Archive for the 'Uncategorized' Category

100+ Places to Find Funding For Your Research | OEDb

Thursday, July 24th, 2008

The people at the Online education database have put together a list of resources for academics to get funding. While most of the usual suspects are there, you may find new options. It’s US-centric, so if you are outside the US you may not find it as appealing. It’d be nice if someone could put together a list like this for other locations
100+ Places to Find Funding For Your Research | OEDb

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A centralized repository for academic journals: it’d need to borrow credibility from those established in the field

Monday, July 21st, 2008

Today I found a comment (again in hacker news!) that is very relevant to the discussion we are having here. I’m going to repost it, but credit goes to the author mlinsey. We have discussed in the past how soft peer review could change the landscape in science. The original model of peer review worked well when there were few submissions to journals and people communicated by snail mail, but it’s getting crazy for our current environment. Dario proposed an alternative, and mlinsey presents a similar one, maybe even more radical. Enjoy.

The whole journal system itself is broken. My university’s Math & CS library dropped its subscriptions to several journals a few years ago because they cost too much. Even though they picked the least important/prestigious journals, at one of the top CS departments in the country, this should not happen. And this is to say nothing of a lone individual who wants to benefit from research and teach himself some of it. They can hardly pay to subscribe to any of these journals.

And think about what a journal provides: a forum for researchers to submit the results of their research and a mechanism for selecting which of the submissions are worthwhile for folks in the field to know about.

What I just described is essentially just a karma system, albeit you would have to find a way to take the credibility of the rater into serious consideration. Assuming you solved the chicken-and-egg problem of getting enough credible people from academia to be raters and to submit their best work to your site (quite a tough problem considering many large universities are much more like big companies, or worse government bureaucracies, than startups), you could totally replace the entire system of academic journals.

Think of all the other free extras you would get by having a web app host all journal articles: at minimum, the process of citing references and looking at the background of a paper could be improved: you could visually trace the findings of the paper you’re looking at all the way back to the founding of the field by what each of it’s references used as references. Search would be a lot better, as would recommendation engines (lots of professors have grad students waste time simply scanning journals for articles that are relevant for their work). If you’re into NLP than you would have a much better dataset and a clear application for doing summarization. And think about the possibilities of social networking or productivity-app type features enabling all sorts of new possibilities for collaboration among people at different universities!

But the real big play is that once you do all this, you’re well on your way to replacing universities themselves, which any undergraduate can tell you are bloated enterprises which spend large amounts of money and pass the costs onto their customers, who accept it because the university system has a monopoly on giving out credentials for people going into the working world.

One of universities main products is research, and in many fields (biology, physics) you need the big backing of university (and government) dollars to support research. In many other fields (math, Computer Science, philosophy) you don’t. Researchers in these fields usually need to somehow pay their living expenses, and the actual equipment expenses are minimal. They mainly need: -a place to find like-minded collaborators -credibility for their work (ie, ability to publish in journals). You could give them both of those things. Now people in these fields wouldn’t even need to choose the career path of grad school and then professorship (in other words, staying their entire life in the university monopoly) in order to contribute their research to humanity’s body of knowledge.

So in other words, what you need is to build a HN/Reddit style voting/peer review system that weights the credibility of the voter heavily. Then you need to find some early adopters who are credible enough to lend your own site credibility. Then you could be well on your way to reinventing the academy in a way that is much more democratic and makes its results much more widely available and usable by the public.

Anyone want to build this? My email address is in my profile. Or just go ahead and use this idea yourself - I just really want to be able to use this service somehow, though probably more as a consumer than a producer of research. Maybe someone who actually went to grad school and had lots of papers published themselves would be in a better position to build this idea.

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Learning the COLEMAK keyboard layout

Sunday, July 20th, 2008

I have determined I want to learn the COLEMAK keyboard layout. The point? It’s not about typing speed. The layout requires far less wrist motion than qwerty, and it feels very confortable. You can see that your hands are not moving much (the author claims that your hands travel 2.2 times more on QWERTY).

IF you spend most of your time using your keyboard (and if you are an academic, chances are you do), this one-time investment of your time might be worth it. We only have a set of hands for life, and if you imagine all the papers you should write in a lifetime stacked, you’ll feel the immediate urge to protect your hands :).

I’m not a touch typist on QWERTY, and wanted to learn touch typing, so I decided to go with COLEMAK instead.

It seems that you can only learn for about an hour and a half a day, and thus it will take a month before you can do any work at all. Some people have tried to go cold-turkey, but I have to get actual work done. If you peruse the forums, there are people posting detailed reports on their experiences.

There are lessons available in the website; one is supposed to go through them till reaching 96% accuracy or more. They recommend against relabeling or reorganizing the keys. Instead, the way to go seems to be to tape a copy of the layout on your monitor, like this:

BTW, If you suffer from back pain I have friends who swear by John Sarno’s book.

