Archive for October, 2009

ASHG: Quantifying Relatedness and Active Subjects in Genome Research

Saturday, October 24th, 2009

Well, the American Society of Human Genetics Annual Meeting is coming to a close for another year. My talk is done and dusted, so I no longer have to lie awake at night worrying that I will forget everything other then the words to “Stand By Your Man” when confronted by the crowd. My white suit is now more of an off-white suit, with regions of very-off-white and pretty-much-entirely-out-of-sight-of-white. I’m looking forward to getting back home to catch up on my sleep.

For the last time, I’m going to give a little summary of talks today that I thought were interesting, or gave some indication of where genetics may be heading in the future. I will write up some more general thoughts about the meeting in the next few days, as soon as the traveling is out of the way and my mind has recharged.

If you would like some second opinions on the conference, GenomeWeb has a number of articles, including a couple of short summaries, as well as a nice mid-length article about the 1000 Genomes session; there are also a number of articles over at In The Field, the Nature network conference blog.
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ASHG: Finding Mendelian Mutations and Inclusive Population Genetics

Saturday, October 24th, 2009

Third day down, one to go. I am starting to suffer from conference fatigue somewhat. I’m not going to any other talks this evening, so I am going to try and get some relaxation time in from this point on. But first; the summary of Day 3.

Today I saw a lot of talks over three sessions, and many of them were very interesting. However, I won’t talk about everything, or even my favourite talks. I’ll go for the talks that seem to tie together into nice stories about a few directions genetics seems to be heading in.
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ASHG: Statistical Genomics and Beyond GWAS in Complex Disease

Friday, October 23rd, 2009

The second day of the American Society of Human Genetics Annual Meeting is drawing to a close; here’s a lowdown of what talks I’ve enjoyed today.

Remember, follow @lukejostins on Twitter if you want more up-to-the-minute details on the ASHG talks.
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ASHG: Chatting with the Sequencing People

Thursday, October 22nd, 2009

While I am here, I though I’d take the chance to chat to the people at the booths for the three major Second Gen sequencing platforms (Illumina, SOLiD and 454). It was surprisingly fun, the guys I talked to all seemed enthusiastic, and it was nice to find out where the scientists in the companies think the technology is going.

In the interests of openness: the 454 booth gave me a cool T-shirt and poster, so this may well have biased my opinion of them
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ASHG: Rare Variants, and the 1000 Genomes Project

Thursday, October 22nd, 2009

Hello all (it is taking every bone in my body not to say ‘Aloha’ here).

So, today was the first real day of the ASHG Annual Meeting; after accidentally falling asleep for basically all of yesterday, it was good to finally see some familiar faces and dig my teeth into some real science.

I’m going to write a little about the first couple of sessions I’ve seen, and say what sort of themes are being shouted loud enough to get into my jetlagged mind. I have also been tweeting the conference at quite a high frequency (about 30 tweets so far), and in more detail than I have given here; follow me on @lukejostins if you are interested. To see all the ASHG twittering, check out #ASHG2009.

The blogs posts over the next few days will be aimed mostly at those who are, at least vaguely, In The Know about genomics. However, if there are people who would like a less jargonistic lowdown of the conference, please leave a comment and I’ll see what I can do.
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Scientia Pro Publica #14

Monday, October 19th, 2009

Welcome to the 14th Edition of Scientia Pro Publica (Science For The People). This blog carnival collects together the best non-technical science writing that has appeared around the blogosphere in the last few months, to promote and celebrate science, nature or medicine blogs written for the public.

In this edition, we have a glut of posts related to climate change, and an equally large group of posts about the interaction of science and society. Along the way, we will also cover some basic science posts from physics and biology.
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Scientia Pro Publica, and Off To Hawaii

Thursday, October 15th, 2009

Next week, two things will be happening. Firstly, on Monday I will be hosting Scientia Pro Publica, a blog carnival for communicating science to the public. If you have an entry that you feel explains a scientific subject in an easy-to-understand way, please submit it here.

