DNA 'identichip' gives a detailed picture of a suspect

IMAGINE you are trying to solve a burglary, and your sole lead is a cigarette butt. It has enough DNA on it to check against the national DNA database, but this throws up no matches. Running the DNA through machines capable of identifying physical characteristics could help - only there is not enough DNA to deduce more than two traits.

A new all-in-one chip that can identify multiple traits should help. The Identitas v1 Forensic Chip allows investigators to home in on someone's gender, eye colour and hair colour, as well as ancestry - all based on a small sample of DNA such as that from saliva on a cigarette butt.

Developed by VisiGen, a consortium of universities and law enforcement agencies, the chip is the first to provide data on all these traits simultaneously. Other devices can determine at most two at a time - usually eye and hair colour.

The new chip contains hundreds of thousands of short sequences of DNA that bind to different single nucleotide polymorphisms (SNPs) - single letter variations in the genetic sequence - in the DNA sample. SNPs are indicative of physical traits, so once we know which SNPs are present in the sample, software can be used to compute likely appearance and ancestry.

The VisiGen team tested the chip on more than 3000 DNA samples collected around the world, and found that it was 99 per cent accurate at predicting gender. The chip also predicted European or East Asian ancestry with an accuracy of 97 per cent, and African ancestry in 88 per cent of cases. However, it was only 63 per cent accurate at predicting blond hair (International Journal of Legal Medicine, doi.org/j5k).

The tool is not accurate enough to secure convictions in court, but team member Aruna Bansal of New York biotech firm Identitas envisages it being useful in focusing investigations or corroborating eyewitness reports, as well as in identifying disaster victims. "It provides you with a starting point," she says. The current chip is ready to be launched and the team is now working towards a chip that can determine even more traits.

Erin Murphy, a professor of law at New York University, is concerned that this technology may encourage "police dragnets", in which anyone matching a profile created with such chips could be questioned. But VisiGen team member Manfred Kayser of the Erasmus Medical Center in Rotterdam, the Netherlands, counters that the authorities "already use all types of information for investigative purposes". With the chip, the only difference is that they will be looking at DNA-derived traits.

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Books: Suitable reading with or without 'Unsuitable Men' experience

Though relatively new to the world of women's fiction, Pippa Wright pens a comical read with her latest offering, 'Unsuitable Men'.

Set in London, 29-year-old Rory Carmichael is unwillingly launched back into single-hood after the end of her 11-year relationship.

After years of perceived domestic bliss with Martin, her boring but reliable 'Mr Right', Rory is stunned by the discovery of his infidelity, and is brutally forced to re-evaluate everything she thought of what she wanted in a relationship.

In a bid to revive her love life and lacklustre career at a posh magazine, Rory embarks on a mission to date as many unsuitable men – or 'Mr Wrongs' – as possible and write about them in an online column.

What follows is a series of hilarious encounters as she meets a variety of men, from rich elderly landowners and musicians, to war veterans and office interns.

Thankfully, the story is more than just a string of bad dates.

Rory's experiences take her on a journey of self-discovery, and over time she realises how much wrong she did to herself to accommodate her 'Mr.Right'.

Although fictional, Rory is a believable character you'll grow to like.

Readers can identify with her anxieties and fears as she struggles to find her place in the office, wonders how her relationship went downhill, and ponders her shelf-life while coping with feelings of loneliness.

As the story progresses, it is hard not to root for Rory as she gamely rolls with the punches that come her way.

Aside from the female protagonist, the narrative's supporting characters are also stars in their own right.

Most notable is Rory's colleague, Ticky – the office's self-appointed shoulder to cry on who speaks with a distinct drawl that the writer pens in exactly the way it sounds - from "oh my goouurd" to "raaahlly".

Though funny when spoken aloud, its novelty wears thin after a while and can become a bit grating.

Despite their bizarre personalities and quirks, Wright gives her characters a touch of vulnerability, making them more relatable and less like caricatures.

Overall, the narrative moves quite quickly, and Wright strikes a good balance between the more serious parts of the story and its laugh-out-loud moments.

