | <div class="storage_header">
| |
| − |
| |
| − | <p>Your title3</p>
| |
| − | <img />
| |
| − |
| |
| − | </div>
| |
| − |
| |
| − | <div class="storage_text">
| |
| − |
| |
| − | <p>xxx xx xxxx xxx xxx xxx xx xxxx xxx xxxxx xxx xx xxxx xxx xxxxxxxx xx xxxx xxx xxxxxxxx xx xxxx xxx xxxxxxxx xx xxxx xxx xxxxxxxx xx xxxx xxx xxxxxxxx xx xxxx xxx xxxxxxxx xx xxxx xxx xxxxxxxx xx xxxx xxx xxxxxxxx xx xxxx xxx xxxxxxxx xx xxxx xxx xxxxxxxx xx xxxx xxx xxxxxxxx xx xxxx xxx xxxxxxxx xx xxxx xxx xxxxxxx</p>
| |
| − | </div>
| |
| − | </li>
| |
| − |
| |
| − |
| |
| − | </ul>
| |
| − |
| |
| − | </div>
| |
| − |
| |
| − | <!--/********************* storage_box template **************************-->
| |
| | | | |
| | | | |
| Line 187: |
Line 141: |
| | Microorganism: Escherichia coli DH5α strains | | Microorganism: Escherichia coli DH5α strains |
| | </p> | | </p> |
| | + | |
| | | | |
| | <h2> | | <h2> |
| Line 194: |
Line 149: |
| | </a> | | </a> |
| | </h2> | | </h2> |
| − | <p>In order to compare data from different labs, all the teams were asked to follow the protocol provided by iGEM HQ. These can be found at:</p> | + | <p>In order to compare data from different labs, all teams were asked to follow the protocol provided by iGEM HQ, and can be found at:</p> |
| | <a title="https://static.igem.org/mediawiki/2018/0/09/2018_InterLab_Plate_Reader_Protocol.pdf" href="https://static.igem.org/mediawiki/2018/0/09/2018_InterLab_Plate_Reader_Protocol.pdf">2018 Interlab Plate Reader Protocol</a> <br/> | | <a title="https://static.igem.org/mediawiki/2018/0/09/2018_InterLab_Plate_Reader_Protocol.pdf" href="https://static.igem.org/mediawiki/2018/0/09/2018_InterLab_Plate_Reader_Protocol.pdf">2018 Interlab Plate Reader Protocol</a> <br/> |
| | <a title="http://parts.igem.org/Help:Protocols/Transformation" href="http://parts.igem.org/Help:Protocols/Transformation">Protocols/Transformation</a> | | <a title="http://parts.igem.org/Help:Protocols/Transformation" href="http://parts.igem.org/Help:Protocols/Transformation">Protocols/Transformation</a> |
| Line 204: |
Line 159: |
| | </a> | | </a> |
| | </h2> | | </h2> |
| − | <p>Before we took the cell measurements, we made three sets of unit calibration measurements.</p> | + | <p>Before performing cell measurements, we ruled out three sets of unit calibration measurements.</p> |
| − | <p>First, we used LUDOX CL-X as a single point reference to obtain a conversion factor to transform Abs600 data into a comparable OD<sub>600</sub> measurement. The conversion factor turns to be 3.111. </p> | + | <p>First, we used LUDOX CL-X as a single point reference to obtain a conversion factor to transform Abs<sub>600</sub> data into a comparable OD<sub>600</sub> measurement. The conversion factor turns to be 3.111. </p> |
| | | | |
| − | <p>Then, we used a dilution series of monodisperse silica microspheres provided in kit and measured the Abs<sub>600</sub> of them to construct a standard curve of a particle concentration, which allows us to convert Abs<sub>600</sub> to an estimated number of cells.</p> | + | <p>Then, we’ve constructed a dilution series of monodisperse silica microspheres provided in kit and measured the Abs<sub>600</sub> of them. The results were used to construct a standard curve of a particle concentration that allows us to convert Abs<sub>600</sub> to an estimated number of cells.</p> |
| | | | |
| | | | |
| Line 219: |
Line 174: |
| | | | |
| | | | |
| − | <p>Last, we prepared a dilution series of fluorescein provided in kit and measure the fluorescence in our plate reader. By measuring these, we generated a standard curve of fluorescence for fluorescein concentration, which we used to convert the data we measured to equivalent fluorescein concen</p> | + | <p>At last, we’ve prepared a dilution series of fluorescein provided in kit and measure the fluorescence in our plate reader. By analyzing the data, we generated a standard curve of fluorescence for fluorescein concentration, enabling us to convert the data we measured to equivalent fluorescein concentration.</p> |
| | | | |
| | | | |
| Line 231: |
Line 186: |
| | | | |
| | | | |
| − | <p>In cell measurements, we measured the fluorescence and Abs<sub>600</sub> of all devices and blank samples at hour 0 and hour 6. The results are shown below:</p> | + | <p>In cell measurements, we measured the fluorescence and Abs<sub>600</sub> of all devices including blank samples at hour 0 and hour 6. The results are shown below:</p> |
| | | | |
| | | | |
| Line 266: |
Line 221: |
| | <div class="table_in_text"> | | <div class="table_in_text"> |
