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alexholehouse

3,113 karma · joined August 3, 2011

My lab studies how biological function is encoded into disordered proteins using a combination of theory, simulations, informatics, and experiment.

https://holehouse.wustl.edu

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alexholehouse··on Hospital creates bidding war by posting pricing online
Great story but

"OKLAHOMA CITY – An Oklahoma City surgery center is offering a new kind of price transparency, posting guaranteed all-inclusive surgery prices online. The move is revolutionizing medical billing in Oklahoma and around the world."

Around the world? Really?

alexholehouse··on The 19-year-old jailed for the crime of sarcasm
I know Charlie from back in the UK - I don't always agree with his writings and ideas, but I can't deny he's one of the finest journalistic authors I've had the pleasure of reading online.
alexholehouse··on Understanding the linux filesystem (/etc, /var, /bin, /opt etc.)
This is so truly, fantastically excellent. This should be a standard system utility!
alexholehouse··on Police ID Man Found In Water: Dr James Martin
His donation to Oxford funded some of my early postgraduate work back in 2009.

I actually had an opportunity to meet with him a couple of weeks after I began the work, but not knowing who he was (or being particularly computer-history savy at the time) I didn't push it. In hindsight (not just today, but generally) I've always regretted not realizing who he was at the time.

alexholehouse··on Estimated Cost to Store All US Phone Calls Made in a Year
So here's a related question I've been wondering (IANAL - so hard).

A number foreign blogs/companies/people have displayed outrage that, given that they're not protected by the legal framework American citizens are, PRISM may give the NSA access to their data.

Irrespective of the truth associated with this, you've got to expect at least some percentage of paying customers will move business away from American companies. Considering this, is it conceivable that companies like Apple, Facebook, etc, could sue the government for lost earnings as a result of the fallout from this? Or are there a bunch of reasons why they wouldn't/couldn't (other than the obvious ones like, don't piss off the government).

alexholehouse··on Ethics Aside, Is NSA's Spy Tool Efficient?
This is exactly the argument I've been making to people when we discuss PRISM.

Think about the heterogeneity of the data, the lack of structure, and the unpredictable nature of its generation. Frankly, I have no doubt that the NSA is not monitoring phone chatter on a mass scale, probably not because they can't, but because if they did there would be no way in hell to parse, store, process and evaluate the data generated.

We (the scientific/big data community) can barely get recommendation engines working well - engines which have one set of data (what you watched) and do one other thing (suggest what else you might want to watch). Unless the NSA is decades ahead in a number of fields (like data warehousing, statistical analysis of massive datasets, machine learning) how are they getting useful information in a systematic way, considering the pressure from the data-firehouse involved?

My guess is they're probably not - instead the data are collected, and then used in conjunction with traditional approaches. e.g. little johnny buys some fertilizer and one way plane ticket - so who's he been talking to, what's he been saying, etc.

Honestly, how the NSA is using/dealing with/storing/accessing these data is actually an incredibly interesting question, from an academic/systems perspective.

alexholehouse··on Tesla promises Model S recharge 'faster than you can fill a gas tank'
I wonder if it's anything like Shai Agassi's vision http://www.ted.com/talks/shai_agassi_on_electric_cars.html
alexholehouse··on Supreme Court rules human genes may not be patented
So I'm not super familiar with drug patent laws - can those synthetic version and naturally occurring version be identical (as in chemically) or does the natural one need to be subtly different (e.g. extra methyl group, or whatever)?
alexholehouse··on Supreme Court rules human genes may not be patented
Yeah this is actually a pretty poor news source (hopefully it will be updated).

For more comprehesive coverage info see http://www.forbes.com/sites/danielfisher/2013/06/13/supreme-...

A crucial point is the cDNA is patentable, which still makes very little sense.

alexholehouse··on Report finds that Human Genome Project has added $1 trillion to US economy
> "The question is: what health benefits have people got out of it, and what will they get in the future?"

Current health benefits have been largely minimal, relative to what was promised/expected (I'm actually not sure if anything was promised, so expected may be a more appropriate word). That being said, looking upon that as a failure is incredibly short sighted and one dimensional.

When the project was started, it was expected to bring about a semi-immediate revolution in medicine. As it turns out, many things relating to genes, genetic regulation, disease, etc. are more complicated than scientists had originally thought, which we discovered because of the human genome project, so this mini-renaissance hasn't really happened. However, to develop new techniques and approaches, new ways of thinking and understanding, we needed to know about this complexity.

Arguing that the HGP has failed patient care (in whatever metrics you choose) is the equivalent to punching a horse you bought to take you on an uncharted journey which turned out to be a lot longer than anticipated. You have to go the distance anyway, no one is to blame for the extra distance, and the horse got you a lot further than you would have on foot.

alexholehouse··on More Americans see man who leaked NSA secrets as 'patriot' than traitor
So, in summary, the difference between a patriot and a traitor is just PR. Pun intended.
alexholehouse··on Google Maps and Waze
Great for Waze, good for Google, but I feel like a lot of the value (from Google's perspective) is stopping Apple (or FB) getting Waze.
alexholehouse··on The entrepreneurial adventures of a coder living in a tent in the forest
I'd expect the Swedish winter will probably make a significant impact on an end-date decision. This is super cool and doable now, but when it hits 0 and is light for 7 hours a day it may not be worth it.

