Archive for July, 2006


Peptide Calculator

My labwork currently has quite a bit in common with various peptide/protein studies; in order to perform a lot of repetitive calculations, I had originally planned on writing a javascript peptide mass calculator, which I even started on. However, it seems that someone beat me to the punch, by upwards of 8 years. I might still write up my own because I need to hone my javascript skills, and my particular project requires something specific, but it’s both nice and sort of disappointing that it already exists. The calculator even calculates MH+ for those of you out there who like I do a lot of mass spec work. Check it out.

William

And it’s off to work we go . . .

My post-doc Bo Tan is back in the lab, so it’s off to work again, and finally. I’ve been running around re-optimizing my VB mass spec search program for the past two weeks now, and though I love computers, it gets old after a while, and a little wetwork now and then is always a welcome reprieve (eek!, don’t shoot me!). Anyways, I’m back to running mass specs, etc., analysizatinglying data, and I’ve even getting started on my own project! Unfortunately, details about my project are a big no-no on a publicly available website like this, at least before publication. All I can say is that it has to do with the chemicals that transmit pain. So if you ever need a torture device . . . you know where to look.

A happy lab lackey.

Ending and Beginning

Well, I know that about graduation time, blogs across the United States are chock full of entries like this upcoming one, but like so many other teenagers, I mustn’t be afraid of letting go.

This past Friday, I went to the graduation party of Elfi (actually, Sara), a very close friend, probably the one whom I’m known for the longest time (ever since I moved to Huntingburg, IN in the 8th grade). The event was held at Lincoln Park, a state park in Southern Indiana, and the activities of the day were fairly routine, a little volleyball (after some trouble setting up the net), some cards, some food, lots of talking around a fire, and some ‘coons. However, despite the fact that I had literally tons of fun (well, not literally), there’s always that recognition that everyone moves on, especially since several of my friends at that party, including Elfi and Baker (I think I will start calling you that now Chris, lol) are soon to be off and away, to colleges of their own. Sometimes I sort of wonder how often we’ll meet again, and how much more different we’ll be when that occurs, seeing as all of us are already moving in different directions.

Anyways, something brighter, I was literally (really literally this time) less than an inch away from a racoon several times this past Friday night. Zach, Elfi’s current boyfriend, is not allowed to sleep in the same building as she, so Beier (hmmm, just last names is an interesting way keep track of friends, especially when one has two by the name of Jared or Jarrod) and I kept him company outside by the fire. However, several ‘coons decided to come poking around the site, and at times they poked my socks and hood. We also had a bit of excitement when a ‘coon decided to take Zach’s shoe; it was a short but fun chase. All in all, a very good time.

Comic tragedies have to effectively transition from loud and outrageous to the theme of despair and dying constantly. Unfortunately, I’m not that good at transitions, so I’ll just talk about the Thompson family’s visit normally. Jared likewise is graduating, and is attending UE this coming fall; I might see him again before he heads off to pursue his Entrepreneurship degree, but it’s just the idea that we are parting as who we are now for the last time. Of course, that’s always true, since we’re never the same person from a day to the next, but the change is incredibly exacerbated whenever we move from one stage of our lives to another, such as going from high school to college.

Still, we did have a couple good games of billiards, and I managed to beat Jared and his father at a game of cutthroat. Also, playing with audio editing reminds me of the time I went to help Jared fix his computer (quite a day, that was). We had dumplings for supper, and on Jared’s suggestion, his sister Missy, Jared, my sister Ching, and I went skating at the Jasper Skate Palace (one of Jared’s sites of employment). And marvelously, after a couple dozen crashes, I am now a proud possessor of the backwards-skating skillset (awkward wording intended), though I lag far behind Jared, who is seriously looking at jam-skating. Yet another end.

If you read the title, you might be wondering where the beginning comes into play. Well, this past Sunday, my entire family went to visit my brother Ming’s girlfriend (no, fiance) Chelsea’s family the Pattersons. They have a really nice family. Chelsea has one living younger sister, who has one 2 1/2 year old daughter (out-of-wedlock), an incredibly cute little kid who loves books (she practically crawled all over my Peterson’s field guide to insects; pun intended). The midday meal was prepared by Ming and Chelsea, and it turned out surprisingly well, and Chelsea’s parents are very kind and good-natured, although a bit politically too conservative for my personal taste, although it fits well since my parents and older brother are all that way. Their wedding is probably going to be on the 14th of October, a day after my birthday, which is going to be the first wedding I’ll ever have attended. So hence it begins.

