BME100 s2014:T Group9 L4: Difference between revisions
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'''PCR - The Underlying Technology'''<br> | '''PCR - The Underlying Technology'''<br> | ||
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In this lab we learned how PCR is used to detect a disease-associated DNA sequence(SNP). To do this we had to know a nucleotide is an organic molecule that serves as the monomer of nucleic acids like DNA and RNA. We also had to know polymorphism is two or more different phenotypes within the same species. <br><br> | In this lab we learned how PCR is used to detect a disease-associated DNA sequence(SNP). To do this we had to know a nucleotide is an organic molecule that serves as the monomer of nucleic acids like DNA and RNA. We also had to know polymorphism is two or more different phenotypes within the same species. <br><br> | ||
Finding the Disease-Associated Sequence<br> | Finding the Disease-Associated Sequence<br><br> | ||
For this experiment we were given the SNP sequence rs237025. We found the species for this variation is homo sapien. This variation is found on teh chromosome 6:149721690 and the clinical significance was listed as other. This SNP is associated with the genes SUMO4 and TAB2. SUMO4, small ubiquitin-like modifier 4, is located in the cytoplasm of cells and specifically modifies IRBA. The diseases linked to it are type 1 Diabetes, Type 2 Diabetes, nephropathy, and VKH syndrome. <br> <br> | For this experiment we were given the SNP sequence rs237025. We found the species for this variation is homo sapien. This variation is found on teh chromosome 6:149721690 and the clinical significance was listed as other. This SNP is associated with the genes SUMO4 and TAB2. SUMO4, small ubiquitin-like modifier 4, is located in the cytoplasm of cells and specifically modifies IRBA. The diseases linked to it are type 1 Diabetes, Type 2 Diabetes, nephropathy, and VKH syndrome. <br> <br> | ||
Designing a Disease Sequence-Specific Primer Pair<br> | Designing a Disease Sequence-Specific Primer Pair<br><br> | ||
An allele is and alternative form of a gene for a character producing different effects. The non-disease allele contains GTG, whereas the disease-associated allele contains the sequence ATG.<br> | An allele is and alternative form of a gene for a character producing different effects. The non-disease allele contains GTG, whereas the disease-associated allele contains the sequence ATG.<br> | ||
The numerical position of the SNP rs237025 is 149721690. The forward primer needed to design a diseased-allele-specific primer pair is CACCACTTAGTAAACTAATG. The numerical position 200 bases to the right of the disease SNP is 149721890, and the reverse primer for the SNP is CGTAAGAGTTAATCTTTTGA. If the template contains the non-disease allele PCR should not occur. This is due to the disease-specific primer and template not binding 1oo% to the non-disease allele because the non-disease allele had a sequence of GTG, when the disease-assocoated allele has a sequence of ATG. | The numerical position of the SNP rs237025 is 149721690. The forward primer needed to design a diseased-allele-specific primer pair is CACCACTTAGTAAACTAATG. The numerical position 200 bases to the right of the disease SNP is 149721890, and the reverse primer for the SNP is CGTAAGAGTTAATCTTTTGA. If the template contains the non-disease allele PCR should not occur. This is due to the disease-specific primer and template not binding 1oo% to the non-disease allele because the non-disease allele had a sequence of GTG, when the disease-assocoated allele has a sequence of ATG. |
Revision as of 19:03, 2 April 2014
BME 100 Spring 2014 | Home People Lab Write-Up 1 | Lab Write-Up 2 | Lab Write-Up 3 Lab Write-Up 4 | Lab Write-Up 5 | Lab Write-Up 6 Course Logistics For Instructors Photos Wiki Editing Help | ||||||||||||
OUR TEAMLAB 1 WRITE-UPInitial Machine TestingThe Original Design
When we unplugged (part 3) from (part 6), the machine's LCD display turned off. When we unplugged the white wire that connects (part 6) to (part 2), the machine the temperature reading showed as -40 degrees Celsius and showed a wrong reading.
On March 10th, 2014 between the hours of 9am and 12pm, the test run was attempted. 12 runs were completed and the machine passed.
ProtocolsThermal Cycler Program
Research and DevelopmentPCR - The Underlying Technology
In this lab we learned how PCR is used to detect a disease-associated DNA sequence(SNP). To do this we had to know a nucleotide is an organic molecule that serves as the monomer of nucleic acids like DNA and RNA. We also had to know polymorphism is two or more different phenotypes within the same species. Finding the Disease-Associated Sequence Designing a Disease Sequence-Specific Primer Pair
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