Still - that's in 4-5 months - plenty of time to be hugely productive while keeping living costs to a minimum.

alexholehouse··on The entrepreneurial adventures of a coder living in a tent in the forest
I was going to post something similar, thanks. I was really intrigued by what the HN community's reaction to this would be.
alexholehouse··on Learning from top performers - the importance of making notes
Good question - I do, always, and so far no-one has had a problem with it.

Of course, there's an element of judgement in deciding what meetings are worth recording or not. I'm doing a PhD, so typically I only record meetings where information is being presented (of which I have a lot), but not those which exist exclusively for making decisions or whatever.

alexholehouse··on Learning from top performers - the importance of making notes
There is a danger with note taking - it's often easy to become so engrossed in the notes that you fail to interact with the situation.

Over the last five-six years I've become a meticulous note taker - it's vastly improved my comprehension, retention productivity. However, more recently, I've started recording meetings with a dictaphone and then I write them up after. This allows me to both interact and engage in a meeting, while documenting the crucial details at a later date.

alexholehouse··on High-resolution images of a molecule as it breaks and reforms chemical bonds
Original paper here

http://www.sciencemag.org/content/early/2013/05/29/science.1...

alexholehouse··on [dead]
Original paper here: http://www.sciencemag.org/content/early/2013/05/29/science.1...
alexholehouse··on Chase’s completely insecure and broken “secure” document exchange system
Despite being from 2009 - I just received the same email. Unbelievable.
alexholehouse··on Deleted my portfolio, made $30k in my first six months
Ugh. I hate to be that guy, but after clicking on the get-started buttom (http://robertwilliams.wpengine.com/get-started/) the copy at the start is

"Lets bullet-proof your project in 7 days or less. Get started for free right now."

"Lets" should be "Let's" (it's a contraction).

I find that really off putting. I guess I shouldn't, but I do.

Super-impressed that it's been fixed so fast. I hate it when people nitpick, but occasionally I feel like it's relevant/worth it. That said, I still feel a bit dirty now.

alexholehouse··on Children of parents classified as “tiger” have worse grades, are more depressed
If tiger moms organize and control their kid's lives, do the kids ever learn skills relating to decision making and time management, two absolutely crucial skills for 'real world' survival?
alexholehouse··on Food Practices Banned in Europe But Allowed in the US
I'm interested to see someone else take this stance. A large part of my PhD is based on ideas relating to this, but it's not a (currently) widely held train of thought. Are you involved in this area at all?
alexholehouse··on What Worries Scientists
This article is worth it just for Venter's response
alexholehouse··on The Woman Who Can't Recognize Her Face
I'm mildly face blind. Generally speaking it doesn't cause any problems - occasionally I spend the first 25 minutes of films wondering who is who and what's going on, and having missed the opening of The Departed I watched most of the film thinking Matt Damon and Mark Wahlberg were the same person.

However, there have also been some excruciatingly embarrassing situations where I've re-introduced myself (or ignored) people I actually know, although typically I've only met them a couple of times. Bizarrely, I'm worst with caucasian blonde women.

alexholehouse··on Researchers find a completely new DNA binding protein
I saw Rhiju Das speak last week (really fantastic talk). He's working on some very cool deterministic ab initio folding approaches. http://www.stanford.edu/~rhiju/research.html
alexholehouse··on Our Feel-Good War on Breast Cancer
One of the most damaging impressions the public has relating to cancer is that "cancer" is a single disease. This article touches on this idea ("... at least four genetically distinct breast cancers....") but even this is a gross underestimation of the complexity of cancers.

Essentially, the only thing that unites cancers together is that they represent a class of diseases in which your own cells multiply in an uncontrolled manner. Beyond this idea of "out of control growth", there are a number of common ways which these distinct phenotypes occurs (such as too much of pro-growth molecules, not enough "slow down" molecules etc) but genetically/molecularly there are many, many different routes which these phenotypes can be achieved.

This, again, is still only touching on the surface. After you have the molecular underpinnings of the "out of controlness", you have genetic and non-genetic factors relating to things like where the tumour is, how do the cells change once the cancer begins to progress, how your body reacts to the cancer, how your body reacts to drugs etc.

In 100 years time, I'm confident we'll look back on our present day way of thinking about cancer in the same way people now look back at our previous ideas relating to mental illness 200 years ago, or general diseases 500 years ago.

alexholehouse··on I've created a community and learning platform for math, physics and CS lovers
Registration is literally no more than the three boxes on the signup page, which was a pleasant surprise.
alexholehouse··on I've created a community and learning platform for math, physics and CS lovers
I actually think that for a lot of maths/CS/Physics issues, wikipedia is a horrible introduction to people unfamiliar with the topic. A site which curates explanations in normalspeak with some form of interaction (i.e. "Can you explain why...") would actually be a very useful resource for a lot of people, myself included.
alexholehouse··on Denmark: 1,000 Megawatts Of Offshore Wind, And No Signs of Slowing Down
No you're right (and nice comparison) - I just wanted to trigger conversation because someone had downvoted the question, which I thought was pretty unfair. I just didn't/don't have time to do any actual research to get hard numbers.
alexholehouse··on Denmark: 1,000 Megawatts Of Offshore Wind, And No Signs of Slowing Down
I'd have thought amounts of energy involved are so vanishingly small compared to atmospheric wind in general that it makes no difference.
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