Author Archives: curiouscat

Personal Robots Being Developed in Japan

Robots Lend a Hand in Japan by Tony McNicol

The most numerous, and certainly the most high-profile, service robots in Japan are for entertainment. Ever since 2000 when Honda amazed the world with its walking humanoid Asimo, other Japanese companies have been fast on their heels. Notable examples include Mitsubishi’s lemon yellow home helper Wakamaru, Toyota’s trumpet-playing humanoid, and Murata Manufacturing’s bicycle-riding robot. Although such impressive PR robots are too expensive to sell, Japan also has popular home entertainment robots. The best known to date is Sony’s robot pooch Aibo, which was produced between 1999 and 2006.
…
Another potential role for service robots is dealing with Japan’s imminent demographic crisis. A low birthrate and unrivalled longevity mean the number of elderly Japanese will increase dramatically over the coming decades. In the absence of mass immigration (which Japan has been keen to avoid) a severe shortage of caregivers seems inevitable. Some people believe robots are the answer. Takanori Shibata, a senior research scientist at the National Institute of Advanced Industrial Science and Technology, says that robot caregivers can be divided into physical service and mental service robots. The former are designed to help with tasks such as washing or carrying elderly people, although given the limitations of current technology, not to mention safety concerns, they are still quite a long way from commercialization.

Mental service robots on the other hand are already here. One of the best known is Paro, an interactive robot seal designed by Shibata himself. The sophisticated robot can remember its name and change its behavior depending on how it is treated. It has been extensively tested in homes for elderly people and in hospitals. In 2002 the Guinness Book of Records named Paro as “the world’s most therapeutic robot.” The robot reminds patients of the pets or children they once cared for, says Shibata. “Paro is a kind of trigger to provoke something in the mind of the owner,” he suggests. About 1,000 of the robots, which cost about 3,000 dollars, have been produced since 2004. Overseas sales will begin shortly.

The effective use of personal robots finally seems to be fairly close at hand. Undoubtedly the initial attempts will seem limited. See Clayton Christsen’s ideas on disruptive innovation for an understanding of how I think the adoption will play out. Robots will be poor substitutes for other alternatives but as we experiment with how to make them effective we will figure out niches for which they work well. It is hard to predict what will happen but my feeling is we may finally be a the point where real uses of personal robots stat to take hold and then the growth may surprise us.

Related: Toyota Winglet – Personal Transportation – A Robot to Clean Your Room – Robot Finds Lost Shoppers and Provides Directions – The Robotic Dog – Toyota Partner Robots – Robotic Prosthetic Arms for People

Image of the Common Cold Virus

image of the rhino virus (human cold)image created by Dr. Jean-Yves Sgro, Institute for Molecular Virology, University of Wisconsin-Madison, from published X-ray data. larger image

Sequences capture the code of the common cold

Conducted by teams at the University of Maryland School of Medicine, UW-Madison and the J. Craig Venter Institute, the work to sequence and analyze the cold virus genomes lays a foundation for understanding the virus, its evolution and three-dimensional structure and, most importantly, for exposing vulnerabilities that could lead to the first effective cold remedies.

“We’ve had bits and pieces of these things for a long time,” says Ann Palmenberg, of UW-Madison’s Institute for Molecular Virology and the lead author of the new study. “Now, we have the full genome sequences and we can put them into evolutionary perspective.”

As its name implies, the common cold is an inescapable, highly contagious pathogen. Humans are constantly exposed to cold viruses, and each year adults may endure two to four infections, while schoolchildren can catch as many as 10 colds.

“We know a lot about the common cold virus,” Palmenberg explains, “but we didn’t know how their genomes encoded all that information. Now we do, and all kinds of new things are falling out.”
…
The newly sequenced viruses also show, says Palmenberg, why it is unlikely we will ever have an effective, all-purpose cold vaccine: The existing reservoir of viruses worldwide is huge and, according to the new study, they have a tendency to swap genetic sequences when cells are infected by more than one virus, a phenomenon that can lead to new virus strains and clinical manifestations.
…
The ability of different cold virus strains to swap genes and make entirely new strains was thought to be impossible, notes Claire M. Fraser-Liggett, a co-author of the new study and director of the Institute for Genome Sciences and professor of medicine and microbiology at the University of Maryland School of Medicine. “There is the possibility that this could lead to the emergence of a new rhinovirus strain with fairly dramatic properties,” says Fraser-Liggett.

