Chemspy Blog Archived

Having run the Chemspy RSS feed manually for rather too long, we have finally upgraded to a CMS that enables a much slicker interface and will hopefully benefit readers considerably by providing easier access to the site news and our new chemistry news section. As such, earlier ChemSpy posts have now been archived as a standalone static page and can be accessed through the Chemspy chemistry news archives page here.

UPDATE: All chemistry items that would have originally been earmarked for inclusion in Chemspy will now appear in Sciencebase.com

Straight answers to health questions

Anahad O'ConnorNYT reporter Anahad O’Connor sent me a review copy of his latest book, “Never shower in a thunderstorm”, which hits bookshelves in paperback this week. In it, O’Conner debunks, in the style of his regular “Really?” column, numerous health myths and misconceptions such as whether artificial light is hazardous to health, are bald men more virile (of course!), and is chicken soup good for treating the common cold?

Here’s a selection from his book, with the most straightforward answer I could extract from his excellent vignettes.

Can a glass of wine with your meal prevent food poisoning? Yes
Are ab machines the best way to build a six-pack? No
Will having sex before sports hinder your performance? No
Can having sex induce labour? No
Is yo-yo dieting unhealthy? Yes
Is bottled water cleaner than tap? No
Does packing a wallet in your back pocket cause sciatica? Yes
Do toilet seats spread disease? No
Is sitting up straight good for your back? No
Can loud music deafen you? Yes

If you want the complete explanation for his answers to these questions and many more, you will, of course, have to read the book.

Broken laptop again

UPDATE: July 2013 That Vostro is now starting to fail. A few sticky broken keys, RAM damaged, GPU failing and hard drive errors. Already replaced battery once since Dell engineer came (they don’t last long, batteries, not Dell engineers!) Mistake or not, latest Dell Vostro on the way i7 chip, but 15″ not 17″ save a few quid!

As regular visitors to Sciencebase know, our individual posts are entirely independent of advertisers. However, for a time the site had its own coupons and discounts section, which helped support us financially; back then we were getting 20000 unique visitors every single day! At the time of writing, I was using a Dell Vostro 3700 (chosen primarily because it was one of the only laptops around at the time with a matte screen) and although I had to have it serviced at about 18 months because of a faulty fan, it’s been fine. The service engineer replaced the fan, the motherboard and the battery all under warranty and in my own home within an hour or two.

My previous working machine was a 17″ HP Pavilion, for those who care about knowing such things! Before that I’d had another Dell Inspiron, a Gateway desktop, an Evesham Micros desktop, an Acer laptop before that and a homebuilt desktop. My first home office machine was from local company Solidisk who changed their name years ago to World of Computers, that machine had a 40 megabyte hard drive, can you imagine that? Space for two or three RAW file photos from my Canon 20D digital SLR!

Agony agonists and cancer combatants

Chemweb logoIn chemistry news this week, The Alchemist learns about slow-release drug formulations that prevent drug abuse, the risks of war associated with using depleted uranium in munitions and armour plating, and the analytical benefits of red wine that could turn up on labels to guide consumers to the most healthful Chianti or Zindanfel.

Also, this week, a well to wheel analysis reveals that hybrid cars are not as green as you would think and that converting natural gas to hydrogen for use in fuel cells could be the best environmental option for transport. Finally, web-savvy chemists using the Firefox browser have a new tool available to them that offers inline entries from blogs while they read ACS, RSC, Wiley, and other journal tables of contents.

This week’s grant goes to Bassam Shakhashiri for pioneering work in engaging the public with science and for helping to rebuild education programs after decimation by Reagan funding cuts in the 1980s.

Baby Boomers Should Choose Baby Aspirin

Aspirin structureA daily dose of aspirin could save you from a heart attack or stroke, but almost a quarter of a million Americans could be hospitalized each year because of gastric bleeding – a complications of taking the drug.

A study by cardiologists at the University of Kentucky College of Medicine, the Institut de Cardiologie-Centre Hospitalier Universitaire Pitié-Salpêtrière in Paris, France, and the UK HealthCare Linda and Jack Gill Heart Institute have found that the commonly prescribed 325 mg adult tablet is a lot more than most people will need to reduce their risk of cardiovascular disease each day. Their findings published in the Journal of the American Medical Association, suggest that an infant dose of aspirin, containing around 80 mg of the active ingredient is adequate for preventing cardiovascular events in the long-term and has the advantage of a much lower risk of gastrointestinal bleeding.

The researchers carried out a meta review of published clinical studies data on aspirin use and found no large-scale studies that supported higher doses of aspirin, even for patients with diabetes who are tougher to treat.

“While aspirin is an effective drug for the prevention of clots,” says lead author Charles Campbell, “the downside of aspirin therapy is an increased tendency for bleeding. We believe the minimum effective dose should be utilized (75-81 mg).” He cautions that this is a ballpark figure and the optimum dose should be considered on a patient by patient basis.

Aspirin is the oldest “manufactured” and most commonly used drug in the world. More than 50 million people, or 36 percent of the adult population in the United States, consume 10 to 20 billion aspirin tablets each year as a prophylactic against heart attack and stroke.

“Patients should check with their doctor to be sure, but there is almost no one who needs to take more than 81 mg of aspirin a day for protection from heart attacks,” adds co-author Steven Steinhubl.