I’ll post more on how things go for me on the new layout. The good thing is that it’s not an all-or-none change: I can still do QWERTY when I have to get something done under a deadline.

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What you should read before starting your PhD

Thursday, July 17th, 2008

Here is one of the best summaries of how things can go wrong when one chooses to follow the academic path. I got this from Hacker news. The author of this well-written piece came from the industry, and compares the world he knows with what he encountered at the academia.

Things he finds:

  1. Doing a PhD is lonely
  2. Your picking the right advisor will determine your happiness level more than anything else
  3. The way you code within the academic world has nothing to do with the way people code in the
    industry

But maybe we already know this.

What I’d like to see is someone writing a similar piece on life after your PhD. I had this silly idea that things would be easier and I’d have more time after my PhD Thesis for… you know, hobbies and other stuff normal people do. Nothing farther from reality.

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Who needs theories when one has lots of data?

Tuesday, July 8th, 2008

This article poses an interesting question. Sometimes one has enough data to make accurate predictions without having an understanding of what causes the phenomenon (a model). Nowadays, it’s getting easier and easier to get huge datasets, which are often sufficient to do this.

For example… Google uses massive amounts of misspellings to give ‘on the fly’ corrections. It also uses massive corpora of bilingual texts, such as their French/English translation engine by feeding it Canadian documents which are often released in both English and French versions. But they don’t have any theory of language doing smart stuff in the background.

So are theories redundant, or obsolete, in a world where one can do proper predictions without them?

Wired’s own Chris Anderson explores the idea:

Who knows why people do what they do? The point is they do it, and we can track and measure it with unprecedented fidelity. With enough data, the numbers speak for themselves.

Petabytes allow us to say: "Correlation is enough." We can stop looking for models. We can analyze the data without hypotheses about what it might show.

The point here is that statistics can find patterns in basically any area; so maybe we don’t need an specific science to take care of those problems.

There are issues with this line of thinking. Of course, correlation doesn’t imply causation, so doing just this we’d be blind to cause-effect relationships:

Google’s founding philosophy is that we don’t know why this page is better than that one: If the statistics of incoming links say it is, that’s good enough. No semantic or causal analysis is required.

Comments by Deepak:

We all know that more data means new approaches to science, especially since this has happened so quickly.

We’ve always worked with partial understanding, or in the case of medicine, less than partial understanding, but that’s precisely why medicine is beginning to fail. Not knowing mechanisms, etc is what results in a VIOXX. Not knowing why is what creates the next disaster.

Trying to solve the exact same problems as Google, we have a camp that does think that knowing ‘why’ is important: the semantic web proponents. Under this paradigm, the web would become a huge ontology. And machines would operate with propositions (RDF triplets) to deduce new knowledge. In this case, you do know how the machine reached certain conclusion. They do face the same huge datasets (i.e., try to operate with ‘the entire web’ at some point; not now, since only a small fraction of the sites use RDF at all), but instead of using the raw content that is prepared for human consumption, they will use machine-ready content.

If after plowing though petabytes of data, a semantic search engine reaches an interesting conclusion, at least it can show us the logical path it used. The promise for pharmaceutical companies is that they could find new drugs and interactions by just letting the algorithms traverse a corpus of, say, proteins. But, again, in this case, there is no ‘human’ postulating a theory either.

Probably, what all this means is that we scientists will need to adapt our methods to collaborate with these smart machines. There are things, like deep search, that are better left to them; whereas some other, like tagging images, are really hard for machines but trivial for humans.

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More on drugs that supposedly give you mental superpowers

Thursday, May 15th, 2008

Just as a quick follow-up to this post, … there seems to be a narcolepsy drug that works really well for periods when you need a lot of concentration.

The drug name is provigil. The article is a pretty hard-core testimonial on its effect. There’s an interesting discussion here. The article seems to mention no negative side effects (other than making you eat less!) but in the discussion some people mention serious stuff like : “nervousness, insomnia, excitation, irritability, tremors, dizziness and headaches“.

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fileHamster: easily keep versions of your manuscripts

Friday, May 4th, 2007

Filehamster monitors changes to any kind of files, and keeps versions. I have seen that many academics just use a numbering system in the filename; filehamster is a bit more elegant.

If you are a programmer, you may know about versioning systems. They are convenient for large projects , particularly for those with more than one programer. However, they are not as easy to use as to justify the overhead when doing simple manuscripts.

Keeping versions helps the flow of writing, since no matter how much you mangle your manuscript, you can always go back to a previous version. And of course you can add comments to versions. Filehamster stays in the system tray and is pretty unobtrusive.

Filehamster is updated often, and each version fixes most of the annoyances of the previous one while adding features.

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Camera Photocopying

Thursday, February 8th, 2007

I don’t need to do much photocopying these days, as my trips to the library are rather infrequent. However, if do venture that way I bring along my compact digital camera. I used to have a 3 megapixel camera phone, but darn it, lost it, so its my trusty casio instead, and avoid those long photocopying queues. Rather than photocopying chapters or journal articles, I now just photograph them. Its free of charge, its quicker, I don’t have to find a photocopier, and I end up with a digital copy which I can read on my computer. print, or even run OCR if I was so inclined. 