Secondly, I will be traveling off to Hawaii, for the American Society of Human Genetics Annual Meeting, a very large genetics conference. I will be giving a talk on Imputation (abstract 240 in the Speakers book) at 7.45am on Saturday, if any imputation-loving insomniacs want to attend.

Perhaps more relevantly, I have bought myself a little Eee PC Seashell, on the condition that I make a serious effort to blog and tweet the conference. My plan is to do a short daily low-down of what is going on, with things that I see that seem significant or new, as well as live tweeting at least a few talks a day over on my Twitter feed. I’ll be tweeting with the hashtag #ASHG2009.

Daniel MacArthur, who has a somewhat better reputation for blogging conferences than I do, will also be there, and it will be well worth your time to follow his blog and his Twitter feed.

Unbelief, Class and Bad Statistics

Tuesday, October 6th, 2009

I like to read the Comment is free: Belief section of the Guardian website; it has comment pieces on a pretty large range of religious matters, which satisfies both my “reading about religious affairs” and “reading things that annoy me” urges (in particular, I find a bit of an odd pleasure in reading the regular posts by Andrew Brown, a man who has a wonderful habit of saying things I would probably agree with in such a smug, sneering style that I can’t help but disagree).

Today there is a post up called Religion And Learning: what do we know, by Nick Spencer of the religious thinktank Theos. It feeds on from a somewhat substance-light Andrew Brown post claiming that atheism (or ‘new atheism’, or some ill-defined form of non-belief) is becoming a way of the upper middle class setting themselves apart from the Daily Mail-reading working class.

Nick Spencer’s article attempts to shed some light on the relationship between class and religious belief by looking at the relationship between NRS social classes and belief in God, based on some Theos data from their recent Darwin report. The report, unfortunately, doesn’t tell us very much; it says that Atheists tend to come from higher social grades (AB), and theists tend to come from lower social grades (DE); this was already well know.

Spencer goes on to look at the social classes of converts; he finds that converts to theism tended to come from the roughly the same classes as atheists (ABC), and that converts to atheism tended to come from the same classes as theists (DE). This is unsurprising, it basically says that there is no real social indication of conversion; it is more or less a random process, with atheists going to theists and vice versa more or less independent of social class. It would be interesting to follow up these converts over larger periods of time, or to break it down into recent and older conversions, to see whether converting to a religion causes a change in class, but so far we have no evidence for this. So, in conclusion, the data doesn’t tell us anything interesting about how religion and class or education beyond what we already knew; if anything, it tells us that class or education aren’t really playing much of a factor in conversion.

Or, that is the conclusion that any non-reaching person would draw. What is odd is that Nick Spencer uses this essentially Null result to argue that some sort of revolutionary change on the nature of atheism:

On a less grand scale, the data suggest that the effect of vocal atheism over the last decade has been to reach successfully into previously uncharted demographic territory (witness The God Delusion’s sales figures) but at the cost of losing some of its intellectual credibility (the critical review of The God Delusion in the London Review of Books, for example).

If this is happening, we might expect to see atheism become increasingly “religious” in its composition if not in its size.

So, according to Nick Spencer, the expected class distribution of converts if there is no relationship between class and conversion is an indicator of a grand, sweeping change in the nature of atheism, and we should all be prepared for atheism to become a ‘religion-like’ mass movement of unthinking godlessness. This is completely the opposite conclusion that I have made from the same data; that non-belief is going on the same as it always has (as far as I can see, the current bunch of non-believers are no more outspoken or populist than Carl Sagan, Richard Feynman, Bertrand Russell and Thomas Huxley), and there is no particular evidence that anything new is going on in unbelief.

Scientia Pro Publica #13

Tuesday, October 6th, 2009

The twice-monthly blog carnival Scientia Pro Publica is up at Living the Scientific Life. Scientia collects together a range of blog posts from different areas of science, all of which present a scientific subject to a lay audience (hence Science for the People).

The next edition of Scientia will be hosted here on Genetic Inference on the 19th of October. If you have a blog post that you are proud of that presents a scientific subject to a lay audience, submit it and I’ll include it.