Tag: science

How inevitable is synthetic biology?

I love watching talks and seminars online.  It is in so many ways superior to watching them in person.  You can pause the talk to discuss it with your friends out loud, or to look something up online.  You can skip the boring introduction.  You can stop watching the talk if it’s lame, and try another one, and keep trying until you find a good one.  Maybe best of all, there are vastly more talks available online than even at a large and diverse institution.  The one plausible weakness is the lack of interactivity – you can’t ask questions.  But it turns out that the Q&A part of most public talks (and even departmental colloquia) kind of suck.  You can mitigate this weakness by watching the talk with other people who are thoughtful and intelligent, and talking to them about it during and after.

Rene, Michelle and I sat down last night and watched this excellent debate between Drew Endy from Stanford/MIT and Jim Thomas, put on by The Long Now Foundation.  The formal presentation/debate portion is an hour long, and is followed by another hour of discussion.  Endy is in favor of an open source type model for synthetic biology, with the technology being available to basically anyone.  Thomas thinks it should be controlled, and kept out of the hands of potentially dangerous actors: the military, the corporate oligarchy, etc.  Their positions are of course more subtle and well thought out than that, but you can only fit so much into a nutshell.

Continue reading How inevitable is synthetic biology?

A Letter to Richard Rhodes

Dear Richard Rhodes,

Thank you for writing The Making of the Atomic Bomb.  It was beautiful, and terrible, in the way I imagine a nuclear detonation might be.  It deeply changed the way I think and feel about history, about technology, and about the role and limitations of human volition and foresight in the making and potential unmaking of our world.  Somehow you made these people human, and independent of the roles they played.  You made the science beautiful, and the history engaging.  Given that books like yours exist, I am appalled that I was not required to read them in the course of my scientific education, and instead have had to stumble across them on my own.  I think science and engineering students deserve to have some understanding of the potential scope and consequence of our work, for better or for worse, before we are turned loose on the world.  Too often the ethical and philosophical impacts of technology are left completely unaddressed, or even shunned as irrelevant by scientists, until after the effects are widespread.  I doubt this kind of education would have much substantive impact on the overall course of history, or technological development, but I once attended a talk at Caltech by Hans Bethe on the Manhattan Project, and even after half a century he broke down into tears on stage.  He said he didn’t regret having helped create the bomb — that it had to be done — but that he felt guilty for having enjoyed it.  I would prefer that we were better prepared for the possibility of bearing that kind of responsibility, and for taking it on knowingly, as I think Oppenheimer and Rabi did, instead of only realizing our roles after the fact.

Continue reading A Letter to Richard Rhodes

Shared Links for Apr 30th

  • Transparency means nothing without justice – Government transparency is necessary, but not sufficient. If police violence is recorded and publicized, and nobody cares, it doesn't matter. This is in come sense emblematic of the coup in western propaganda. You don't need to control the media as the Soviets did or the Chinese do, if your population is comfortable enough not to care what's happening out there to someone else, and if their voting patterns are firmly tied to other issues (especially social issues like abortion), the idea of a democratic revolt becomes fairly abstract. I think this where a lot of the government's fear of economic recessions comes from. When people are out of work, or even hungry, suddenly they become a lot more excitable. (tagged: transparency law police politics technology internet )
  • Condensing steam without water – Concentrating solar thermal power stations are ultimately designed to run a steam turbine, just like a gas-fired power plant. That means they need water (to turn into steam). Problematically, most such plants use water as a condensing coolant (70% of Caltech's water usage is as coolant for our 14MW worth of gas-fired power)… which is going to be hard to come by in the desert, where CSP will be built. Thankfully, there's a way to recondense steam without using a water coolant – but it does require a huge cooling tower. Not so great in Pasadena, but probably fine in the Mojave, next to acres and acres of mirrors. (tagged: solar energy technology sustainability green electricity water )
  • Rousing a Latent Defense Mechanism to Fight HIV – It turns out there is a gene in humans that produces a protein which inhibits infection by HIV, but it has a mutation – a premature stop codon – which prevents it from being effectively synthesized. This mutation doesn't exist in most Old World monkeys (and that's apparently why they can't get HIV). Undoing the mutation allows the protein to be synthesized, and grants HIV immunity to human cells. I imagine that undoing bad mutations like this, and our inability to synthesize vitamin C, might be the first place we see human germ-line engineering outside of disease avoidance (preventing e.g. cystic fibrosis). Really, these mutations are hard to distinguish from genetic diseases – they're just diseases that we, as a species, have learned to live with. (tagged: genetic engineering hiv aids biology science research plos medicine )
  • Anna in the Middle East – Anna Baltzer is a Jewish American who got a Fulbright fellowship to live in the West Bank in 2005, and document the experiences of Palestinians. She's been giving presentations about it ever since. Some parts of her presentation are available via YouTube too. From the 15 minutes I watched she seemed like a level headed critic. She's speaking in Boulder and Denver in May. (tagged: israel palestine politics fulbright peace war )
  • Twitter + Stimulus = Humans are Gullible – A wonderful demonstration of the power of the confirmatory bias. Twitter is the perfect platform for the injection of random falsehoods. Too short for citations. Instantaneous distribution. Make sure your followers are predisposed to agree with what you say, and you can get them to believe just about anything – within that constraint. Too bad the author seems to think this only applies to conservatives. (tagged: politics twitter statistics propaganda )

