Category Archives: Science

Science

Silicon Nanowires Can Detect Cancer

A new article in Nature Biotechnology (abstract) describes

… highly sensitive, label-free, multiplexed electrical detection of cancer markers using silicon-nanowire field-effect devices …

built into arrays. As the article about the paper on medicalnewstoday.com discusses, the sensitivity and accuracy of this technology is supposed to be phenomenal. The potential of this is incredible — routine blood tests for cancer! This would make it much easier to catch cancer early, before it does irreversible damage, reducing not only the expense, but also the mortality of cancer occurrences.

As Nature is not an open access journal, I unfortunately have yet to actually read the paper. I might have had access to it via Tulane, but since their servers are still down, I don’t. Would anyone care to send me a pdf?

Note, found this via Slashdot

Ain’t got nothin’ but time

I’m still up at Larsmont, near Two Harbors, MN (check the ‘Posted from here’ link on the main page for the GPSed location). I’ve been trying to get work done, but without any kind of schedule, or even a framework of a schedule, and outside my normal environs, I’ve had a hard time getting work done.

I ended up trying to get work done all day, but being frequently distracted. This led to me trying to ‘catch up’ in the evenings, or whenever, and caused me to be tired, frustrated, and irritable.

After a discussion with Amanda over my sanity and productivity, I decided to start working a regular schedule. For the past three days, I’ve been working 08:00 – 12:00 and 13:00 – 17:00. This gives me a solid 8-hour work schedule and leaves time for some rest and relaxation in the evenings, as well as a nice, 1-hour lunch break.

This has helped increase my productivity, and more importantly, has done something to save my sanity. However, even within a scheduled work time, it’s easy to be distracted, to let breaks run a bit too long, and so on. In order to keep myself mindful of my time use, I’ve started using a program called KArm. It’s part of the KDE personal information management module, and fortunately runs on Mac OS X as well as various flavors of Linux, BSD, etc… With KArm, I’ve been logging time on a per-project basis, as well as break time, personal logistics (i.e. calling and cancelling my cable service since I don’t have an apartment), and work logistics (i.e. securing access to other labs’ computing resources). It turns out I take a lot of breaks. It’s nice to have it logged, so that I can watch the little minute counter rise as I slack off. I have about 20 minutes left of ‘work time’ today, but here’s where things stand right now (today’s time only):

Task Time
AscendingRamp 2 min
Break 2 hrs 1 min
MagfemVerification 1 hr 19 min
Personal Logistics 1 hr 44 min
Work Logistics 57 min
Regional Ischemia Paper 1 hr

The paper writing is tough. I’m making it a requirement that I do a minimum of 1 hour’s work on the paper every day. Otherwise, it’ll be avoided and procrastinated to oblivion. Note that break time outweighs all other items, with personal logistics coming in at a close second. I’m working on it.

The AscendingRamp time is misleading — I’ve probably spent close to 10 minutes on the project, but that’s mainly swinging over to the cluster at WLU and checking to make sure that the pacing simulation is chugging along. I started it yesterday, and it won’t be done till sometime around noonish tomorrow.

That’s all for now. Just in case you’re wondering, I’m classifying this time as ‘Personal Logistics.’

Ready to Crunch

I found (in my backups — I’m so thankful that I ran nightly backups to a removable drive) a statically-linked binary of the latest version of our simulation software.

I’m now setting up a universal operating environment, containing binaries, libraries, and scripts, that I can synchronize onto the various clusters that the lab has been given access to. I think I’ll have simulations running by tomorrow around lunch time.

I’ve also started logging the time I spend on lab-type work on a daily basis. I hope this will give me more insight into how I am spending my time, so as to encourage me to make the best use of work-time that I can.

Yesterday, I did nearly seven hours of work, while today I’m probably closer to three or four. I had to run errands, including returning the multifunction printer/scanner/etc device I bought last week. The scanner doesn’t work under OS X version 10.4, contrary to HP’s claims. It was therefore taking up space and a place in my budget and it had to go. I had my eye on a replacement device, but unfortunately Best Buy did not have it in stock — only available on their website. The joys of not having a permanent mailing address.

I should be returning to Mandeville soon, and will acquire the supplies I need at that time.

Distributed Research

I’m currently spearheading efforts to allow our lab to work in a distributed fashion. This is turning out to be difficult and complex. We need workstations, number-crunching facilities, and storage, as well as the ability to communicate with each other. I’ve found a free conference call site, which has allowed us to have one ‘meeting’ of sorts already, with more on the way. It was nice to hear from everyone and just talk about the situation.

I’m currently adding software to my Linode (the virtual server on which this site is hosted) to facilitate some lab activities, but it’s a long and sometimes frustrating process.

More updates as the information arrives.

In Bayfield

For the first time in a week, we know that tomorrow, we won’t have to pack up and drive across the country. And the day after, we won’t have to pack up and drive some more. We have probably a week or so before we have to think about driving anywhere else. In the mean time, we’re trying to get some work done on my uncles’ boat, Fandango.

Boat Sweet Home

I need a Linux machine along with OS X, so I’m installing Ubuntu PPC on my 15″ powerbook (foreground). I’d use Gentoo, but with a 500 MHz G4 it would take too long. I know Ubuntu will work, because I tried a LiveCD first.

We went to Target yesterday, where I bought some cool-weather clothing and office-type supplies, and we’re finally getting settled in this morning.

My IP phone should be on more or less the entire week at (586)-486-3220, and you can also get ahold of me by email.

How’re you (fellow evacuees) doing?