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Gene Expression

Archive for November, 2010

« Older Entries

The naked years: the end of privacy

I do talk periodically on this weblog about the coming ‘transparent society.’ The main reason I bring up the issue is that I think it is probably inevitable, and, I think we’re sliding toward it without even reflecting on it too much. Many people are very surprised at how little time it takes to find information on them in Spokeo and Pipl. Curious about where someone you lost touch with from high school has lived? Go to Intelius.

Rereading David Brin’s original 1996 essay introducing the idea in Wired I’m struck by the fixation on old-fashioned cameras. To me, what people do is almost less interesting than what they’ve done. How much did they buy their house for? Where did they go to university? Did they graduate? Who did they marry? Interestingly, much of this information is offered up freely by the individuals themselves.

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November 30th, 2010 Tags: Privacy, Transparent Society
by Razib Khan in Technology | 16 Comments » | RSS feed | Trackback >

Of interest around the web & elsewhere – November 29th, 2010

Goodbye November.

Male Reproductive Problems May Add to Falling Fertility Rates. There’s an implication that there may be epigenetic and developmental reasons for this phenomenon. But check out this quote: “Today, at least one in five 18-25 year old men in Europe have semen quality in the subfertile range.” I’m starting to wonder about genetic load W. D. Hamilton style. If death doesn’t prune the deleterious alleles, perhaps PGD is going to be necessary in the face of rising infertility. Or somatic genetic engineering.

Now a Giant, Google Works to Retain Nimble Minds. I, like every nerd, have friends who work at Google. Great food. Awesome company. Smart people. But I do wonder if the cycle of institutional sclerosis is speeding up. IBM maintained hegemony for decades. Microsoft’s time in the sun really didn’t make it to the 20th year (I think 1990 is a good compromise year to peg the age of Microsoft, though it really got going with Windows 95 and had some juice in the days of MS-DOS. Facebook is already breathing down Google’s neck. This doesn’t mean that Google won’t be profitable, Microsoft is still making bank, and will do so for years to come. But It companies may be more and more ephemeral.

Information overload, the early years. In some ways the internet is, I believe, qualitatively different from previous information revolutions. But the critics really do repeat old & tired arguments, which pre-date the printing press, and go back to alphabetic script in ancient Greece. I assume that cuneiform and hieroglyph elicited the same concerns, but we don’t have records of that.

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November 29th, 2010 Tags: Blog
by Razib Khan in Blog | 32 Comments » | RSS feed | Trackback >

No Romans needed to explain Chinese blondes

uyghurboy
Uyghur boy from Kashgar

Every few years a story crops up about “European-looking” people in northwest China who claim to be of Roman origin. A “lost legion” so to speak. I’ll admit that I found the stories interesting, amusing, if  implausible, years ago. But now it’s just getting ridiculous. This is almost like the “vanishing blonde” meme which always pops right back up. First, let’s quote from The Daily Mail,* DNA tests show Chinese villagers with green eyes could be descendants of lost Roman legion:

For years the residents of the remote north western Chinese village of Liqian have believed they were special.

Many of the villagers have Western characteristics including green eyes and blonde hair leading some experts to suggest that they may be the descendants of a lost Roman legion that settled in the area.

Now DNA testing of the villagers has shown that almost two thirds of them are of Caucasian origin.

The results lend weigh to the theory that the founding of Liqian may be linked to the legend of the missing army of Roman general Marcus Crassus.
Enlarge

In 53BC, after Crassus was defeated by the Parthians and beheaded near what is now Iran, stories persisted that 145 Romans were captured and wandered the region for years.

…

As part of their strategy Romans also hired troops wherever they had conquered and so many Roman legions were made up not of native Romans, but of conquered men from the local area who were then given training.

250px-Statue-AugustusLet’s start from the end. The last paragraph indicates a total ignorance of the nature of military recruitment during the late Republic. In the year 110 BC the Roman army was composed of propertied peasants. These were men of moderate means, but means nonetheless. They fought for the Republic because it was their duty as citizens. They were the Republic. Due to a series of catastrophes the Roman army had to institute the Marian reforms in 107 BC. Men with no means, and who had to be supplied with arms by the Republic, joined the military. This was the first step toward the professionalization of the Roman legions, which naturally resulted in a greater loyalty of these men to their leaders and their unit than the Republic. Without the Marian reforms Sulla may never have marched on Rome. By 400 AD the legions were predominantly German in origin, and supplemented with “federates,” who were barbarian allies (though alliances were always subject to change). But in 53 BC this had not happened yet. The legions who marched with Crassus would have been Roman, with newly citizen Italian allies in the wake of the Social War. The legions of the Julio-Claudians were probably still mostly Italian, a century after Crassus (service in the legions, as opposed to the auxiliaries, was limited to citizens, who were concentrated among Italians). So that objection does not hold.