Shared Links for Apr 28th

Shared Links for Apr 17th

Shared Links for Apr 8th

  • The secret, social lives of bacteria – Cooperative behavior between bacteria, both inter and intra species, coordinated via chemical messages. Behavior like "should we make light?" and "should we kill the host now?". Scary, awesome, and a beautiful system to investigate with algorithmic game theory! (tagged: cooperation biology technology bacteria science )
  • Computational Legal Studies – More people using machines to understand politics. A whole new class of dual use technology. Propaganda or transparency? Manipulation or clarity? Unauthorized social networking. (tagged: transparency technology government law )
  • Public Private Investment Partnerships a la Enron – Giving banks the ability to both buy and sell into the toxic asset markets being set up under PPIP is a recipe for market gaming in the tradition of Enron, as outlined in this example. Great, a trillion dollar Enron! (tagged: finance bailout economics policy enron ppip banks )
  • The New Nostradamus – Bruce Bueno de Mesquita uses large game theory simulations to try and predict the outcomes of complex negotiations involving many parties, both economic and political. Sounds interesting. Also sounds a little bit like bullshit. But apparently the CIA did a prospective trial (no backtesting bias) and found that the models made accurate predictions something like 90% of the time, when the analysts providing the inputs to the model made wrong predictions. Not so surprising that computers are better at synthesizing massive logical datasets into an outcome. The hard part seems like it would be getting the right inputs, and also trusting that people behave rationally, and (perhaps) know what's good for them. (tagged: economics politics science math prediction gametheory technology )
  • Ice Shelf Instability Backgrounder – A good backgrounder from last summer on the Wilkins Ice Shelf (which has just collapsed), and shelf dynamics in general, with links to the relevant literature. None of this is quite as sudden and shocking as the media reports have made it out to be. (tagged: climate antarctica ice shelf )

Shared Links for Apr 6th

  • Sing a dirge for the unused adipic acid – An essay on the unpleasantries of being lab safety officer, and the sentimental attachment that scientists have to their expired reagents. (tagged: science chemistry lab safety )
  • Does carbon-eating cement deserve the hype? – A process for manufacturing cement which sequesters CO2 (instead of releasing it) has been recently hyped. Chemistry looks dodgy though, and the company (Calera) is not forthcoming with details, or even a gross inputs/outputs for their miracle black box. Caveat emptor. (tagged: carbon climate technology cement )
  • Self Irrigating Planter Resources – A nice little gathering of pointers to information on DIY self-watering planters. Still trying to figure out how one might be able to use tires to make one of these…. (tagged: gardening technology food sustainability urban )
  • The Case Against Breast-Feeding – Backlash against the relatively new social imperative (in the west) that women must breastfeed to be good mothers. I think the real issues are that we haven't structured our society and its expectations to meaningfully accommodate having children and equitable peer spousal relationships. I agree there's something broken, but I don't think it's breastfeeding. And I feel like it's another example of the Newtonian hangover… we're so used to being able to figure things out authoritatively, a la Newton, that we almost don't know how to deal with planning around and purturbing complex systems like the climate, or ecologies, or economies, or agricultural systems, or genomes, or nutrition… which we depend on, but don't understand fully (and because of their chaotic nature, may never understand fully. We're used to Apollonian systems, but actually we live in a Dionysian world. (tagged: science food children health breastfeeding society )
  • Collapse Of The Ice Bridge Supporting Wilkins Ice Shelf Appears Imminent – This ice shelf is 3x the area of Rhode Island. It's already floating, so it won't have any effect on sea level as it separates, but that's a lot of ice. Wish we had better time series for this kind of observation. Really need the best long term Earth monitoring system we can build. (tagged: environment climate antarctica ice )
  • The strengths of the academic enterprise – A great essay by Dijkstra on the nature of academia, and the problems of cooperation between entities with dramatically different time horizons. Who knew he was interested in things other than graph theory? (tagged: academia science sustainability education technology )

