31 December 2005

From the Earth to the Moon -- mini series [url]

This is an amazing portrayal of space race... really great!

From the Earth to the Moon
1998 mini series
[fun]ooo [url]ooo

Astronaut Bio: Buzz Aldrin

A PhD from MIT! Wow!
[fun]ooo [url]ooo

30 December 2005


Link below contains an interesting map showing locations in NJ (including Livingston), where the Sopranos were filmed.




[loc]ooo [fun]ooo

Raritan River Boat Club

Raritan River Boat Club

A location in Sopranos episode 11

29 December 2005

When Scholarship and Politics Collided at Yale -- New York Times [clip]

Hi, Thought this was an interesting article about another Associate Prof. at Yale ! Have you heard from him? -marK

When Scholarship and Politics Collided at Yale
Published: December 28, 2005

David Graeber pulled a green object shaped like a Champagne cork out of his pocket. The plastic bullet that was fired at Mr. Graeber in Quebec City in 2001....Battles with the police are a fact of life for Dr. Graeber, an associate professor of anthropology at Yale and a self-proclaimed anarchist. It was his battle with Yale that surprised him.... The university notified him in the spring of 2005 that it would not renew his contract next year. Yale gave no reason, and officials said they could not discuss the dismissal because personnel matters were confidential.....
[general]ooo [clip]ooo

http://web.media.mit.edu/~anmol/ [url]

Potentially, some interesting links in relation to getting social network data sets for analysis.

HBO: The Sopranos

[fun]ooo [url]ooo

27 December 2005

Albert-László Barabási

[link]ooo [bioinfo]ooo

Scientists Link a Prolific Gene Tree to the Manchu Conquerors of China - New York Times

[from-friend]ooo [sci]ooo

Science Friday: Making Science Radioactive

[podcast]ooo [link]ooo [sci]ooo

Spy Agency Mined Vast Data Trove, Officials Report - New York Times [clip]

Interesting article that mentioned "traffic analysis," which appears to be a bit different than traditional wire tapping. It suggests how an "anonymous cell-phone" can be identified by network analysis on his calling patterns. It's what we discussed over dinner!

Spy Agency Mined Vast Data Trove, Officials Report




WASHINGTON, Dec. 23 - The National Security Agency has traced and analyzed large volumes of telephone and Internet communications flowing into and out of the United States as part of the eavesdropping program that President Bush approved after the Sept. 11, 2001........What has not been publicly acknowledged is that N.S.A. technicians, besides actually eavesdropping on specific conversations, have combed through large volumes of phone and Internet traffic in search of patterns that might point to terrorism suspects. Some officials describe the program as a large data-mining operation.....Officials in the government and the telecommunications industry who have knowledge of parts of the program say the N.S.A. has sought to analyze communications patterns to glean clues from details like who is calling whom, how long a phone call lasts and what time of day it is made, and the origins and destinations of phone calls and e-mail messages. ..."If they get content, that's useful to them too, but the real plum is going to be the transaction data and the traffic analysis," he said.


[general]ooo [mining]ooo

What is Web 2.0? The Trend Spotter -- O'Reilly [clip]

Thought the combination of these two was very interesting. Some key points I liked:

* The importance of data and databases and the question of ownership;
* The utility of lightweight programming models (RSS and AJAX v. SOAP);
* Multi-device software (e.g. iTunes and also RFID to SPINE)

What is Web 2.0?



The Trend Spotter


[general]ooo [computers]ooo [bioinfo]ooo


26 December 2005

A Doctor for the Future -- New York Times [clip]

Another interesting article about medicine and genetics going forward.
Seems rare diseases have a use!

A Doctor for the Future
Published: November 6, 2005

Dr. D. Holmes Morton stood at the front of the red-and-white-striped
tent set up in a farm pasture in Lancaster County, Pa. Behind him were a
horse and a buggy - his host's main mode of transportation - and a
whitewashed barn and silo. To his left was a sunken barbecue pit, with
60 chickens cooking inside a homemade wire-mesh spit. Before him were
seven families, upward of 50 people. The women wore bonnets and aprons....