Although the ending is somewhat predictable, as most books of this genre tend to be, it is still a light-hearted read for those with a couple of hours to spare.

It's clear that Wright was not looking to reinvent the wheel with 'Unsuitable Men', and it should be enjoyed for exactly what it is – a chick lit title with a good dose of British humour.

-CNA/sf

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At CES, two HP laptops do Windows 8 right

HP Spectre XT TouchSmart ultrabook makes Windows 8 a pleasure to use.

(Credit:
Brooke Crothers)

LAS VEGAS--At CES this week, Hewlett-Packard hardware got my attention.

Though the company has been savaged in the media because of dubious acquisition decisions and a falling stock price, its brief exhibition of new
Windows 8 laptops and hybrids at
CES was impressive.

I'll focus on two, the EliteBook Revolve and Spectre XT TouchSmart ultrabook-- both touch-capable Windows 8 laptops. The systems were fleetingly exhibited at CES by HP during an event at the MGM Grand event on Monday night.

I'll start with the Spectre XT TouchSmart because it was also at Intel's CES booth all week -- and available for any attendee to use. For me, it was my go-to laptop when I needed to escape the 11.6-inch screen constraints of my
MacBook Air.

HP calls it an ultrabook, but by ultrabook standards it's palatial, sporting a large 15.6-inch 1,920x1,080 resolution display. Other salient specs include an Intel Core i7-3517U 1.9GHz processor, 8GB DDR3 1600 MHz memory, and a 500 GB HDD with a 32GB solid-state drive cache.

The display is gorgeous -- and made it really hard for me to go back to the Air's cramped 1,366x768 display. The Spectre XT's 1,920x1080 resolution is perfect for a 15-inch class display running Window 8. Windows 8 fonts look smooth, well-resolved but not so small that you can't see them.

And speaking of Windows 8. I've tried my share of Windows 8 touch-screen laptops and this is hands-down the best experience I've had: fluid, fast, fun. No lag here.

And one final thought: though it weighs just under five pounds, I found the weight distribution excellent. That is, it feels lighter than a traditional, thick 5-pound laptop.

HP's 3-pound, 11.6-inch EliteBook Revolve seemed well-built, well-conceived and comes packed with impressive features, like a touch screen, integrated 4G connectivity, and Intel's Ivy Bridge processors.

I spent considerably less time with the EliteBook Revolve but walked away feeling it had a lot potential (it won't ship until March). In fact, if I was to design a Windows 8 road-warrior laptop, it would be pretty much what HP has delivered.

The Revolve is a convertible. That is, it has a touch display that rotates but doesn't detach from the base. But what I like about it is the practicality: it's only a little heavier than my Air but has a touch display and the option for built-in 4G.

I can't overstate the importance of integrated 4G. With my Air, it's more-often-than-not a hassle to connect to my Verizon Mi-Fi or my iPhone 5's hotspot. I'm not going to go into all of the reasons why it's a hassle here but suffice to say it would be nice to have 4G built into the MBA. If Apple can provide an iPad 4 with 4G, why not an 11.6-inch MacBook Air?

But getting back to the Revolve. The other big draw for me is the option for an HP docking station, allowing you to pop the laptop into a dock and instantly connect to all the ports of a typical desktop PC.

If HP can deliver consistent quality on these two laptops, I would say there's still plenty of hope for the world's largest PC company.

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Google and Twitter Help Track Influenza Outbreaks

This flu season could be the longest and worst in years. So far 18 children have died from flu-related symptoms, and 2,257 people have been hospitalized.

Yesterday Boston Mayor Thomas Menino declared a citywide public health emergency, with roughly 700 confirmed flu cases—ten times the number the city saw last year.

"It arrived five weeks early, and it's shaping up to be a pretty bad flu season," said Lyn Finelli, who heads the Influenza Outbreak Response Team at the Centers for Disease Control and Prevention (CDC).

Boston isn't alone. According to the CDC, 41 states have reported widespread influenza activity, and in the last week of 2012, 5.6 percent of doctor's office visits across the country were for influenza-like illnesses. The severity likely stems from this year's predominant virus: H3N2, a strain known to severely affect children and the elderly. Finelli notes that the 2003-2004 flu season, also dominated by H3N2, produced similar numbers. (See "Are You Prepped? The Influenza Roundup.")

