Difference between revisions of "Team:TokyoTech/Experiment/Transcriptome Analysis"

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<h1 class="w3-xxxlarge w3-text-red" style="padding-bottom: 10px;padding-top: 10px" align="center">Transcriptome Analysis</h1>
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    <p style="font-family: Poppins;font-size: 16px"><p style="text-indent:1em"> To establish an inter-kingdom communication between human cells and bacteria, signaling molecules were needed. We chose 3-oxo-C8 HSL as a signaling molecule from bacteria to human cells because it could be worked to specific genetically engineered human cells [1]. However, AHLs cannot be synthesized by human cells because of their material. Thus, we conducted transcriptome analysis to explore a proper substance derived from human as a signaling molecule from human cells to bacteria.</p>
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    <p style="font-family: Poppins;font-size: 16px"><p style="text-indent:1em">We checked the difference of transcription between E. coli in normal medium and E. coli in the medium cultured human cells. Surprisingly, there were no significant differences as for the transcription of all genes though that of only a couple of genes were slightly different.  </p>
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    <h1 class="w3-xxxlarge w3-text-red" style="padding-bottom: 10px;padding-top: 10px"><b>Results</b></h1><!-- 小見出し -->
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    <p style="font-family: Poppins;font-size: 16px"><p style="text-indent:1em">This excel file is the data of the transcriptome analysis. The value of E- FDR of the all genes was 1.</p>
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    <p style="font-family: Poppins;font-size: 16px"><p style="text-indent:1em">It is generally that the difference is said to be statistically significant if the value of E-FDR is 0.5 and less. From the results, no genes were activated or repressed by substances derived from human cells. Two genes related to maltose metabolism were transcribed about 1.7-fold higher. This is considered that a substance like maltose is secreted from human cells. However, it is not proper to a signaling molecule because the activation rate is very low. From this result, no substances derived from human are supposed to be used as our ideal signaling molecule. Therefore, we have to explore another substance which works as a signaling molecule.
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    <h1 class="w3-xxxlarge w3-text-red" style="padding-bottom: 10px;padding-top: 10px"><b>Reference</b></h1>
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<div class="w3-light-grey w3-container w3-padding-32" style="margin-top:75px;padding-right:58px"><p class="w3-right">Hajime Fujita:  <a href="96haji.me" title="W3.CSS" target="_blank" class="w3-hover-opacity">All Rights Reserved</a></p></div>
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Revision as of 05:14, 29 October 2017

<!DOCTYPE html> Coli Sapiens

iGEM Tokyo Tech

Transcriptome Analysis

Introduction

To establish an inter-kingdom communication between human cells and bacteria, signaling molecules were needed. We chose 3-oxo-C8 HSL as a signaling molecule from bacteria to human cells because it could be worked to specific genetically engineered human cells [1]. However, AHLs cannot be synthesized by human cells because of their material. Thus, we conducted transcriptome analysis to explore a proper substance derived from human as a signaling molecule from human cells to bacteria.

Summary

We checked the difference of transcription between E. coli in normal medium and E. coli in the medium cultured human cells. Surprisingly, there were no significant differences as for the transcription of all genes though that of only a couple of genes were slightly different.

Results

This excel file is the data of the transcriptome analysis. The value of E- FDR of the all genes was 1.

Discussion

It is generally that the difference is said to be statistically significant if the value of E-FDR is 0.5 and less. From the results, no genes were activated or repressed by substances derived from human cells. Two genes related to maltose metabolism were transcribed about 1.7-fold higher. This is considered that a substance like maltose is secreted from human cells. However, it is not proper to a signaling molecule because the activation rate is very low. From this result, no substances derived from human are supposed to be used as our ideal signaling molecule. Therefore, we have to explore another substance which works as a signaling molecule.

Reference

Hajime Fujita: All Rights Reserved