BME100 f2015:Group9 1030amL6: Difference between revisions
(7 intermediate revisions by 2 users not shown) | |||
Line 111: | Line 111: | ||
<!-- Instructions: In your own words, discuss what the results for calculations 3 and 4 imply about the reliability of PCR for *predicting the development of the disease* (diagnosis). Please do NOT type the actual numerical values here. Just refer to the Bayes values in general terms (for example, "close to 1.00 (100%)", "about 50%", "very small", etc.). --> | <!-- Instructions: In your own words, discuss what the results for calculations 3 and 4 imply about the reliability of PCR for *predicting the development of the disease* (diagnosis). Please do NOT type the actual numerical values here. Just refer to the Bayes values in general terms (for example, "close to 1.00 (100%)", "about 50%", "very small", etc.). --> | ||
Regarding calculation 3, because the Bayes value is close to 30% and is less than 50% accurate, the ability of the PCR to diagnose and predict the development of the disease is not high. This result shows that although the PCR has a higher chance of detecting a disease SNP, it has a lower chance of diagnosis since other facts beyond it’s control can detect proper diagnosis. | |||
In calculation 4, the Bayes value is close to 40% and similar to calculation 3, it is below 50% which further shows that the ability for the PCR to predict the development of the disease is not accurate. | |||
<!-- Instructions: Discuss three possible sources of human or machine/device error that could have occurred during the PCR & detection steps that could have affected the Bayes values in a negative way. --> | <!-- Instructions: Discuss three possible sources of human or machine/device error that could have occurred during the PCR & detection steps that could have affected the Bayes values in a negative way. --> | ||
Three sources of error include: | |||
*misdiagnosis/miscalculations by the teams, which qualifies as a human error since as a team we made conclusions on our respective patient. | |||
*The program ImageJ can only do so much with a given image, and if the image is not good quality, it can produce different numbers which may alter the data and thus altering the conclusion | |||
*Contamination can also affect data, and although measures were taken in order to prevent that, there may have been some contamination that may have affected the data samples. | |||
<!--9. Which Open PCR parts does each of the 3-D files represent? | <!--9. Which Open PCR parts does each of the 3-D files represent? | ||
Line 138: | Line 148: | ||
==Feature 1: Consumables== | ==Feature 1: Consumables== | ||
<!-- Instructions: "Consumables" is a term that biotech professionals and scientists use to describe non-machine supplies such as liquid items like reagents (PCR mix, primer solution, SYBR Green solution, buffer, etc.), plastic tubes, glass slides, etc. Many kits that are on the market include a few *very important* consumables (you can't include everything or else the box would be too large). What does *very important* mean? For instance, if your product includes a re-designed PCR machine with a different heating block that will not fit standard tubes, you may want to include tubes that are manufactured by your company. Summarize which consumables will be packaged in your kit. You may add a schematic image. An image is OPTIONAL and will not get bonus points, but it will make your report look awesome and easy to score. --> | <!-- Instructions: "Consumables" is a term that biotech professionals and scientists use to describe non-machine supplies such as liquid items like reagents (PCR mix, primer solution, SYBR Green solution, buffer, etc.), plastic tubes, glass slides, etc. Many kits that are on the market include a few *very important* consumables (you can't include everything or else the box would be too large). What does *very important* mean? For instance, if your product includes a re-designed PCR machine with a different heating block that will not fit standard tubes, you may want to include tubes that are manufactured by your company. Summarize which consumables will be packaged in your kit. You may add a schematic image. An image is OPTIONAL and will not get bonus points, but it will make your report look awesome and easy to score. --> | ||
Very important consumables regarding PCR machines and any other biotech device is something that is an "additive" to the main device that can be thrown away and swapped for a new one. Since the fluoriotatemeter is the device where the samples are placed to record data the following things will be included in this device: | |||
*glass slides | |||
*plastic tubes | |||
*SYBER Green solution | |||
<!-- OPTIONAL: IF your consumables packaging plan addresses any major weakness(es), explain how in an additional paragraph. --> | <!-- OPTIONAL: IF your consumables packaging plan addresses any major weakness(es), explain how in an additional paragraph. --> | ||
Line 161: | Line 177: | ||
{| {{table}} | {| {{table}} | ||
|- | |- | ||
| bgcolor=#eeeeee | From Dee's Nuts n Bolts, The company that brought you the | | bgcolor=#eeeeee | From Dee's Nuts n Bolts, The company that brought you the Tectonic Sole! || The Fluriotatemeter! | ||
<!-- Do not edit below this line --> | <!-- Do not edit below this line --> | ||
Line 172: | Line 188: | ||
