Science and the importance of cheese

Week two of “I’m a Scientist, Get me out of here!” is now upon me. This week the evictions start, so the competition is hotting up.

I had meant to get around to writing a blog-post about week one, but I have been preoccupied with more pressing matters – like getting ready for week two. I hope to serve up a digest of my experiences of this public engagement once the hurly burly of the week is over. In the meantime, you can sample a couple of very thoughtful reflections on the competition so far, one from Tom Hartley (who is in the same zone as me) and one from Andrew Maynard.

The prize for the scientist in each zone who is left standing on Friday next is £500 to spend on a science communication project. My idea — not so very original — is to make a video about the reality of science. I’d like to show the ordinary side of scientific endeavour and hopefully go some way to re-assuring school children that you don’t have to be a genius to do science.

So, as my secret weapon for week two, and since it was Father’s day yesterday, I spent the day in South Kensington with my three children shooting the trailer to the film that I would like to make.

And I present it here for your consideration. I hope you might be able to tell that we had enormous fun doing it. Best Father’s day I’ve had in many a long year.

And what has this got to do with cheese? Well, you’ll have to watch to find out.

Posted in Communication, Scientific Life | 43 Comments

Before the Deluge

It starts tomorrow. The floodgates will open and will not close again for two whole weeks.

I mean of course that “I’m a scientist, get me out of here!” starts tomorrow morning. I have signed up to submit myself for interrogation — on any topic — by children from participating schools from around the country.

Imascientist Web Page

Image hosted at flickr

 

In this endeavour I am competing against five other scientists in the Imaging Zone (since we have common research interests in looking at stuff). We all get to play for the first week, trying to impress the children with the wit and wisdom of our answers. But in week two they start voting and day after day, the least popular scientist will be evicted.

Want to follow my humiliation? Andrew Maynard from 2020 Science (also a participant) has produced a very handy spectator’s guide to the Imascientist web-site.

To see how I am doing, check in here from time to time over the next few days: you can see my answers (and those of the other members of the Imaging Zone) by clicking on the question.

In fact, as of today, we have already started. As as you will see the range of examination is alarmingly broad. I answered 30 questions – all the way from “Do you have any superpowers?” to “What is the shape of the universe?”.

I am confident that whole new vistas of ignorance in my understanding of science will be revealed over the next several days. Oh well.

If you take pity on me, all assistance will be gratefully received!

Posted in Communication | 18 Comments

Inflation

This is, to my mind, a quite astonishing report about Nature Publishing Group (NPG) hiking its proposed 2011 journal subscription charges to the University of California (UC) by 400%. (NPG is the company that runs the Nature Network blogging platform).

That’s right: 400%.

I know nothing about the ins and outs of this deal. I’m guessing that it’s an opening stance in a negotiation on price, but it is clear from a letter sent to all UC faculty that their staff are not happy. The letter lays out their case in some detail and their discussions about a possible boycott of the Nature stable of journals.

I’m hoping that similar deals are not being offered to UK institutions where budgets are shrinking rather than inflating.

I see the story has been picked up by Daniel Cressy at The Great Beyond, an in-house Nature blog. He has asked for a response by NPG, which I await with interest.

**Update, 10-6-10:** The NPG statement can be found here: (thanks to Bob and Lou for providing the link in the comments below).

**Update2, 10-6-10:** And here is the UC response to that statement (as a pdf).

Posted in Open Access, Scientific Life | 71 Comments

Something for the weekend

Wunderkind of audiovisual media that I am, I confess to being rather late in getting around to this one. Even I hesitated at the narcissistic self-absorption of it. But as a blogger, I must learn to overcome such hesitations. Here, to demonstrate my proper credentials and my total commitment to the vocation, is a photograph–taken just now–of the computer on which I have begun to compose this post.

Computer Cat

Look closely and you can even see the cat.

But what I belatedly wanted to tell you about was this week’s Guardian Science Podcast, which was on genius. A topical subject since Channel 4 has just broadcast a five-part series, Genius of Britain, devoted to the home-grown variety. I’m not sure where I stand on genius or geniuses in the realm of science. They certainly provide an inspiration–I have my own favourites–but I wonder also if they instill a sense of fear, of disappointment among more ordinary folk. Such as myself.

