BME100 f2014:Group24 L5

BME 100 Fall 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 Team Name: Erik Parkhurst Name: Connor McCausland Name: Safiya Shaikh Name: Ainsley Pfeiffer Name: Felix Madrid Name: Martin Pelagio Procedures Camera Settings: Type of Smartphone: iPhone 5s Flash: No Flash ISO Setting: White Balance: Exposure: Saturation: Contrast: Calibration 1) Using the switch for the Blue LED, turn on the excitation light. 2) Turn on camera of smartphone and ensure the following settings. Make sure that the flash is inactive, set ISO to 180 or higher, set white balance to auto, set exposure and saturation to the highest setting, and set contrast to the lowest setting. 3)Place the smart phone on the cradle at a right angle from the slide. 4) Adjust the height of the fluorimeter using the plastic trays so that the camera takes a picture of the drop sideways. 5) Ensure that the distance between the smartphone on the cradle and the first two rows of the slide are as close as possible without making the image blurry (at least 4 cm away from the drop). 5) Record the distance between the smart phone cradle and drop. Distance between camera and drop: 6.5 cm Set Up For Smartphone Fluorimeter Solutions Used for Calibration: Procedure for Placing Samples onto the Fluorimeter: 1)Put on fresh pair of gloves 2)Obtain a slide and place the smooth side down in the fluorimeter 3)Place 80 uL drop of SYBR Green I solution on first 2 clear circles in middle of slide 4)On top of the 80 uL drop of SYBR Green I, place 80 uL drop of sample/calibration solution 5)Adjust slide so that the light illuminates the center of the drop and the drop focuses the light on the other side Data Analysis SNP Info & Primer Design Background: An SNP is a single nucleotide polymorphism. SNPs are common DNA sequence variations in which a single nucleotide is different between two members of a biological species. These genetic variations between individuals can result in changes in the phenotypes of individuals. In addition, SNPs also affect how people develop diseases and how they react to medicine. Studying SNPs is important for comparing certain parts of dna with diseases and without diseases. Primer Design and Testing: Non-disease Primer Disease Primer Lab D PCR LAB D What is a nucleotide? It is the basic building block of DNA What is a polymorphism? a common variation of DNA among individuals. What species is this variation found in? Homo Sapiens What chromosome is this variation found on? 21:34370656 What is listed as the Clinical Significance of this SNP? pathogenic What gene is this SNP associated with? KCNW2 What diesease is linked to this SNP? Congentital Long QT syndrome What does KCNE2 stand for? potassium voltage-gated channel Describe the molecular function of this gene: This gene encodes a member of the potassium channel. This member is a small integral membrane subunit that assembles with the KCNH2 gene product, a pore-forming protein, to alter its function. This gene is expressed in heart and muscle. What is an allele? An allele is an alternative form of a gene that is located at a specific position on a specific chromosome. The disease-associated allele contains what sequence? CTC The numerical position of the SNP is: 34370656 Non-disease forward primer (20nt): CAT GGT GAT GAT TGG AAT GT The numerical position exactly 200 bases to the right of the disease SNP is 34370856 Non disease reverse primer: CCC TTA TCA GGG GGA CAT TTT Disease forward primer: CAT GGT GAT GAT TGG AAT GC Disease reverse primer (20nt): CCC TTA TCA GGG GGA CAT TT