Hi everyone, welcome back to the meme blog with a little bit of protein research on the side. To start off today I would like to introduce you to a Youtuber than turned into a meme god, IdubbbzTV. Originally a man with humble beginnings, Ian Carter started off his career in Kickstarter reviews and Bad Unboxing. But with the introduction of Content Cop, Ian's jokes and gags reached a new height as he dived into sewers and started throwing things erratically.In terms of today's research blog post, I will have to provide a timeline accurately displaying my plan for the implementation of my research. I just turned in my research proposal, so now would be the perfect time to expand on the timeline I have.
First off I am meeting with Dr. Ozkan, PSF 3rd Floor fam and my consultant. In an Ideal world my research would start like this.
Jan 2: Meet with Dr. Ozkan
Jan 2: Gain access to the ASU supercomputer, select proteins, prepare them, and start the initial REMD trials through the ASU supercomputer with PRS (brownian kicks)
Jan 3-5: Troubleshoot the failures in the computer program that will arise due to a lack of knowledge or bug in the system. (Has happened almost every time I have ran trials)
Jan 10: Download the data from the computer and meet with Dr. Ozkan again to verify the results. Analyze the DFI profiles and determine the functional sites of the protein and how they change with mutations. The analysis will be managed here. DFI tracks the movement of each amino acid after a perturbation is run through the molecule. A matrix is generated, and then I analyze the changes in structure to determine the most important mechanisms. I am a little unclear on how to search for these mechanisms, so I will have to reread the ending of a couple of papers and consult with Dr. Ozkan, but I do know that it is mainly determined by the computer so there won't be a need for quantitative analysis.
Jan 11: Repetitions if necessary, and maybe more active sites (determined by Rheostat Toggles)
My research should not take too long. However, this is based on the assumptions the trials will run smoothly and end under a week. There may be technical difficulties, but I believe the trials can be finished by late January, early February.
Ashwath,
ReplyDeleteIt sounds like you have a pretty clear plan for how your research will progress. I think it is great that you have a timeline for a completely smooth ride where nothing goes wrong but you also address the possibility of things not going exactly as planned. It sounds like, even with errors, you should be able to get it done with plenty of time to analyze the data and write up the rest of your paper. I'm excited to see where your research goes.
Washcloth,
ReplyDeleteI think it's good that you have dates set out for all of your research collection and everything, but I'm going to second Max's concerns about difficulties or things not going as planned. It sounds like you've given yourself enough time to fix whatever goes wrong, but maybe consult with your supervisor to talk about what could go wrong and figure out how to work around it in advance?
Overall, looks really good!