(more…)

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November 29th, 2010 Tags: Archaeogenetics, China, Genetics, History, Roman Chinese, Tocharians, Uyghurs, Xinjiang
by Razib Khan in Genetics, Genomics, History | 29 Comments » | RSS feed | Trackback >

Slouching toward transparency

In regards to the WikiLeaks story, it seems that:

- The explosive stuff is really a shift from assumed understanding to explicit acknowledgment. For example, that Arab nations are just as terrified of Iran’s nuclear program as Israel.

- The surprising stuff is more funny or strange. More like gossip you wouldn’t have guessed, but isn’t really that significant in the broad canvas of diplomatic history.

Strangely, I sort of think this is of a piece with the recent “Teacher’s Union Gone Wild” videos. Basically, the expectation of privacy is disappearing, on the grandest and most mundane scales. In the latter case, a woman was chatted up at a bar, and recorded for hours on end. Unfortunately for her, she used to the N-word, though not even in a offensive context (follow the link). Who hasn’t run their mouth off at a bar? Make sure you don’t have enemies! Imagine how someone could utilize damaging conversations in office politics. On the grand scale you have problems of coordination across agencies where secrecy and confidentiality are of the essence.

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November 28th, 2010 Tags: Transparent Society
by Razib Khan in Technology | 8 Comments » | RSS feed | Trackback >

Internet usage by country

In my post below on the rise of China, I ran into the data on internet usage by country again. I was online regularly by the spring of 1995, and it’s amazing to think that there are hundreds of millions of Chinese on the internet now! The World Bank estimates that both China and India have exhibited an increase of internet usage by an order of magnitude from 2000-2010, though from different bases. So while there are ~300 million Chinese users of the internet, there are ~50 million Indians. But who would have guessed that Nigeria has more per capita internet users than India? See below.

(more…)

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November 28th, 2010 Tags: Data, Internet
by Razib Khan in Culture, Data Analysis, Technology | 6 Comments » | RSS feed | Trackback >

Latitudes and continents

Thanksgiving in the tropics:

Finally, here are some pictures I took today. It was way too hot and humid when we first got to Taiwan, but now we’re getting some lovely winter weather – Taiwan is about the same latitude as Hawaii :-) It sure doesn’t feel like Thanksgiving or Xmas around here!

One aspect of the East Eurasian temperate zones is that they are far to the south of the West Eurasian temperate zones. Cork, Ireland, at about the same latitude as Petropavlovsk, Kamchatka, and eight degrees further north than Vladivostok!

But since Steve brought up Hawaii, let’s compare highs and lows in Honolulu, and Hanoi, two cities at 21 degrees north. On the literal margins of the tropics:

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November 28th, 2010 Tags: Climate
by Razib Khan in Science | 6 Comments » | RSS feed | Trackback >

Taking the end of the age seriously

I am about two-thirds of the way through Why the West Rules-for Now: The Patterns of History, and What They Reveal About the Future, and I have to agree with Tyler Cowen’s assessment so far. The author is an archaeologist, and though a little less shy in regards to general theory than most in his profession, he still seems to exhibit the tendency to focus on thick-detail without any elegant theoretical scaffolding. In some ways it is an inversion of Gregory Clark’s A Farewell to Alms: A Brief Economic History of the World, which manifests an economist’s preference for stylized system-building at the expense of the messy residual. Why the West Rules has added almost no broad-brush theoretical returns beyond what you could find in Guns, Germs and Steel and The Wealth and Poverty of Nations. Though the author has a lot of scrupulously footnoted detail which probably makes Why the West Rules a worthy read.

(more…)

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November 28th, 2010 Tags: China, economic history, History, international relations, world history
by Razib Khan in Culture, History | 65 Comments » | RSS feed | Trackback >

Open Thread – November 27th, 2010

Hope Thanksgiving went well for Americans. I didn’t gain weight at all, 142lbs as of Friday morning!

Out of curiosity, what fiction do you read?

Also, check out Dienekes post on the ability to generate disjoint clusters in the DODECAD sample set. He asserts that one may now be able to generate extreme fine-scale assessments of likely population assignment from genetic material now. Check out this table; each column after the first two are the number of individuals in a given cluser. The rows are populations. The second column are the N individuals.

Last week’s This American Life had a segment on dog feces DNA fingerprinting. I think this is a good idea.