In tracking the flu, physicians and public health officials have a host of new surveillance tools at their disposal thanks to crowdsourcing and social media. Such tools let them get a sense of the flu's reach in real time rather than wait weeks for doctor's offices and state health departments to report in.

Pulling data from online sources "is no different than getting information on over-the-counter medication or thermometer purchases [to track against an outbreak]," said Philip Polgreen, an epidemiologist at the University of Iowa.

The most successful of these endeavors, Google Flu Trends, analyzes flu-related Internet search terms like "flu symptoms" or "flu medication" to estimate flu activity in different areas. It tracks flu outbreaks globally.

Another tool, HealthMap, which is sponsored by Boston Children's Hospital, mines online news reports to track outbreaks in real time. Sickweather draws from posts on Twitter and Facebook that mention the flu for its data.

People can be flu-hunters themselves with Flu Near You, a project that asks people to report their symptoms once a week. So far more than 38,000 people have signed up for this crowdsourced virus tracker. And of course, there's an app for that.

Both Finelli, a Flu Near You user, and Polgreen find the new tools exciting but agree that they have limits. "It's not as if we can replace traditional surveillance. It's really just a supplement, but it's timely," said Polgreen.

When people have timely warning that there's flu in the community, they can get vaccinated, and hospitals can plan ahead. According to a 2012 study in Clinical Infectious Diseases, Google Flu Trends has shown promise predicting emergency room flu traffic. Some researchers are even using a combination of the web database and weather data to predict when outbreaks will peak.

As for the current flu season, it's still impossible to predict week-to-week peaks and troughs. "We expect that it will last a few more weeks, but we can never tell how bad it's going to get," said Finelli.

Hospitals are already taking precautionary measures. One Pennsylvania hospital erected a separate emergency room tent for additional flu patients. This week, several Illinois hospitals went on "bypass," alerting local first responders that they're at capacity—due to an uptick in both flu and non-flu cases—so that patients will be taken to alternative facilities, if possible.

In the meantime, the CDC advises vaccination, first and foremost. On the bright side, the flu vaccine being used this year is a good match for the H3N2 strain. Though Finelli cautions, "Sometimes drifted strains pop up toward the end of the season."

It looks like there won't be shortages of seasonal flu vaccine like there have been in past years. HealthMap sports a Flu Vaccine Finder to make it a snap to find a dose nearby. And if the flu-shot line at the neighborhood pharmacy seems overwhelming, more health departments and clinics are offering drive-through options.

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Judge: Holmes Can Face Trial for Aurora Shooting

Jan 10, 2013 8:45pm

(Arapahoe County Sheriff/AP Photo)

In a ruling that comes as little surprise, the judge overseeing the Aurora, Colo., theater massacre has ordered that there is enough evidence against James Holmes to proceed to a trial.

In an order posted late Thursday, Judge William Sylvester wrote that “the People have carried their burden of proof and have established that there is probable cause to believe that Defendant committed the crimes charged.”

The ruling came after a three-day preliminary hearing this week that revealed new details about how Holmes allegedly planned for and carried out the movie theater shooting, including how investigators say he amassed an arsenal of guns and ammunition, how he booby-trapped his apartment to explode, and his bizarre behavior after his arrest.

PHOTOS: Colorado ‘Dark Knight Rises’ Theater Shooting

Holmes is charged with 166 counts, including murder, attempted murder and other charges related to the July 20 shooting that left 12 people dead and 58 wounded by gunfire. An additional 12 people suffered non-gunshot injuries.

One of the next legal steps is an arraignment, at which Holmes will enter a plea. The arraignment was originally expected to take place Friday morning.

Judge Sylvester indicated through a court spokesman that he would allow television and still cameras into the courtroom, providing the outside world the first images of Holmes since a July 23 hearing. Plans for cameras in court, however, were put on hold Thursday afternoon.