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Information glut and hypertext sickness

Sunday, December 17th, 2006

Sometimes I get ill with information. It is hypertext sickness, and it can be a compulsive disorder. It seems my mind gets high on knowledge, and the knowledge is like a drug, stimulating some part of reptilian brain that gets rewarded for exploratory behaviour, and I get stuck in a addictive loop, like a rat pressing a lever that gives it cocaine.

Bouts of hypertext sickness might last hours, with the ultimate end of a racing brain, bulging eyes, feeling like you have fallen into the matrix, and you feel sick with information. The only solution is a cold shower and a lie down. I come back to the computer and am faced with the aftermath. 25 pdf’s open and 30 tabs on my browser. Too much is too much.

A bout of information mania can actually be productive, in leading to discoveries that wouldn’t have occurred if I had exercised a more reasoned and methodological approach to research. However, the good can get lost amongst the vast mounds of information that you might have discovered, and when you have an overdose of information it makes it harder to convert to knowledge.

In my last post, I discussed the double edged sword of technology for productivity, and how information load makes technology indispensable for managing that load. With information glut the problem is largely self inflicted, and the solutions don’t all rely on technology.

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Book review: Boice’s professors as writers

Friday, December 1st, 2006

Professors As Writers

Boice presents an attractive title that gets good reviews at Amazon. I guess these come from writers that have been relieved from writers block and are terribly grateful to the author. Blocking is probably the emphasis of the book. For non-blocked writers the offering is less tempting. The techniques presented for people who write fluently already are a bit obvious. Review below.

What is covered

The book has 4 main sections, and a large appendix with tests plus an annotated bibliography.

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Ten simple rules for selecting a postdoctoral position

Monday, November 27th, 2006

The November 2006 issue of PLoS Computational Biology has a short editorial with ten rules for evaluating postdoc opportunities. An interesting — albeit commonsensical — collection of hints, if you’re approaching the end of your PhD and looking for job opportunities after your defense.

Ten Simple Rules for Selecting a Postdoctoral Position

Thanks Benoît for the pointer.

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Does technology make academics more productive?

Monday, November 27th, 2006

Thinking about the different ways academics use technology in their work leads to me to consider different types of academics, which I classify into three categories below. These describe the evolution of academic practice over time, as well as different types of academic. What kind of academic you are will be influenced by how long you have been working in your field, though its possible that some older generation academics will have embraced new technologies and working practices, as well as younger academics fitting characteristics of types 1 and 2.  

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Interviews with Productivity Monsters: Mark Forster, time Management guru from "Do it tomorrow" fame

Monday, October 23rd, 2006

It’s about time to introduce one of the central features of this blog. We plan to interview what I once called “Productivity Monsters”: people who, one way or another, have an outstanding productivity in their fields.

Mark Forster

Originally, the idea was to interview Academics only and to measure their productivity by using some proxy such as impact of their ideas or raw number of papers per year. However, this definition would leave out time management Gurus, and we agree that if they have created such a cult online, they must have very interesting things to say to Academics. As you see, the criteria to define productivity monsters are not clear, but, like any other monsters, you know one when you see it. What do they do differently? Other than working a lot, of course. Are there any kind of techniques that can improve anyone’s output? We will ask them and try to retrieve and filter their knowledge in the form of interviews. The interesting things is that most academics don’t really write about how to improve your academic production… only occasional chats with their grad students around the water cooler revolve around this topic!

On the other hand, time management Gurus do write about productivity!

It’s a pleasure to introduce our first academic productivity interview with Mark Forster.

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Why I don’t use bookmarks - Slickrun Part 1

Saturday, October 21st, 2006

I never got on with bookmarks. There a couple of reasons. One hails back to many years a go when the internet was a much more hostile frontier town environment, where permalinks probably weren’t even an idea, when websites come and went and stuff got moved around a lot, leaving bookmarks to a link to 404’s. They take up space on your browser as a toolbar. Another reason, perhaps the main one, is I forget having them, and the effort involved in trying to find a bookmark that I might possibly have outweighs the probability of gain in finding it. I do keep try to store obscure sites or bits information I want to keep, but not through using bookmarks. They go into my notebook, which is currently housed in google notebooks.

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Fooling the reactive mind: Mark Forster’s time management system

Friday, October 13th, 2006

Do It Tomorrow and Other Secrets of Time Management Is the latest time management book by Mark Forster. Do it tomorrow (DIT) presents some very innovative ideas that are surprisingly simple.

Mark Forster is a time management and life coach expert whose works are best known in the United Kingdom. To give you an idea of his recognition in Great Britain, DIT is ranked #214 in sales at Amazon UK at the time of this writing. The Observer recognized Forster as one of Britain’s top ten life coaches.
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