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November 27th, 2010 Tags: Blog
by Razib Khan in Blog | 18 Comments » | RSS feed | Trackback >

Assorted links related to this weblog

23andMe kits are discounted to $99 from $499 today.

My twitter account: http://twitter.com/#!/razibkhan

My total content feed: http://www.razib.com/wordpress (rss: http://www.razib.com/wordpress/?feed=rss2)

The blog’s Facebook page: http://www.facebook.com/GeneExpression (content gets fed onto this page via Networked Blogs)

My ResearchBlogging page: http://researchblogging.org/blogger/home/id/1604 (65 posts)

The original Gene Expression: http://www.gnxp.com

And finally, my “personal home page”: http://razib.com

If you have a blog/website of interest to readers of this weblog, feel free to leave it in the comments

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November 26th, 2010 Tags: Blog
by Razib Khan in Administration, Blog | 6 Comments » | RSS feed | Trackback >

Friday Fluff – November 26th, 2010

FF3

1. First, a post from the past: Innate social aptitudes of man.

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November 26th, 2010 Tags: Friday Fluff
by Razib Khan in Blog | 3 Comments » | RSS feed | Trackback >

Eating, and eating well

turk
Credit: tuchodi

Happy Thanksgiving Day to all the Americans out there. This is a day to loosen the belt a bit, but after the Holidays you probably want to think about slimming back. So, ScienceDaily, Obesity Riddle Finally ‘Solved’, and, Diets with High or Low Protein Content and Glycemic Index for Weight-Loss Maintenance. The upshot seems to be that a high protein-low (refined) carb diet worked best in a large sample of Europeans.

Myself, I was in the 155-165 pound range between 2000 and 2007. 2008-2010 I’ve been in the 140-150 range, and usually closer to the low end than the high. I went from a waist size in the 31-33 inch range to 28-30 range (I wear 28s regularly now). I’m moderately active in that I walk a lot, but I have totally turned away from refined carbs. I am not a religious ‘Paleo’, but I do track glycemic indices and glycemic loads for various foods rather closely. That being said, different people have different biologies. I think that’s important to remember. As a South Asian I have a higher risk for type 2 diabetes, so I’m particularly vigilant about sugar and other variables which increase my probabilities for chronic diseases. If I was a Northern European I might have different priorities, and chill out a little bit about dessert. Life is about trade-offs, and pleasures do often have costs. I am not much of a sweet-tooth, and I’m genetically predisposed to type 2, so my aversion toward sweets is a rather simple calculation. Others may have different outcomes performing the same operations because of different inputs. The answer to a riddle may vary depending on who is asking.

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November 25th, 2010 Tags: Diet
by Razib Khan in Blog | 11 Comments » | RSS feed | Trackback >

We were all Africans…before the intermission

modelhumanQuick review. In the 19th century once the idea that humans were derived from non-human ancestral species was injected into the bloodstream of the intellectual classes there was an immediate debate as to the location of the proto-human homeland; the Urheimat of us all. Charles Darwin favored Africa, but in many ways this ran against the cultural grain. The theory of evolution was birthed before the highest tide of the age of white supremacy and European hegemony, and Darwin’s model had to swim against the conviction that Africans were the most primitive of the colored races. After the waning of the ideological edifice of white supremacy, and the shock it received during and after World War II, the debates as to the origin of humanity still remained contentious and followed the same outlines (though without the charged normative inferences). But as the decades wore on many more researchers began to believe that Darwin was correct, and that the origin of humanity lay in the African continent. First, the deep origin of the human lineage in Africa was accepted, but eventually a more recent expansion out of Africa was argued for by one school. The turning point in these academic disputes was the popularization of the “mitochondrial Eve” theory of the 1980s.

What some paleontologists had long argued, that anatomically modern humans have their locus of origin in Africa, was supported now by research from genetics which indicated that Africans were the most basal clade of humans on a continental scale, so that non-Africans could be conceived of as a subset of Africans. From this originates the chestnut of wisdom that Africans have more genetic diversity than all other human populations combined. By the year 2000 one could say that the “Out of Africa” triumphalism had proceeded to the point where an almost exterminationist model had taken hold when it came to the relationships of anatomically modern H. sapiens, and other groups which had evolved outside of Africa over the past million or so years, such as the Neandertals.