“The defense has notified the district attorney that it is not prepared to proceed to arraignment in this case by Friday,” wrote public defenders Daniel King, Tamara Brady and Kristen Nelson Thursday afternoon in a document objecting to cameras in court.

A hearing in the case will still take place Friday morning. In his order, Judge Sylvester said it should technically be considered an arraignment, but noted the defense has requested a continuance.  Legal experts expect the judge will grant the continuance, delaying the arraignment and keeping cameras out of court for now.

Sylvester also ordered that Holmes be held without bail.

Holmes’ attorneys have said in court that the former University of Colorado neuroscience student is mentally ill. The district attorney overseeing the case has not yet announced whether Holmes, now 25, can face the death penalty.

SHOWS: World News

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The jolt we need to take on climate change

If changing temperatures and rainfall patterns kill off coffee, will that finally spur us into action?

THE introduction of coffee into Europe in the 16th and 17th centuries has been proposed as an important contributory factor to the rush of creativity and energy that spawned the scientific and industrial revolutions. How ironic, then, that the world's second favourite liquid after oil is under threat from climate change caused by industrial pollution.

The coffee plant is inordinately fussy about its growing conditions. It needs a "goldilocks" combination of temperature and rainfall to produce the high quality beans that most of us take for granted.

Unfortunately, these conditions are set to vanish from the places where coffee is traditionally grown as the climate changes (see "Coffee dregs: is this the end of coffee?"). Temperatures are set to soar and rainfall patterns will change. The worst case projection is that almost all of the locations where the beans grow well will be unsuitable by 2080.

That seems a long way off, but the effects may already be upon us: coffee yields are at a 35-year low. And the direct effects of climate are being exacerbated by the spread of pests that thrive in warmer conditions.

The demise of coffee is, of course, a minor inconvenience compared with some of the projected effects of dangerous climate change. It is not a staple crop; nobody will starve for lack of it, though 26 million farmers who depend on it for their livelihoods face a precarious future.

But coffee still has the potential to send a powerful message to the world about the reality of what we are doing to the climate. If you wanted to find a commodity whose escalating scarcity and price would cause maximum discomfort to complacent westerners, coffee is about as good as it gets.

Coffee is the world's most popular beverage, with about 500 billion cups drunk every year, fuelling an export industry worth $15 billion. It is also the number one source of caffeine, the world's favourite recreational drug. Billions of people all over the world - and especially in Europe and North America - are hooked on it and would find the prospect of its soaring cost or eventual disappearance very irritating.

It really is time to wake up and smell the coffee.

If you would like to reuse any content from New Scientist, either in print or online, please contact the syndication department first for permission. New Scientist does not own rights to photos, but there are a variety of licensing options available for use of articles and graphics we own the copyright to.

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Developer of project in Sembawang to fix cracks in houses nearby

SINGAPORE: The developer of a project in Sembawang will fix the cracks and damage to 22 houses nearby.

The developer is doing this after complaints of cracked walls, sunken driveways and leaking roofs surfaced in April last year from residents around Jalan Legundi.

The affected residents linked these to the construction of a three-storey mixed development nearby.

Their Member of Parliament (Nee Soon GRC), Mr K Shanmugam, visited some of the houses in December last year, along with officers from the Building and Construction Authority (BCA) and grassroots leaders.

He asked the developer to repair the more serious damage before Lunar New Year and fix the rest after that.

In a Facebook post following a meeting on January 9 with the developer and his professional advisors, as well as the BCA and Neighbourhood Committee, Mr Shanmugam said the developer will carry out the repair work in two stages.

It will start with temporary works and then move on to permanent repair works.

Mr Shanmugam, who is also the Law and Foreign Affairs Minister, said some residents want the temporary works to be done before the Lunar New Year.

The contractor has agreed to do so.

Other residents asked for repair works to be done after the Lunar New Year.

The BCA told Channel NewsAsia that 22 of the 35 houses in the area are affected.

It has instructed the Professional Engineer of the construction project to inspect the affected units and submit an assessment report.

- CNA/fa

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Google's Schmidt presses North Korean officials for open Web

Google's Eric Schmidt (right) upon his arrival in North Korea earlier this week with former N.M. Gov. Bill Richardson.