I will reserve comment on the TV series since I haven’t caught up with all of it yet. But I am quite happy recommended to you the Guardian’s podcast. It is a weekly and highly engaging emission on all aspects of science. This week’s episode is especially interesting since it was recorded live at London’s Science Museum and I was in the audience.

The event was a good-natured, breezy affair with lots of easy-going banter and discussion between the regulars (Guardian stalwarts, Alok Jha, Nell Boase and Ian Sample) and with the audience. Much of the discussion centred on geniuses of various hues but there was also an interview with this week’s guest, psychologist Kevin Dutton, who has recently published a book on persuasion with the somewhat cheesy title Flipnosis. He performed a experiment on the audience involving simple addition that I was determined not to be caught out by. But I was.

Have a listen yourself. Go on. It’s the weekend – you have the time. My narcissistic glands were stroked three times during the recording – once when they read out one of my live-tweets, again when I had the chance to ask a question about Babbage’s wonderful difference engine and finally, after the ‘show’ when I was quizzed for a comment about the evening’s proceedings and may just have made a fool of myself. But at least I was honest.

It was odd hearing myself on the podcast since, in a way, that is where my blogging career started. Back in 2008 I heard a certain Dr Jennifer Rohn being interviewed on it about something called Lablit. That stimulated an email and the rest is, well, history.

Posted in Communication, Science | 11 Comments

A MAD day

This is a quick one. The internet’s not working terribly reliably at home so, in case you missed it on Twitter, Facebook or Friendfeed, here is a short film about what myself and some of my group got up to last Saturday.
Hit it Van…

Thanks to GrrlScientist for already promoting it on her blog.
Update, 15:00, 3 June: And here, in a picture I snapped a few moments ago, are Rob, Amar and Eoin working hard on their electron density maps. Cool glasses, huh?
Graphics Dudes

Posted in Protein Crystallography, Scientific Life | 18 Comments

I’m a scientist and the Boomtown Rats are here

Confused by the title? I’m not surprised. I’m a little confused myself. Though this is a common experience in science and nothing to be ashamed of.

Boomtown Rats CDs

I was thinking about the Boomtown Rats since I was using their celebrated second album, A Tonic for the Troops, to keep me running around Hyde Park in the warm sunshine last Monday afternoon. More often than not I use music these days to help drive myself along. And as I plodded, I was thinking to myself, “You know, this really is good stuff. I’ll bet there’s plenty of people younger than a certain age who have never heard of them”.

That really is the way I think. But I digress…

The Rats’ peculiar brand of nihilistic hedonism matched the mood of my teenage years back in the very early eighties (though this probably gives an entirely mis-leading impression of what I was like then). Funnily enough, it still seems to suit the lifestyle of a wizened academic. So I thought I might send out a tweet after I got back (and dried off) — explaining that people should start at the third album, The Fine Art of Surfacing, and work back through albums two and one.

After Surfacing, it took the Rats three more and rather indifferent albums to realise that the ship had sunk. But that should not take away from the musical and lyrical genius of their first three recordings.

I then realised I wouldn’t be able to fit all that into 140 characters. Plus, when I got back, waiting in my pigeon-hole was the information pack from the guys organising the I’m a Scientist, Get me Out of Here event that I have signed up for. It’s being run by a company called Gallomanor, with funding from the Wellcome Trust and they seem to be a pretty professional bunch.

Info Pack

The pack, served up in a bright pink folder, gives us a heads up on how to prepare to engage with the schoolkids that we’ll be talking to online. Our first job is to fill out a profile, to give the students an idea of who they are dealing with. There are some really tough questions to answer:

  • How would you describe yourself in 3 words?
  • Who is your favourite singer or band?
  • What is the most fun thing you’ve ever done?
  • If you had 3 wishes for yourself, what would they be? Be honest!
  • What did you want to do after you left school?
  • Were you ever in trouble at school?
  • What’s the best thing you’ve done as a scientist?
  • Tell us a joke

You see? No easy feat. You can check out my answers — which are very much a work in progress — on my burgeoning profile page. Feel free to make suggestions. Perhaps surprisingly, given what I’ve said above, the Boomtown Rats didn’t make the cut in my answer to question 2.