ResearchBlogging.orgBut the theoretical dichotomies were too coarse and absolute as it turns out. A division between multiregionalist phyletic gradualism, where H. sapiens evolved out of its hominin ancestors concurrently on a world wide scale, and a model of rapid expansion of one tribe in Africa to replace all others in totality, may have been warranted in the age of classical genetics and a morphometric analysis, but now we can look at the raw genomic material in a more fine-grained fashion. In fact, we can now look at the genomic patterns of variation among extinct hominins! Though there have long been hints that the expansion-and-replacement paradigm was too extreme from the genetic and morphological data, with the publication last spring in Science of a paper which made the claim for admixture between Neandertals and non-Africans in the range of 1-4% in all non-African groups based on a comparison of Neandertal and modern human genetic variation, one can dismiss absolutist expansion-and-replacement as self-evidently true orthodoxy. But one orthodoxy has no given way to another, and the shock to the old models presented by the data has not resulted in the coalescence of new robust paradigms. We live in a time of scientific troubles, so to speak.

(more…)

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November 24th, 2010 Tags: Eurausicans, Genetics, Human Evolution, India, Indian genomics, Multiregionalism, Out-of-Africa
by Razib Khan in Anthroplogy, Evolution, Genetics, Genomics, Human Evolution, Human Genetics | 22 Comments » | RSS feed | Trackback >

North Korea vs. South Korea

There isn’t a lot of good data coming out of North Korea, but I thought the following charts would be of interest. USA and Mexico included for comparison. In case you don’t know, the South Korea = Republic of Korea, North Korea = Democratic People’s Republic of Korea.

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November 24th, 2010 Tags: Korea
by Razib Khan in Culture, Data Analysis | 9 Comments » | RSS feed | Trackback >

The inevitable social brain

ResearchBlogging.orgOne of the most persistent debates about the process of evolution is whether it exhibits directionality or inevitability. This is not limited to a biological context; Marxist thinkers long promoted a model of long-term social determinism whereby human groups progressed through a sequence of modes of production. Such an assumption is not limited to Marxists. William H. McNeill observes the trend toward greater complexity and robusticity of civilization in The Human Web, while Ray Huang documents the same on a smaller scale in China: A Macrohistory. A superficial familiarity with the dynastic cycles which recurred over the history of Imperial China immediately yields the observation that the interregnums between distinct Mandates of Heaven became progressively less chaotic and lengthy. But set against this larger trend are the small cycles of rise and fall and rise. Consider the complexity and economies of scale of the late Roman Empire, whose crash in material terms is copiously documented in The Fall of Rome: And the End of Civilization. It is arguable that it took nearly eight centuries for European civilization to match the vigor and sophistication of the Roman Empire after its collapse as a unitary entity in the 5th century (though some claim that Europeans did not match Roman civilization until the early modern period, after the Renaissance).

It is natural and unsurprising that the same sort of disputes which have plagued the scholarship of human history are also endemic to a historical science like evolutionary biology. Stephen Jay Gould famously asserted that evolutionary outcomes are highly contingent. Richard Dawkins disagrees. Here is a passage from The Ancestor’s Tale:

…I have long wondered whether the hectoring orthodoxy of contingency might have gone too far. My review of Gould’s Full House (reprinted in A Devil’s Chaplain) defended the popular notion of progress in evolution: not progress towards humanity – Darwin forend! – but progress in directions that are at least predictable enough to justify the word. As I shall argue in a moment, the cumulative build-up of compelx adaptations like eyes strongly suggest a version of progress – especially when coupled in imagination with of the wonderful products of convergent evolution.

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November 24th, 2010 Tags: Anthropology, Contingency, Convergent Evolution, Direction in Evolution, Eusociality, Evolution, Evolutionary Biology, Natural History, Orthogenetics, phylogenetics, Sociality, Taxonomy, Teleology
by Razib Khan in Biology, Evolution, Genetics | 17 Comments » | RSS feed | Trackback >

The rise of men & the fall of the non-men

Dienekes Pontikos ruminates on the changes in human genetic variation on a world-wide scale over the past 10,000 years based on an MDS plot of East Eurasian genetic variation which he generated. I’ve taken his plot and added geographical labels, so you can see the difference in scale between geography and genetics in terms of distance:

pcaeast

He argues:

(more…)

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November 23rd, 2010 Tags: East Asian, History, Japan
by Razib Khan in Genetics, Genomics, History | 15 Comments » | RSS feed | Trackback >

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    • About Gene Expression

      Razib Khan’s degrees are in biochemistry and biology. He has blogged about genetics since 2002, previously worked in software development, is an Unz Foundation Junior Fellow and lives in the western US. He loves habaneros.

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      • Abortion polls, gay marriage polls: Why are we becoming liberal on some issues but not others? - Slate Magazine
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