(Credit:
CBS News/Screenshot by CNET)

Eric Schmidt wrapped up a controversial visit to North Korea on Thursday, saying that his private delegation warned officials that global Internet access was key to developing its economy.

"As the world becomes increasingly connected, their decision to be virtually isolated is very much going to affect their view of the world," he told reporters upon his return to Beijing, according to a Wall Street Journal account. Lack of such access would "make it harder for them to catch up economically. We made that alternative very, very clear," he added.

Despite official U.S. opposition to the visit, Google's executive chairman flew to the reclusive nation on Monday as part of a delegation led by former New Mexico Gov. Bill Richardson, who described the trip as a "private humanitarian mission."

"We had a good opportunity to talk about expanding the Internet and cell phones in the DPRK," Richardson told the Associated Press before departing for Beijing.

The U.S. State Department had discouraged the visit, saying that the timing was not right for the delegation to visit the country, which is subject to U.S. economic sanctions. A department spokesperson cited recent missile launches by North Korea as a reason for opposing the visit

During the visit, the delegation, which also included Jared Cohen, head of Google Ideas, got a tour of a computer lab at Kim Il Sung University Pyongyang, where a student showed how he goes online to look at reading material from Cornell University.

It's unclear whether the delegation had the opportunity to inquire about Kenneth Bae, a Korean-American whose arrest on unspecified charges was announced by the North Koreans last month.

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Embryonic Sharks Freeze to Avoid Detection

Jane J. Lee

Although shark pups are born with all the equipment they'll ever need to defend themselves and hunt down food, developing embryos still stuck in their egg cases are vulnerable to predators. But a new study finds that even these baby sharks can detect a potential predator, and play possum to avoid being eaten.

Every living thing gives off a weak electrical field. Sharks can sense this with a series of pores—called the ampullae of Lorenzini—on their heads and around their eyes, and some species rely on this electrosensory ability to find food buried in the seafloor. (See pictures of electroreceptive fish.)

Two previous studies on the spotted catshark (Scyliorhinus canicula) and the clearnose skate (Raja eglanteria)—a relative of sharks—found similar freezing behavior in their young. But new research by shark biologist and doctoral student Ryan Kempster at the University of Western Australia has given scientists a more thorough understanding of this behavior.

It all started because Kempster wanted to build a better shark repellent. Since he needed to know how sharks respond to electrical fields, Kempster decided to use embryos. "It's very hard to test this in the field because you need to get repeated responses," he said. And you can't always get the same shark to cooperate multiple times. "But we could use embryos because they're contained within an egg case."

Cloaking Themselves

So Kempster got his hands on 11 brownbanded bamboo shark (Chiloscyllium punctatum) embryos and tested their reactions to the simulated weak electrical field of a predator. (Popular pictures: Bamboo shark swallowed whole—by another shark.)

In a study published today in the journal PLoS One, Kempster and his colleagues report that all of the embryonic bamboo sharks, once they reached later stages of development, reacted to the electrical field by ceasing gill movements (essentially, holding their breath), curling their tails around their bodies, and freezing.

A bamboo shark embryo normally beats its tail to move fresh seawater in and out of its egg case. But that generates odor cues and small water currents that can give away its position. The beating of its gills as it breathes also generates an electrical field that predators can use to find it.

"So it cloaks itself," said neuroecologist Joseph Sisneros, at the University of Washington in Seattle, who was not involved in the study. "[The embryo] shuts down any odor cues, water movement, and its own electrical signal."

Sisneros, who conducted the previous clearnose skate work, is delighted to see that this shark species also reacts to external electrical fields and said it would be great to see whether this is something all shark, skate, and ray embryos do.

Marine biologist Stephen Kajiura, at Florida Atlantic University, is curious to know how well the simulated electrical fields compare to the bamboo shark's natural predators—the experimental field was on the higher end of the range normally given off.

"[But] they did a good job with [the study]," Kajiura said. "They certainly did a more thorough study than anyone else has done."

Electrifying Protection?