I gather this goes live for teachers early next week. I guess the school students will cotton on to it soon after that, though the event itself doesn’t start for about a fortnight.

It’s all starting to get a bit… real.

 

Posted in Communication, Music | 5 Comments

Thunderbirds are go!

I saw this and thought of you…
Off to the South Pole
Steffi.

Posted in Fun | 10 Comments

I’m a scientist, get me out of here!

Ha, this’ll make you laugh.

Having spent my last blogpost in wistful reflection on the endless judgements that I find myself subjected to as a working scientist, I have just signed up–quite voluntarily, of my own free will and with my eyes wide open–for a whole lot more.

However, this time it should be fun. Though I confess to being a little bit terrified.

I am going to take part in the upcoming round of I’m a scientist, get me out of here!

imascientist logo

Here’s the blurb:

I’m a Scientist is a science dialogue event where school students talk to real scientists online for two weeks. It’s in the form of an X Factor style competition between scientists, who compete for a prize of £500.

For two weeks students read about the scientists’ work, ask them questions, and engage in live text chats with them. The students vote for the scientist they want to get the money. The scientists with the fewest votes are evicted until only one is left to be crowned the winner.

Strangely enough, one of my original motivations for getting into blogging was to be able to reach a wider audience, which I always hoped would include children. Although NN has yet to start a portal for school-kids (or did I miss the memo?), in a very, very roundabout way my activities hereand on Twitter–were instrumental in bringing me to this scary situation.

There is a competitive element to all this and I am in possession of a Y chromosome, but I’m not really excited by the prospect of combat. At least, that’s what I’m tellng myself for now. In this round (which starts on June 14th) there is an impressive total of 100 scientists taking part – split into twenty groups of five. The members of each group–I am in Imaging–will be competing with each other for the dosh (to be spent on a science communication activity). I have already ‘met’ two of the team-members through Twitter (@tom_hartley and @lisamarieke) and they both seem really nice–I’m sure we’ll all get along famously. What is more thrilling is the chance to interact directly with the students.

However, I guess no-one will want to be the first to be sent packing, so who knows what will happen?

I judge that it’ll be interesting.

Posted in Communication, Fun | 20 Comments

Judgement Days

When I die and am laid in my grave and my soul ascends to the Pearly Gates and the Supreme Being peers at me over half-moon glasses and declares, “Well Stephen, it’s Judgement Day”, I will look him in the eye and reply:

“Dear God, not again!”

Because, as a scientist, my life seems to be a never-ending succession of judgement days.

Lately it’s being getting ridiculous. In the last month I have submitted three grant applications and received 14 to review (for an upcoming research council committee meeting); I have submitted a paper for publication and had three requests to review manuscripts written by others (I accepted two); and I have marked the exam scripts of my final year students and, at the same time, lectured to second years who will assess my performance at the end of term via our online evaluation system.

I seem to be spending more time judging and being judged than getting on with the business of science.

Of course I see the point of it. Science is about accumulating and sifting evidence. As a process, it is entirely a matter of judgement. But I guess what has been getting to me as a result of this particularly intense spate of submissions and reviews is the sheer amount of time that I have to devote to assessing others and being assessed by them.

The grant applications are the worst, irrespective of whatever side of the game you are on. Having sent three applications off in the past month I will allow myself a brief window of hope. I put in some bloody good work and will hope for the best, for now. But I know, from sitting on the other side of the fence, that quality is no guarantor of success in these benighted times.

You might think there would be some compensating relief in sitting in judgement of the grant applications of my peers but this is the most onerous task that I have to undertake in my professional life. I know what the awful consequences will be for those scientists who have put their heart and soul into an application that, on the day, will not make the cut. In this regard the UK system is perhaps more brutal than that which operates in the US: failed applicants are only very rarely invited to resubmit. You either have to try your luck with another funder or re-think the project.

Papers are somewhat easier to handle because, if a manuscript has to be rejected, more often than not the authors have a chance to come back with revisions or additional data, or to lower their sights to the next journal down in the impact factor rankings. Ninety-nine times out of a hundred, you know as a reviewer that even if you advise rejection the authors will eventually be able to get published. But even then, we should not forget that each rejection along the way will have to be absorbed as a personal disappointment, more or less intensely felt.