| | <p class="table_illustration">Table 1. Colony forming units per 0.1 OD<sub>600</sub></p> | | <p class="table_illustration">Table 1. Colony forming units per 0.1 OD<sub>600</sub></p> |
| − | <table style="border-collapse: collapse; "> | + | <table style="border-collapse: collapse;background-color: rgba(241,240,225, 0.7); "> |
| | <tr style="border-top:2px solid #000;"> | | <tr style="border-top:2px solid #000;"> |
| | <th rowspan="2">samples</th> | | <th rowspan="2">samples</th> |
| Line 327: |
Line 282: |
| | </a> | | </a> |
| | </h2> | | </h2> |
| − | <p> According to our data, device 4 showed the best fluorescence results, much better than the positive control. Device 1 was the second one with the highest emission. Device 3 showed lowest fluorescence emission, even lower than the negative control. Compared to the strength of all 6 devices’ promoter provided on the http://parts.igem.org/Part:BBa_J23101, we found that device 5 showed a rather low emission which was not consistent with the efficiency of its promoter. Since there were some problems with the transformation of device 5 from the very beginning, so probably the low fluorescence emission has something to do with the plasmid sequence. </p> | + | <p> According to our data, device 4 has shown the best fluorescence results which are even better than positive control while Device 1 was the second highest. On the contrary, Device 3 showed lowest fluorescence emission and even lower than negative control. Comparing with the strength of all 6 devices’ promoter provided on the <a title="" href="http://parts.igem.org/Part:BBa_J23101">Part: BBa_J23101</a>, we found that device 5 showed a rather low emission which was not consistent with the efficiency of its promoter. Since there were some problems with the transformation of device 5 from the very beginning, so it is possible that the low fluorescence emission has something to do with the plasmid sequence. </p> |
| − | <p>As for the conversion factor from OD to CFU, it is 9.51×108 CFU/mL in samples whose OD600 is 1 and Abs600 is 0.321 according to the conversion factor between OD600 and Abs600 while from the particle standard curve we obtained from the 2nd calibration experiment, the numbers of particles in samples whose Abs600 is 0.321 should be around 1.43×108. So there is still some difference between CFU and absorbance of cells in terms of computing the number of cells. | + | <p>As for the conversion factor from OD to CFU, we reach to the ratio of 9.51×10<sup>8</sup> CFU/mL in samples with OD600 = 1. And according to the conversion factor we calculated between OD<sub>600</sub> and Abs600, when OD<sub>600</sub> = 1, the corresponding Abs<sub>600</sub>=0.321. And based on the particle standard curve we obtained from the 2nd calibration experiment, the numbers of particles in samples with Abs<sub>600</sub> = 0.321 should be around 1.43×10<sup>8</sup>. So there is still difference between CFU and absorbance of cells in terms of computing the number of cells. </p> |
| − | </p> | + | |
| | | | |
| − | <!--********************************* end of .text ************************************--> | + | <!--***************************end of .text***************************************--> |
| | </div> | | </div> |
| | | | |
| | | | |
| − | <!--******************************** end of .context ***********************************--> | + | <!--*********************************end of .content_text*****************************--> |
| | </div> | | </div> |
| | | | |
| Line 348: |
Line 302: |
| | <div class="zoom_out_box"> | | <div class="zoom_out_box"> |
| | <div style="display: flex;flex-direction: row;justify-content: center;align-items: center;width:100%;height: 100%;"> | | <div style="display: flex;flex-direction: row;justify-content: center;align-items: center;width:100%;height: 100%;"> |
| − | <div style="width: auto;height: auto;"> | + | |
| | <div class="zoom_out_album"> | | <div class="zoom_out_album"> |
| | <img id="zoom_out_img"/> | | <img id="zoom_out_img"/> |
| | <p class="fig_illustration"></p> | | <p class="fig_illustration"></p> |
| − | <img class="close_icon"/> | + | |
| | </div> | | </div> |
| − | </div> | + | |
| | </div> | | </div> |
| | </div> | | </div> |
| | + | |
| | | | |
| | | | |
| | | | |
| − | <!--***************************This is the end of the content***********************************--> | + | <!--***************************This is the end of the content***********************************--> |
| | </div> | | </div> |
| | + | |
| | | | |
| | <div id = "footer"> | | <div id = "footer"> |