XML-Binary Optimized Packaging -- Dr Dobb's [clip]

thought this might be interesting in relation to formats for large-scale array data
Dr. Dobb's Journal December, 2005

XML-Binary Optimized Packaging

XML and nontext data can work together
By Andrey Butov
Andrey is a software developer in the Fixed Income division of Goldman Sachs & Company. He can be contacted at andreybutov@ yahoo.com.

For several years now, the development community has followed the emergence of XML-based solutions to common data-representation problems. As a metalanguage, XML is a success. A cursory search reveals several of the more popular custom languages utilizing XML as a metalanguage, including MathML for representing mathematical concepts [1], Scalable Vector Graphics (SVG) for representing two-dimensional vector and raster graphics [2], and Really Simple Syndication (RSS) [3] for distributing news headlines and other relatively frequently updated data such as weblog postings, for consumption by, among other things, RSS aggregators....

[clip]ooo [computer]ooo

http://refman.com/ [url]

More reference manager software
[url]ooo [link]ooo



Are Jews Smarter? -- New York Magazine [clip]

A rather controversial discussion of the intersection of psychology, behavior and genetics. Note that one of the scientists behind this is a NAS member.




Are Jews Smarter?

Did Jewish intelligence evolve in tandem with Jewish diseases as a result of discrimination in the ghettos of medieval Europe? That's the premise of a controversial new study that has some preening and others plotzing. What genetic science can tell us and what it can't.

By Jennifer Senior

Need Proteins? Just Do It in Canada -- Bio-IT World [clip]

an interesting article about Al Edwards and SG costs


[bioinfo]ooo [clip]ooo


Need Proteins?
Just Do It in Canada


By Mark D. Uehling
Nov 15, 2005 | TORONTO — Shorts, sandals, and a polo shirt. In autumn. Maybe that is what Aled Edwards always wears to work. Maybe his wardrobe was designed to challenge American preconceptions of Toronto winters that last 11 months of the year. Or maybe no one cares what you wear when you drive the cost of finding a sinewy, convoluted protein structure down to $125,000 — perhaps a quarter of the typical cost at less-efficient centers....


25 December 2005

The New Yorker: UP IN THE AIR

troops out and planes in
Where is the Iraq war headed next?
Issue of 2005-12-05
Posted 2005-11-28
In recent weeks, there has been widespread speculation that President George W. Bush, confronted by diminishing approval ratings and dissent within his own party, will begin pulling American troops out of Iraq next year. The Administration’s best-case scenario is that the parliamentary election scheduled for December....

The MySpace Generation - Business Week

[general]ooo [computers]ooo
DECEMBER 12, 2005
The MySpace Generation
They live online. They buy online. They play online. Their power is growing

The Toadies broke up. It was four years ago, when Amanda Adams was 16. ... She found it on Buzz-Oven.com, a social networking Web site for Dallas teens.

Googling For Gold - Business Week

[general]ooo [computers]ooo

DECEMBER 5, 2005

With the news that shares of online search giant Google Inc. (GOOG ) had crossed the lofty $400-per-share mark on Nov. 17, the world may have witnessed something akin to the birth of a new financial planetary system. Given its market cap of $120 billion, double that of its nearest competitor, Yahoo!, Google now has the gravitational pull to draw in a host of institutions and company matchmakers unable to resist the potential profit opportunities. Google stock, with a price-earnings ratio of 70, represents one of the richest dealmaking currencies anywhere....

The Agency That Could Be Big Brother - New York Times [clip]

An interesting article that highlights issues with data mining.


The Agency That Could Be Big Brother


Published: December 25, 2005

DEEP in a remote, fog-layered hollow near Sugar Grove, W.Va., hidden by fortress-like mountains, sits the country's largest eavesdropping bug. Located in a "radio quiet" zone, the station's large parabolic dishes secretly and silently sweep in millions of private telephone calls and e-mail messages an hour.....

22 December 2005

Andrew's conntea site

Andrew's conntea site

20 December 2005

NYTimes: Through His Webcam, a Boy Joins a Sordid Online World [clip-h]

Seems to be the polar opposite of the Nanny Cam!