Dijkstra, the Buxton Index, and the Prisoner’s Dilemma

EW Dijkstra, the computer scientist, was fond of using a metric called the “Buxton Index“, which conveys the timescale on which an individual or institution makes its plans.  He thought that a lot of failures to cooperate, and other kinds of conflicts, were ultimately due to different actors having different time horizons.  Here are three of his short essays mentioning it:

It’s interesting in the context of, e.g. the Prisoner’s Dilemma, in which only an indefinite (or infinite) timescale can reliably result in cooperation (as detailed in Robert Axelrod’s book, The Evolution of Cooperation).  It certainly seems like we should have some metric of this kind in mind when considering the behaviors of various institutions.

Dijkstra notes that interestingly (at least in the west) virtually all of the institutions which are more than 500 years old are universities (two churches and two governments also qualify, out of 66 total).

I think its funny that Dijkstra was essentially blogging, by fountain pen, for decades.  He wrote out hundreds of these short numbered essays longhand, and sent copies of them to friends, who then copied them, and sent them on, etc.  He kept doing it this way even after everyone had e-mail!  I had no idea he was such an interesting guy.

Shared Links for Apr 3rd

  • Stealing Commodities – Our infrastructure is (unwittingly) built around the assumption that the materials it is composed of are, and will remain, cheap, and not worth the trouble of stealing. If this assumption breaks down, copper power lines start disappearing from the desert, and iron manhole covers begin to vanish in the night. Problematically, the raw materials (even when valuable) are still only a small fraction of the value of the infrastructure, meaning replacement costs are high. If commodities were to remain "expensive" in the long run (i.e. worth stealing), how would we re-design our infrastructure systems? (tagged: sustainability economics security infrastructure commodities )
  • Dyson as Sociologist? Death Trains, Values, & Climate Action – Not sure I know quite what to make of Nisbet's take on Dyson. I agree that the catastrophe narrative is dangerous, and much prefer Richard Alley's precautionary point of view, but I really think Dyson is catastrophically wrong on this, and potentially dangerous as a figurehead, whether knowing or unknowing. (tagged: climate science policy propaganda politics )
  • Argentine economics and maker culture – An interesting and personal look at mass production vs. local/handmade goods based on currency strength and protectionist trade barriers. Where labor is cheap, the food and goods are often unique. Where it's expensive, you get mass production. Makes me want to bike S. America. Again. (tagged: economics argentina local money food )
  • China Out to Dominate in Electric Cars (and Why Not GM) – A short chronicle of GM's missteps toward electric vehicles, and China's long view of the same. Honestly, I don't care much who does the dominating, so long as somebody gets this market going. (tagged: cars transportation technology economics china )
  • Oregon’s mileage tax experiment – If you can imagine an America in which vehicle fuel economy increases with time (despite the fact that our national fleet today gets the same mileage as a Ford Model T), then eventually, funding road maintenance with a gas tax becomes a problem. Instead of taxing the fuel, you need to directly tax the road usage – miles driven, normalized by some kind of wear-and-tear factor for a given vehicle. Thus, the idea of a VMT (vehicle miles traveled) tax. Political suicide, you say, but it worked in this (politically insulated) trial in Oregon, and is going ahead gangbusters in the Netherlands and other nations, coupled with GPS enabled congestion charging, and time/location dependent parking fees, it could go a long way toward making personal transportation costs transparent and efficiently priced. (tagged: transportation privacy taxes vmt cars oregon policy )

Shared Links for Mar 26th