Analysis and Interpretation of “Kraken” Protein Sample

2. Introduction (Background)- Introduce your scenario as if it happened to you; introduce background information. Be creative and add more details to the plot of your scenario. Do not mention Lance finishing your project for you. Part of this section should be dedicated to your scenario and part should be dedicated to the scientific aspects of your project.

Some scientific questions to answer:
• Why are we using proteomics? Give background over proteomics. What is SDS PAGE? How does SDS PAGE separate proteins?
• How does a Bradford assay work?
• What is actin and myosin? Why are they used as our controls?
• What is the kaleidoscope and unstained protein standards?
• Why did you dilute your samples for SDS PAGE? What method did you use to prep your samples? Give background over sample prep and why you choose your method over

You are not limited to these questions. You have lots of relevant information from the background section of your manual, and you can use outside scientific resources. There is also kit inserts posted on canvas. This section should be a few paragraphs long.

3. Experimental Objectives (Purpose of the experiment, hypothesis, objectives) – Why did you do the project as a whole? Why did you do each step of the project (SDS-PAGE, sample prep, calculations, cladogram, controls,etc..)? What is the purpose of each step? Why did you use the actin and myosin standards? Why did you use the kaleidoscope and unstained protein standards? Your purpose and hypothesis must be specific to your scenario. Your hypothesis tells the audience what you think your Creature is before starting the experiment.

4. Experimental Approach (Methodology) – Paragraph format of the protocols you used for this project: Sample Prep, Bradford assay, Concentration Calculations, SDS- PAGE, and Cladogram.

All protocols must be in paragraph format. You may copy your protocols word for word, but you must cite all your sources in your References section, even the manual and the documents from canvas. Do not write numbered or bullet point steps. Do not write all protocols together, as one long paragraph. Separate them into subsections, with titles so that the information is neatly organized. You can choose to either include your own calculation or the ones provided by lance in the packet but keep it consistent with the standard curve.

5. Results (Data) This section should include your labeled standard curve, gel image, and cladogram.

Each image, table or graph should be labeled with a title and a 1-2 sentence description. Your gel image must be edited with image lab. Each lane on your gel should be labeled. You can choose to include your own standard curve or the one provided by Lance in the packet he ran of your scenario but keep it consistent with the calculations. Do not go into details about your results, that is for the analysis section.

6. Analysis of Results (Discussion)- More detailed description of your results.

What does your standard curve imply about your standards and concentration from the Bradford assay? Describe your standard curve, gel image and cladogram in more details than your label description of your results. Are there matching bands in your gel? For which samples? What weight in kDa are the bands when comparing to your ladder (unstained and kaleidoscope standards)? Do any of the bands match the actin and myosin samples? What does this imply about the presence of actin and myosin in your samples? What does your control working imply about your gel? Why did you use decide to make your cladogram in that order? Include the table you made from your gel image to construct your cladogram. The unstained and kaleidoscope standard sizes are pictured below (figure 1).

7. Data Interpretation (Conclusion) – Briefly summarize all other sections of your report.

Answer audience’s final questions:
• What do all your results show together? What is your species most closely related to?
• What is the significance of your results? What does it imply regarding your scenario? Who would find it valuable?
• Was your hypothesis right or wrong?
• What do you think went right or wrong with your project? What would you change or repeat again?
• Do you feel like your cladogram accurately ranked the species by relatedness? If you don’t think it did, why do you feel like your cladogram came out the way it did?
• Wrap up your report and tie everything together.
• What would be the future steps? Final points? What are you going to do with this new information?

8. Literature References- Site all your sources

I do not mind what format you choose to use to site your sources, but make sure to keep it consistent throughout your report. Site your lab manual, biorad image lab, protocol kit inserts, videos and any outside sources you used to write your background information or any other section in your report.

9. Format: 4 to 6 pages ideally. 1.5 line spaced, 1-inch margins, 12-font size (Arial or Helvetica) – It can be over 6 pages but do not go under 4 pages