In addition to the freezing behavior he recorded in the bamboo shark embryos, Kempster found that the shark pups remembered the electrical field signal when it was presented again within 40 minutes and that they wouldn't respond as strongly to subsequent exposures as they did initially.

This is important for developing shark repellents, he said, since some of them use electrical fields to ward off the animals. "So if you were using a shark repellent, you would need to change the current over a 20- to 30-minute period so the shark doesn't get used to that field."

Kempster envisions using electrical fields to not only keep humans safe but to protect sharks as well. Shark populations have been on the decline for decades, due partly to ending up as bycatch, or accidental catches, in the nets and on the longlines of fishers targeting other animals.

A 2006 study estimated that as much as 70 percent of landings, by weight, in the Spanish surface longline fleet were sharks, while a 2007 report found that eight million sharks are hooked each year off the coast of southern Africa. (Read about the global fisheries crisis in National Geographic magazine.)

"If we can produce something effective, it could be used in the fishing industry to reduce shark bycatch," Kempster said. "In [America] at the moment, they're doing quite a lot of work trying to produce electromagnetic fish hooks." The eventual hope is that if these hooks repel the sharks, they won't accidentally end up on longlines.

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Holmes 'Delighted' by Creepy Self-Portraits: Victims

After two days of apparent indifference, accused Aurora shooter James Holmessmiled and smirked at disturbing self-portraits and images of weapons shown in court today, according to the families of victims who watched him.

"When he sees himself, he gets very excited and his eyes crinkle," Caren Teves said outside of the courthouse, after the hearing. "Your eyes are the window to the soul and you could see that he was very delighted in seeing himself in that manner."

Teves' son Alex Teves, 24, died in the shooting.

Prosecutors showed photos that Holmes took of himself hours before he allegedly carried out a massacre at a Colorado movie theater. He took a series of menacing self-portraits with his dyed orange hair curling out of from under a black skull cap and his eyes covered with black contacts. In some of the photos, guns were visible.

Those haunting photographs, found on his iPhone, were shown in court today on the last day of a preliminary testimony that will lead to a decision on whether the case will go to trial. The hearing concluded without Holmes' defense calling any witnesses.

The judge's decision on whether the case will proceed to trial is expected on Friday.

James Holmes: Suspect in Aurora Movie Theatre Shootings Back in Court Watch Video

Police Testify at Hearing for Accused Colorado Gunman Watch Video

Couple Surprised by Rebuilt Home After Sandy Watch Video

Holmes, 25, is accused of opening fire on a crowded movie theater in Aurora, Colo., on July 20, 2012, killing 12 people and wounding dozens others during a showing of "Dark Knight Rises."

The court room's set-up kept members of the media from being able to see Holmes' face as the photos were displayed, but victims and their families could watch him.

Teves said that Holmes was "absolutely smirking" when images of his weapons and the iPhone photos he took of himself were shown in court.

"I watched him intently," Caren Teves' husband Tom Teves said. "I watched him smile every time a weapon was discussed, every time they talked about his apartment and how he had it set up (with booby traps), and he could have gave a darn about the people, to be quite frank. But he's not crazy one bit. He's very, very cold. He's very, very calculated."

Holmes' has exhibited bizarre behavior after the shooting and while in custody. His defense team has said that he is mentally ill, but have not said if he will plead insanity.

"He has a brain set that no one here can understand and we want to call him crazy because we want to make that feel better in our society, but we have to accept the fact that there are evil people in our society that enjoy killing any type of living thing," a frustrated Tom Teves said. "That doesn't make them crazy. And don't pretend he's crazy. He's not crazy."

The photos presented in court showed Holmes mugging for his iPhone camera just hours before the shooting.

Click here for full coverage of the Aurora movie theater shooting.

Half-a-dozen photos showed Holmes with his clownish red-orange hair and black contact lenses giving the photos a particularly disturbing edge.

In one particularly odd image, he was making a scowling face with his tongue out. He was whistling in another photo. Holmes is smiling in his black contacts and flaming hair in yet another with the muzzle of one of his Glock pistols in the forefront.

Yet another photo showed him dressed in black tactical gear, posing with an AR-15 rifle.

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