A pensieve boy

VB Short-circuits

I’ve been doing a lot of Visual Basic 6 programming the past month, working on a mass spec data analyzation algorithm. Unfortunately, it involved lots of really repetitive math, having to do the same set of calculations, with the same values, upwards of a thousand times. However, caching is out of the question since the entire set of values is easily in the upwards of a half dozen gigabytes, which I definitely do not have in RAM. Anyways, that problem’s not yet been completely solved, but the thing I was going to mention is that VB 6 really stupidly checks both conditions of the Boolean AND even when the first condition is found to be false, and checks both conditions of the Boolean OR even when the first condition is found to be true. It would be far more processor efficient to “short-circuit” the checking if a condition is found that resolves the final condition without checking the other condition. VB .Net addresses this issue by implementing two new functions, AndAlso and OrElse. However, in VB6, to program efficiently, what is necessary is to implement a nested If function, or something of the like. Really useful to discover that, as it potentially can speed up that portion of code by over a factor of 2. Hope this helps someone.

Drowning in VB code

Orchestra Concert

You know how sometimes you don’t quite recognize that you’re really missing something until you get a taste of it again? Well, at any rate, away from the second person, I get that feeling occassionally, especially nowadays with regards to music. Whenever I go to a band/orchestra concert or recital, I always feel sort of down that music has had to go on the back-burner to my academic life. Sadly enough, I haven’t been able to invent a time dilation machine yet, so I’m still limited to 24 hours to parcel out to the various demands on my time. Well, time management is an essential skill to learn, and I guess now’s as good a time as any.

Anyways, onto cheerier matters, the Symphony Orchestra of the Indiana University School of Music, under the direction of Cliff Colnot, played The Enchanted Lake, Op. 62 by Anatoli Liadov and Symphony No. 5, Op. 47 by Dimitri Shostakovich. Among my favourites were the middle of the 1st movement and the 4th movement of the Shostakovich symphony. A friend of mine by the name of Jenna whose knowledge of orchestral works is far greater than mine, sincerely enjoyed also the 4th movement. The Enchanted Lake was enjoyable, but not exceptional. Much kudos to the Symphony Orchestra for successfully pulling that off.

Not quite a musician anymore

Save the Internet!

The 1st amendment prohibits the abridging of the freedom of the press. The World Wide Web has dramatically lowered the cost of operating a “press” to a threshhold manageable by the majority of Americans. Some interested parties are attempting to undermine the foundation of “net neutrality,” the idea that any person should be able to publish a webpage and have the same theoretical chance of being viewed as a major corporation. Take action now by signing a petition to prevent this event from coming to pass.

Remember: the Internet depends on YOU!

Bicycle trouble

Sadly, something rather untowards happened this past weekend: I decided to inadvertantly ride head-on into an unseen curb. Tends not to be too much fun to flip one’s bike over; also tends to be a problem when the fork of the bike gets bent, such that turning causes the wheel to hit one’s shoes.

Earlier this evening I purchased a new bike from Target for $57 USD, but it has turned out to be a rather unfortuitous purchase; before I even made my way back to my summer sublet, it broke down once on a major road, decided that the highest front gear would not be available, and that moderate speeds would provide the energy for some rather interesting wobbling. As such, it would probably behoove me to return the bike to Target, and this time spend perhaps a bit more money in order to better solve my transportation dilemma. Hopefully, this next purchase will be more lasting.

A disgruntled customer

Hello world!

Well, there’s not really all that much to say; I’ve tried the whole blogging thing several times before in the past, but it just never seemed to fit me; here I am for round 3. Let’s have at it.

Somewhat of a departure from previous weblogs, this blog won’t be focused solely on me; I’m going to try also to comment on other world events, interesting quirks on the Internet, etc. Now that I’ve said, that . . . a little about me:

I’m currently extremely focused on my neuroscience research; while not at liberty to go into the details, suffice it to say that I’m doing studies on nociceptive neurotransmitters, using a mass spec approach coupled with combinatorial bioinformatics. If that made no sense, don’t worry; it means you’re not crazy like some people. In simpler terms, I’m studying chemical transmitters of pain in mammalian nervous systems. It’s really quite fascinating

I would recommend anyone interested in neuroscience to read Biopsychology by John P. Pinel. It’s an amazing book, with lots of neat little demonstrations, especially in the chapter on the visual system. Check it out.

So finishes my first fallible foray into non-egocentric blogging.

William

Powered by WordPress. Theme: Motion by 85ideas.
Copyright © 2006-2010 Free2Fall.net. All rights reserved.