For that reason I never write or submit my review immediately after reading a manuscript. I always leave at least 24 hours after the first read to give my immediate, more visceral reaction time to decay and to allow the steadier voice of reason time to assemble its case.

But one of the papers I had for review in this past week had such an obvious and fundamental logical flaw in the experimental design that the whole thing was invalidated from the start. On this occasion I was still cross with the authors even after the usual day of grace: why hadn’t they seen this problem themselves and put in place the proper controls? The report that I dispatched was crisp and concise. I couldn’t — wouldn’t? — think of a way to soften the blow.

My own paper came back with two reviews, one of which simply requested small changes to the text. We are to tone down some of the wilder flights of fancy in our discussion, which I think we can do fairly easily and without sacrificing the central thrust of our argument. The second review was more favourable but oddly, more irksome, since I got the impression that the reviewer hadn’t read the manuscript closely enough. I may have to live with judgement but I do at least want it to be done well.

Also in this past week I have been giving lectures to second years – aiming to impart to them something of the theory and practice of measuring protein-ligand interactions. This necessarily involves mathematical treatments that some of the students don’t warm to. I am unrepentant and hold to the view that no serious student of biochemistry in the 21st Century can deny the relevance of mathematics. My hardline view may earn me some opprobrium when it comes to their evaluation of my lectures but I shall brush that aside. But I will not ignore any other constructive complaints about my lecturing technique or content.    

For now, however, it is my turn to critique:  I have been marking the exam scripts of my final year students. From a class of 32 who had three questions to answer from a choice of nine, the two questions that I set received 19 and 25 answers. This shows that most of the students connected with the material on X-ray crystallography that I was trying to get across and provides a palpable measure of gratification that almost overcomes the pain of having to do a disproportionate amount of marking!

Some of these students may be naïve enough to take at face value the idea that they have just taken their ‘final’ exams. They will soon be disabused of this fanciful notion. Judgement is nigh on inescapable in all walks of life (in some of which you will even be criticised for walking).

Judgement may be an intrinsic part of the scientific life and contribute disproportionately to its painful turbulence, but at least we get to see both sides. That, I suppose, should temper the experience.

Posted in Science, Scientific Life | 36 Comments

Making Movies

For three days last week I was at the EMBL in Heidelberg taking a fantastic course on data visualisation.

As is often the way with scientific training, the course was intense: lectures and practicals from 9 in the morning till 10 at night. This particular course was perhaps unusual in being divided into three modules even though each student focused on just one of them. There was one on programming in Python, one on writing applications for Mac OS X and one — which I took — on making computer animations using Maya.

The Maya course was taught by Gaël McGill, who runs Digizyme, an American company that specialises in scientific visualisation and is something of a pioneer when it comes to animation. For anyone interested in virology, check out their animation of reovirus cell entry.

Maya is a rather sophisticated program, to say the least. Gaël proved to be a very enthusiastic and patient teacher. We worked hard, very hard (!) but still only scratched the surface of the possibilities that Maya has to offer. It was great to have three days to get started with the program (although my brain took a pounding in the process). I now feel — metaphorically — that I have at least managed to master riding on two wheels, even if I am staying on the grass for now and every so often putting my feet down to stop myself falling over.
One of the most exciting aspects of learning this new program is that Gaël–as part of his academic work at Harvard Medical School–is developing a tool called mMaya that allows you to directly import the PDB files of the structures of macromolecules such as proteins and DNA to facilitate animation. This is a capability that I have been waiting for for about five years.

To give a idea of what can be done, I made a very quick animation on my return to the UK. It didn’t take that much effort to pull together, though I am hoping that it won’t take me too long to get up to some kind of decent speed with Maya.

Anyway, have a look at my teaser trailer.

 

 

Posted in Fun, Protein Crystallography | 13 Comments

Ceci n’est pas un blogpost

Load. Aim. Fire!!!!!
Cannons on HMS Victory
Grant application submitted. Who knows what will happen?
If you feel moved to comment, please do so randomly. I’m all out of evidence and logic.

Posted in Uncategorized | Tagged | 42 Comments