Through His Webcam, a Boy Joins a Sordid Online World



Published: December 19, 2005

The 13-year-old boy sat in his California home, eyes fixed on a computer screen. He had never run with the popular crowd and long ago had turned to the Internet for the friends he craved. But on this day, Justin Berry's fascination with cyberspace would change his life....

[general]ooo [clip]ooo

19 December 2005

http://www.library.yale.edu/cite [url]

Reference manager software

18 December 2005

USA People Search


RiskMetrics Group

Featured in the Times!
The Boss Actually Said This: Pay Me Less
Published: December 18, 2005

BLIZZARDS swept through Wall Street last week - bonus blizzards, that is. Henry M. Paulson Jr., chief executive of Goldman Sachs, received $37 million in shares and options. Richard S. Fuld Jr. of Lehman Brothers got $15 million in...

Start With a Stock Index. Now Try to Turbocharge It. - New York Times


Start With a Stock Index. Now Try to Turbocharge It.
Published: December 18, 2005

A NEW kind of designer index fund has arrived on the scene. Instead of trying merely to match the performance of the stock market, as measured by some broad index like the Standard & Poor's 500, these new funds are aiming to outperform it....

http://freakonomics.com [clip-h]ooo

Here's column associated with the book... It show's interesting negative correlation.


The Economy of Desire

Published: December 11, 2005
Analyzing a Sex Survey
What is a price?

Unless you're an economist, you probably think of a price as simply the amount you pay for a given thing - the number of dollars you surrender for, let's say, Sunday brunch at your favorite neighborhood restaurant. But to an economist, price is a much broader concept. The 20 minutes you spend waiting for a table is part of the price. So, too, is any nutritional downside of the meal itself: a cheeseburger, as the economist Kevin Murphy has calculated, costs $2.50 more than a salad in long-term health implications. There are moral and social costs to tally as well - for instance, the look of scorn delivered by your vegan dining partner as you order the burger. While the restaurant's menu may list the price of the cheeseburger at $7.95, that is clearly just the beginning.

Bush Lets U.S. Spy on Callers Without Courts - New York Times

[general]ooo [swim]ooo
December 16, 2005
Bush Lets U.S. Spy on Callers Without Courts

WASHINGTON, Dec. 15 - Months after the Sept. 11 attacks, President Bush secretly authorized the National Security Agency to eavesdrop on Americans and others inside the United States to search for evidence of terrorist activity without the court-approved warrants ordinarily required for domestic spying, according to government officials.

Under a presidential order signed in 2002, the intelligence agency has monitored the international telephone calls and international e-mail messages of hundreds, perhaps thousands, of people inside the United States without warrants over the past three years in an effort to track possible 'dirty numbers' linked to Al Qaeda, the officials said. ....

16 December 2005

SlidesFall04 (YCMI / Lessons)


People Search - Background Checks - Public Records - Find People

revealing link

11 December 2005

Computational Biology and Functional Genomics Laboratory

John Q lab.

10 December 2005

The Day the Sea Came - Free Preview - The New York Times

The Day the Sea Came - Free Preview - The New York Times: "FREE PREVIEW Sign In to E-Mail This
The Day the Sea Came
*Please Note: Archive articles do not include photos, charts or graphics. More information.
November 27, 2005, Sunday
Late Edition - Final, Section 6, Page 47, Column 1, 18641 words

DISPLAYING FIRST 50 OF 18641 WORDS -For the earth, it was just a twinge. Last Dec. 26, at 7:59 a.m., one part of the planet's undersea crust made an abrupt shift beneath another along a 750-mile seam near the island of Sumatra. The tectonic plates had been grating against each other for millenniums, and now..."

THE WAY WE LIVE NOW:11-27-05: IDEA LAB; Revolting High Rises - Free Preview - The New York Times

THE WAY WE LIVE NOW:11-27-05: IDEA LAB; Revolting High Rises - Free Preview - The New York Times: "THE WAY WE LIVE NOW:11-27-05: IDEA LAB; Revolting High Rises
*Please Note: Archive articles do not include photos, charts or graphics. More information.
November 27, 2005, Sunday
Late Edition - Final, Section 6, Page 28, Column 3, 1076 words

DISPLAYING FIRST 50 OF 1076 WORDS -There is a somewhat comic lining around the cloud of France's suburban riots. Suddenly the word banlieue has been embraced by people not known for peppering their conversation with French words -- callers to right-wing talk shows, for instance. Obviously, they want to stress how different those suburbs (burning..."

