Difference between revisions of "Part:BBa K4245208:Design"
 
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Lambert iGEM found three specific miRNAs — hsa-miR-1-3p (<partinfo>BBa_K4245006</partinfo>), hsa-mir-133a-3p (<partinfo>BBa_K4245009</partinfo>), and hsa-miR-208a-3p (<partinfo>BBa_K4245011</partinfo>)— to be upregulated in correlation to CAD (Kaur et al., 2020). For hsa-miR-208-3p, we designed two complementary arms, <partinfo>BBa_K4245105</partinfo>, the 3' arm for hsa-miR-208a-3p and <partinfo>BBa_K4245112</partinfo>, the 5' arm for hsa-miR-208a-3p. For the reporter, we decided on <partinfo>BBa_K3380153</partinfo>, the Broccoli fluorescent RNA aptamer, for its short length and function similar to GFP. In order to stabilize the folding of the Broccoli fluorescent RNA aptamer, we added <partinfo>BBa_K4245160</partinfo>, the padlock spacer sequence.
 
Lambert iGEM found three specific miRNAs — hsa-miR-1-3p (<partinfo>BBa_K4245006</partinfo>), hsa-mir-133a-3p (<partinfo>BBa_K4245009</partinfo>), and hsa-miR-208a-3p (<partinfo>BBa_K4245011</partinfo>)— to be upregulated in correlation to CAD (Kaur et al., 2020). For hsa-miR-208-3p, we designed two complementary arms, <partinfo>BBa_K4245105</partinfo>, the 3' arm for hsa-miR-208a-3p and <partinfo>BBa_K4245112</partinfo>, the 5' arm for hsa-miR-208a-3p. For the reporter, we decided on <partinfo>BBa_K3380153</partinfo>, the Broccoli fluorescent RNA aptamer, for its short length and function similar to GFP. In order to stabilize the folding of the Broccoli fluorescent RNA aptamer, we added <partinfo>BBa_K4245160</partinfo>, the padlock spacer sequence.
 
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<b>References</b>
 
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Kaur, A., Mackin, S. T., Schlosser, K., Wong, F. L., Elharram, M., Delles, C., Stewart, D. J., Dayan, N., Landry, T., & Pilote, L. (2019). Systematic review of microrna biomarkers in acute coronary syndrome and stable coronary artery disease. Cardiovascular Research, 116(6), 1113–1124. https://doi.org/10.1093/cvr/cvz302
 
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Nilsson, M., Malmgren, H., Samiotaki, M., Kwiatkowski, M., Chowdhary, B. P., & Landegren, U. (1994). Padlock probes: Circularizing oligonucleotides for localized DNA detection. Science, 265(5181), 2085–2088. https://doi.org/10.1126/science.7522346
 
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===Source===
 
===Source===
  
 
===References===
 
===References===
 +
Kaur, A., Mackin, S. T., Schlosser, K., Wong, F. L., Elharram, M., Delles, C., Stewart, D. J., Dayan, N., Landry, T., & Pilote, L. (2019). Systematic review of microrna biomarkers in acute coronary syndrome and stable coronary artery disease. Cardiovascular Research, 116(6), 1113–1124. https://doi.org/10.1093/cvr/cvz302
 +
Nilsson, M., Malmgren, H., Samiotaki, M., Kwiatkowski, M., Chowdhary, B. P., & Landegren, U. (1994). Padlock probes: Circularizing oligonucleotides for localized DNA detection. Science, 265(5181), 2085–2088. https://doi.org/10.1126/science.7522346

Latest revision as of 16:43, 13 October 2022


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Design Notes

hA padlock probe, which is often 30-150 nucleotides in length, is a single-stranded DNA sequence designed to recognize a specific target sequence. The “arms” of a padlock probe are the ends of the ssDNA that are complementary to a specific target sequence. The middle sequence (the sequence between the arms) can be specifically designed to perform a function once amplified. (Nilsson et al., 1994)
Lambert iGEM found three specific miRNAs — hsa-miR-1-3p (Status: 500 Content-type: text/html

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), hsa-mir-133a-3p (Status: 500 Content-type: text/html

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), and hsa-miR-208a-3p (Status: 500 Content-type: text/html

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)— to be upregulated in correlation to CAD (Kaur et al., 2020). For hsa-miR-208-3p, we designed two complementary arms, Status: 500 Content-type: text/html

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, the 3' arm for hsa-miR-208a-3p and Status: 500 Content-type: text/html

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, the 5' arm for hsa-miR-208a-3p. For the reporter, we decided on Status: 500 Content-type: text/html

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, the Broccoli fluorescent RNA aptamer, for its short length and function similar to GFP. In order to stabilize the folding of the Broccoli fluorescent RNA aptamer, we added Status: 500 Content-type: text/html

Software error:

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Global symbol "$groups" requires explicit package name at /websites/parts.igem.org/cgi/lib/User.pm line 84.
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, the padlock spacer sequence.

Source

References

Kaur, A., Mackin, S. T., Schlosser, K., Wong, F. L., Elharram, M., Delles, C., Stewart, D. J., Dayan, N., Landry, T., & Pilote, L. (2019). Systematic review of microrna biomarkers in acute coronary syndrome and stable coronary artery disease. Cardiovascular Research, 116(6), 1113–1124. https://doi.org/10.1093/cvr/cvz302 Nilsson, M., Malmgren, H., Samiotaki, M., Kwiatkowski, M., Chowdhary, B. P., & Landegren, U. (1994). Padlock probes: Circularizing oligonucleotides for localized DNA detection. Science, 265(5181), 2085–2088. https://doi.org/10.1126/science.7522346