Related: Common Cold Alters the Activity of Genes – Learning How Viruses Evade the Immune System – Lethal Secrets of 1918 Flu Virus – images of snowflakes

Solving the Mystery of the Vanishing Bees

As I have mentioned before the Colony Collapse Disorder (CCD) investigations have been a great view into the scientific inquiry process. Solving the Mystery of the Vanishing Bees:

a survey our team conducted in the spring of 2007 revealed that a fourth of U.S. beekeepers had suffered similar losses and that more than 30 percent of all colonies had died. The next winter the die-off resumed and expanded, hitting 36 percent of U.S. beekeepers. Reports of large losses also surfaced from Australia, Brazil, Canada, China, Europe and other regions. More recent data are not available yet, but some beekeepers say they have seen their colonies collapse this winter, too.
…
Our collaboration has ruled out many potential causes for CCD and found many possible contributing factors. But no single culprit has been identified. Bees suffering from CCD tend to be infested with multiple pathogens, including a newly discovered virus, but these infections seem secondary or opportunistic much the way pneumonia kills a patient with AIDS. The picture now emerging is of a complex condition that can be triggered by different combinations of causes. There may be no easy remedy to CCD. It may require taking better care of the environment and making long-term changes to our beekeeping and agricultural practices.

Related: Virus Found to be One Likely Factor in Bee Colony Collapse Disorder – Scientists Search for Clues To Bee Mystery – Bye Bye Bees

Value of Prostate Cancer Screening Questioned by Two Studies

Ben Goldacre, in his bad science blog, again takes on journalist’s articles of health research in: Venal, misleading, pathetic, dangerous, stupid, and busted

1410 men would need to be screened to prevent one death. For each death prevented, 48 people would need to be treated: and prostate cancer treatment has a high risk of very serious side effects like impotence and incontinence. These figures are not hard to find: they are in the summary of the research paper.

For complex risk decisions like screening, it has been shown in three separate studies that patients, doctors, and NHS purchasing panels make more rational decisions about treatments and screening programmes when they are given the figures as real numbers, as I did above, instead of percentages. I’m not saying that PSA screening is either good or bad: I am saying that people deserve the figures in the clearest form possible so they can make their own mind up.
…
So newspapers ignore one half of the evidence, and they fail to explain the other half properly.
…
They can also link directly and transparently to scientific papers, which mainstream media still refuses to do. Journalists insist that we need professionals to mediate and explain science. From today’s story, their self belief seems truly laughable.

He also says some journalists got it right including the Washington Post in, Prostate Cancer Screening May Not Reduce Deaths:

The PSA blood test, which millions of men undergo each year, did not lower the death toll from the disease in the first decade of a U.S. government-funded study involving more than 76,000 men, researchers reported yesterday. The second study, released simultaneously, was a European trial involving more than 162,000 men that did find fewer deaths among those tested. But the reduction was relatively modest and the study showed that the tests resulted in a large number of men undergoing needless, often harmful treatment.

I think it is true that most people need help having science mediated to some extent. But he is also right that those doing so need to do better. And also everyone needs to learn about science to understand the choices they personally and politically (for policy issues) need to make decisions on. Being scientifically illiterate is dangerous.

Related: Science Journalism – Poor Reporting and Unfounded Implications – Study Finds No Measurable Benefit to Flu Shots – How Prozac Sent Science Inquiry Off Track

Image of Viral Coat

image of exterior of virus - made up of 5 million atomsHigh-energy X-ray diffraction was used to pinpoint some 5 million atoms in the protective protein coat of the PsV-F virus. The coat’s symmetrical features are shared by hundreds of viruses. The red and yellow sections illustrate how building blocks of four proteins come together to form the spherical shell.

The image reveals the structure of a type of protein coat shared by hundreds of known viruses containing double-stranded RNA genomes. The image was painstakingly created from hundreds of high-energy X-ray diffraction images and paints the clearest picture yet of the viruses’ genome-encasing shell called a “capsid.”

Viruses can reproduce themselves only by invading a host cell and highjacking its biochemical machinery. But when they invade, viruses need to seal off their genetic payload to prevent it from being destroyed by the cell’s protective mechanisms. Though there are more than 5,000 known viruses, including whole families that are marked by wide variations in genetic payload and other characteristics, most of them use either a helical or a spherical capsid.

“Spherical viruses like this have symmetry like a soccer ball or geodesic dome,” Pan said. “The whole capsid contains exactly 120 copies of a single protein.” Previous studies had shown that spherical capsids contain dozens of copies of the capsid protein, or CP, in an interlocking arrangement. The new research identified the sphere’s basic building block, a four-piece arrangement of CP molecules called a tetramer, which could also be building blocks for other viruses’ protein coats.

Full press release

Related: Viruses and What is Life – Viruses Eating Bacteria – MRI That Can See Bacteria, Virus and Proteins – Finding the Host Genes Viruses Require

MIT Faculty Open Access to Their Scholarly Articles

MIT faculty open access to their scholarly articles

In a move aimed at broadening access to MIT’s research and scholarship, faculty at the Massachusetts Institute of Technology have voted to make their scholarly articles available to the public for free and open access on the Web.