Coach Leach Goes Deep, Very Deep - New York Times

[fun]ooo [inpool]ooo
Coach Leach Goes Deep, Very Deep
Published: December 4, 2005

7:02 . . . 7:01 . . . 7:00 . . .

It was still ordinary time. The seconds ticked off the digital clock on the locker-room wall. A smell: the acrid odor of vomit. They were still ordinary college football players, and a few of them had lost their pregame meals to a war of nerves. Side by side at their lockers the players sat, silently, almost penitently, stomachs churning, waiting for their coach to show up and to make the place a lot less ordinary.....

06 December 2005

Science Projects in Genetic Data and Physics Win Scholarships - New York Times

Science Projects in Genetic Data and Physics Win Scholarships - New York Times: "Science Projects in Genetic Data and Physics Win Scholarships

Published: December 6, 2005

As summer interns working at a laboratory in Phoenix, Anne Lee and Albert Shieh, two high school students, came across a problem reading computerized information on the human genome"....

05 December 2005

Bioinformatics: Detection of DNA copy number alterations using penalized least squares regression [clip]

looks interesting in relationship to CGH

T. Huang, B. Wu, P. Lizardi, H. Zhao (2005)
Detection of DNA copy number alterations using penalized least squares regression
Bioinformatics (in press)

"I thought if I married a hub, I'd get an edge."

A quote at ORFeome 2005



NYTimes: Wheels and Deals in Silicon Valley [clip-h]

Appears that all that cycling up Page Mill in the early '90s was the beginning of a building trend....

Wheels and Deals in Silicon Valley






Published: December 4, 2005

NY Times


RANDY KOMISAR, a Silicon Valley venture capitalist, used to consider his cycling habits extreme even by the standards of the fanatically fit Bay Area. An energetic 51, Mr. Komisar says he rides 70 miles a day on the weekends and more than 10,000 miles a year on his custom-built titanium Serotta road bike. In Silicon Valley even sweat is quantifiable, so each week he is careful to log at least 10,000 vertical feet, climbing the golden hills of the Santa Cruz Mountains....

04 December 2005

NYTimes - Rewriting History: Snared in the Web of a Wikipedia Liar [clip-h]

thought this was interesting in relation to traceability of internet info. and also defamatory websites...



NYTimes - Rewriting History: Snared in the Web of a Wikipedia Liar



FALSE WITNESS How true are "facts" online?



Published: December 4, 2005


ACCORDING to Wikipedia, the online encyclopedia, John Seigenthaler Sr. is 78 years old and the former editor of The Tennessean in Nashville. But is that information, or anything else in Mr. Seigenthaler's biography, true?


The question arises because Mr. Seigenthaler recently read about himself on Wikipedia and was shocked to learn that he "was thought to have been directly involved in the Kennedy assassinations of both John and his brother Bobby."....

The Gamer as Artiste - New York Times

Pixel Canvas
The Gamer as Artiste
Published: December 4, 2005

LAST week, I spent several days living - and dying - inside the new Xbox 360 console, with four popular games pegged as particularly cinematic. I entered as a curious novice, less concerned with breaking the games than with exploring the worlds they opened, and the worlds you die in.....
I died as a princess in a green miniskirt, as a space warrior, a World War II soldier named Vasili and a humorless F.B.I. agent tracking a sadistic killer. My deaths, rendered in state-of-the-art detail, were not illustrious or mourned.

03 December 2005

Gimme an Rx! Cheerleaders Pep Up Drug Sales - New York Times


01 December 2005

http://www.cfar.umd.edu/~fer/optical [url]ooo

Liked the optical illusions on :
http://www.cfar.umd.edu/~fer/optical ,

Do people study how they can trick mice with illusions?

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