| align="center" style="background:#f0f0f0;"|'''Place''' | | align="center" style="background:#f0f0f0;"|'''Place''' | ||
|- | |- | ||
| | |Customers who buy our product are buying a better functioning fluorimeter that enables the user to take better image data so more accurate conclusions can be made||What makes our product special is that it is more versatile with angles and accuracy in taking pictures that will be used as data for conclusions||Our customers consist of those who are searching for a more accurate and reliable fluorimeter that can help out with the difficulties of conducting an experiment with a regular fluorimeter||Assuming our customers alreadyknow how to use a fluorimeter, our product requires no additional education at all! You just firmly place the camera on the clamp and rotate it to your desired photo angle ||The product can be bought online at Fluorimeter.com, website where all labs get the best fluorimeters|| | ||
|- | |- | ||
| | | | ||
|} | |} | ||
Since propping and aligning the phone was difficult in the fluorimeter used in the PCR lab, the fluoriotatemeter fixes this by enabling more motility and better access to the phone to get data better. |
Latest revision as of 23:58, 24 November 2015
BME 100 Fall 2015 | 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 COMPANY
LAB 6 WRITE-UPBayesian StatisticsOverview of the Original Diagnosis System
Calculation 1
Calculation 2
Calculation 3
Calculation 4
What Bayes Statistics Imply about This Diagnostic Approach
On the other hand, In calculation 2 it describes the probability that given a negative PCR reaction, a patient will receive a negative final test conclusion. Since that probability is close to 90%, this shows that the PCR machine is better manufactured at not detecting a disease SNP rather than vise versa. Due to the fact that this value is closer to 100% makes the machine more reliable, however as stated prior, it is not 100% accurate.
Regarding calculation 3, because the Bayes value is close to 30% and is less than 50% accurate, the ability of the PCR to diagnose and predict the development of the disease is not high. This result shows that although the PCR has a higher chance of detecting a disease SNP, it has a lower chance of diagnosis since other facts beyond it’s control can detect proper diagnosis. In calculation 4, the Bayes value is close to 40% and similar to calculation 3, it is below 50% which further shows that the ability for the PCR to predict the development of the disease is not accurate.
Intro to Computer-Aided DesignTinkerCAD Using TinkerCad was relatively simple after following the step by step tutorials that showcase all the tools possible. TinkerCad is user-friendly and despite being simple, had a variety of options in order to create different things. The first thing we did was follow the tutorial in order to understand the different tools such as zooming, the shapes, and grouping shapes together. After the tutorial, we downloaded Dr. Haynes files in order to begin redesigning the fluorimeter. Dr. Haynes files were much better suited for this particular lab compared to the basic tools given, however, when we were redesigning the fluorimeter so that the camera phone can take better images for data, the other shapes became useful. During the Computer-Aided Design we tried out different options and settled on creating a very mobile attachment to the fluorimeter so that the phone can get the best angle of the data. We used several shapes in order to complete the finished product. It was a bit difficult at first because if the shape is too big, it was hard viewing the whole device when the screen only showed so much.
Our design keeps the basic box-shape of the fluorimeter, however, we have added an attachment (colorful portion) that makes taking down data much easier. The slider, which is in pastel pink, slides in and out of the fluorimeter in order to get as close as needed to the data that is being collected. The purpose of the sliding mechanism is to prevent the user from taking the phone out of the cradle constantly, and enable more mobile movement without disrupting anything. The light blue circles enable rotating ability of the attachment for more movement as well, and similar to a "selfie stick" the blue rod extends when needed in order to optimize the best viewing option. Finally, the light purple portion is where the phone is, and the difference from the OpenPCR design and this is that this design works like a clamp in order to secure the phone steady. On the other hand, in the OpenPCR lab, the cradle was unstable and the phone constantly fell or changed direction with slight movement which is why we opted for a design where we are able to position the phone and keep it at that position without it being moved.
Feature 1: ConsumablesVery important consumables regarding PCR machines and any other biotech device is something that is an "additive" to the main device that can be thrown away and swapped for a new one. Since the fluoriotatemeter is the device where the samples are placed to record data the following things will be included in this device:
Feature 2: Hardware - PCR Machine & Fluorimeter
Since propping and aligning the phone was difficult in the fluorimeter used in the PCR lab, the fluoriotatemeter fixes this by enabling more motility and better access to the phone to get data better. |