The new policy, which was approved unanimously at an MIT faculty meeting on Wednesday, March 18 and took immediate effect, emphasizes MIT’s commitment to disseminating the fruits of its research and scholarship as widely as possible.
…
Under the new policy, faculty authors give MIT nonexclusive permission to disseminate their journal articles for open access through DSpace, an open-source software platform developed by the MIT Libraries and Hewlett Packard and launched in 2002. The policy gives MIT and its faculty the right to use and share the articles for any purpose other than to make a profit. Authors may opt out on a paper-by-paper basis.

MIT’s policy is the first faculty-driven, university-wide initiative of its kind in the United States. While Harvard and Stanford universities have implemented open access mandates at some of their schools, MIT is the first to fully implement the policy university-wide as a result of a faculty vote. MIT’s resolution is built on similar language adopted by the Harvard Faculty of Arts & Sciences in 2008.

It is good to see scientists putting advancing science above outdated journal business models. It is a bit of a shame that we have to be happy for such a small thing but given the state of those fighting against open science it is good to see those in favor of open access to science make progress.

Related: John Conyers Fights Open Science – Anger at Anti-Open Access PR – The Future of Scholarly Publication

Google Summer of Code 2009

Google Summer of Code is a global program that offers student developers stipends to write code for various open source software projects. Google funds the program with $4,500 for each student (and pays the mentor organization $500). Google works with several open source, free software, and technology-related groups to identify and fund projects over a three month period.

Since its inception in 2005, the program has provided opportunities for nearly 2500 students, from nearly 100 countries. Through Google Summer of Code, accepted student applicants are paired with a mentor or mentors from the participating projects, thus gaining exposure to real-world software development scenarios and the opportunity for employment in areas related to their academic pursuits. In turn, the participating projects are able to more easily identify and bring in new developers. Best of all, more source code is created and released for the use and benefit of all.

Google funded approximately 400 student projects in 2005, 600 in 2006, 900 in 2007 and 1125 in 2008 and will be funding approximately 1,000 student projects in 2009.

Applying for the program is only allowed from March 23rd through April 3rd. Still a short period of time but in previous years they have only taken them for one week. Organizations hosting students include: Creative Commons, MySQL, Debian, The Electronic Frontier Foundation/The Tor Project, haskell.org, Grameen Foundation USA, National Center for Supercomputing Applications, Ruby on Rails, Wikimedia Foundation and WordPress. See the full list of organizations and link to descriptions of the projects each organization offers.

See the externs.com internship directory (another curiouscat.com ltd. site) for more opportunities including those in science and engineering.

Related: Google Summer of Code Projects 2008 – posts on fellowships and scholarships – Larry Page on How to Change the World – comic on programmers – Interview of Steve Wozniak

Why People Often Get Sicker When They’re Stressed

Researchers at UT Southwestern Medical Center identified a receptor, known as QseE, which resides in a diarrhea-causing strain of E coli. The receptor senses stress cues from the bacterium’s host and helps the pathogen make the host ill. A receptor is a molecule on the surface of a cell that docks with other molecules, often signaling the cell to carry out a specific function.

Dr. Vanessa Sperandio, associate professor of microbiology at UT Southwestern and the study’’ senior author, said QseE is an important player in disease development because the stress cues it senses from a host, chiefly epinephrine and phosphate, are generally associated with blood poisoning, or sepsis.

“Patients with high levels of phosphate in the intestine have a much higher probability of developing sepsis due to systemic infection by intestinal bacteria,” Dr. Sperandio said. “If we can find out how bacteria sense these cues, then we can try to interfere in the process and prevent infection.”

Millions of potentially harmful bacteria exist in the human body, awaiting a signal from their host that it’s time to release their toxins. Without those signals, the bacteria pass through the digestive tract without infecting cells. What hasn’t been identified is how to prevent the release of those toxins.

“There’s obviously a lot of chemical signaling between host and bacteria going on, and we have very little information about which bacteria receptors recognize the host and vice versa,” Dr. Sperandio said. “We’re scratching at the tip of the iceberg on our knowledge of this.”

“When people are stressed they have more epinephrine and norepinephrine being released. Both of these human hormones activate the receptors QseC and QseE, which in turn trigger virulence. Hence, if you are stressed, you activate bacterial virulence.” Dr. Sperandio said the findings also suggest that there may be more going on at the genetic level in stress-induced illness than previously thought.

“The problem may not only be that the stress signals are weakening your immune system, but that you’re also priming some pathogens at the same time,” she said. “Then it’s a double-edged sword. You have a weakened immune system and pathogens exploiting it.”

Previous research by Dr. Sperandio found that phentolamine, an alpha blocker drug used to treat hypertension, and a new drug called LED209 prevent QseC from expressing its virulence genes in cells. Next she will test whether phentolamine has the same effect on QseE.

Full press release: Researchers probe mechanisms of infection

Related: posts on the scientific method in action – How Cells Age – Why ‘Licking Your Wounds’ Works – Waste from Gut Bacteria Helps Host Control Weight