What strikes me as odd about the press release that announced these findings is the precision in the milligram values given. A drop from 325 mg to 75-81 mg comes with unnecessary precision. that additional 1 mg is less than a third of a percent of the original mass and probably way below the weight tolerances available during the manufacturing process in the first place. Moreover, many patients are told to break a whole tablet in half and take just half a day, so any kind of precision in weight measurements is lost instantly as those tablets crumble and fragments containing perhaps several milligrams of aspirin are lost.

Also in the news this week and somewhat conflicting with Steinhubl’s recommendations is the discovery that at least 300 mg of aspirin taken daily might help prevent colorectal cancer. Peter Rothwell of the University Department of Clinical Neurology, at the Radcliffe Infirmary in Oxford, UK, suggest that the benefits of taking such a large dose of aspirin in the long term outweigh the risks associated with gastrointestinal bleeding for those at high risk, such as individuals with a strong family history of the disease or other factors. This second study is published in The Lancet today, more details in the original press release.

InChI=1/C9H8O4/c1-6(10)13-8-5-3-2-4-7(8)9(11)12/h2-5H,1H3,(H,11,12)/f/h11H

Understanding Disease Transmission and Control

The SARS epidemic of 2002-2003 was rather unusual, began Professor Roy Anderson FRS of the Department of Infectious Disease Epidemiology, at Imperial College London. For instance, its transmission efficiency was low by comparison with viruses such as Influenza A, it had a high case fatality rate especially amongst the elderly, and there was a high incidence of infection and among health workers.

In regions badly affected by SARS there was much suffering, many deaths, serious disruption to social and work activities, and considerable economic losses. The isolation and quarantining of hundreds of thousands of people became essential to bring the disease under control as too were the tight restrictions on travel in some countries. The World Health Organization also played a vital role in co-ordinating the international response and helping to bring the disease quickly under control. We were very lucky this time round, he said. Draconian public health measures are relatively simple to implement in China and other neighbouring regions where this particular disease originated, but how would the people of North America and Western Europe cope with such restrictions on their liberties as mass quarantining?

The cause of SARS was narrowed down to a single coronavirus and diagnostic tests of varying precision have been developed to help us detect it. Epidemiological research must now be carried out to help us understand how the disease spreads, especially given what is actually a very low transmissibility of the virus, compared with influenza. Data capture and information capture systems were put in place somewhat late during the epidemic. In future outbreaks this area needs to be improved so that researchers can gather knowledge about the disease’s epidemiology. During the SARS epidemic data capture systems were more effective in some regions and entirely ineffective in others. An international, centralised database would also allow doctors to record the effects of different medicines on the disease and so provide useful information for other doctors an in the longer-term epidemiologists.

We were extremely lucky with the SARS epidemic, said Anderson. SARS caused a around 800 or so deaths, influenza type A kills 30000 people in the USA every year. In the next global epidemic, we may not be so lucky in terms of biology or where the disease emerges. He suggested that we must keep SARS in perspective but not become complacent and assume that “we have been successful once, we will be again”.

The emergence of SARS

Professor Nan Shan ZHONG of the Guangzhou Respiratory Disease Research Institute suggested in his talk that he would probably raise more questions than he would make conclusions. The first case of SARS in China was recorded on 25th November 2002, and he saw his first definite case in December. The subsequent outbreak of the disease caught the world’s health systems unprepared. The worst Chinese epidemic was in Beijing with 2500 cases, while Guangdong province, where SARS first emerged, had some 1500 cases. The result was serious impact on social stability, particularly in China, and ultimately on the global economy.

From both the clinical epidemiological and virological points of view, SARS originated in the Guangdong province of China. Data showed that there may have been interspecies transmission between wild animals and humans, explained ZHONG, and a national campaign to kill rats as one possible source of infection was instigated by the government. As ZHONG pointed out, while rats harbour many diseases it is other animals, in particular the palm civet, which has been demonstrated to be the host of the emergent virus. The virus was found to be highly concentrated in the civets’ faeces and the first cases in 2002 occurred among animal traders. ZHONG believes it imperative these animals are culled and their use in cuisine be stopped.

ZHONG suggests that the health authorities must remain alert for the possible resurgence of SARS during the winter of 2003-2004 and into the spring. Indeed, the Provincial Department of Health in Guangdong has formulated a pre-warning policy based on early identification based on antibody lab tests. With early reporting, early isolation must be enforced to allow the health services to manage a resurgence.

Professionals have now been trained to identify the disease quickly and accurately and a report network has been established throughout mainland China to ensure a rapid response to new SARS cases. ZHONG told the meeting that in the previous three weeks three new cases of SARS had emerged.

Should the disease re-emerge, corticosteroid and non-invasive ventilation should be reiterated as the treatment of choice for patients with critical SARS. Traditional Chinese medicine (TCM) may also have use in early adjunctive therapy. An inactivated SARS vaccine is now in clinical trials and early results suggest it is safe and efficacious and may be available in an emergency.

Fighting SARS in China

Victory over the first SARS epidemic resulted from the efforts of the medical and scientific communities and the political commitment of the authorities in China with strong international support; the causative agent having been identified within two weeks of the outbreak, said Professor CHEN Zhu Vice President of the Chinese Academy of Sciences (CAS). Two weeks later, the SARS genome was unravelled.

Three programmes have now been implemented under the Chinese taskforce – research into causes and effects, diagnosis, treatment and prevention, and drug and vaccine development.

The initial SARS infections, which were seen among restaurant researchers in particular, were rather weak, and reminiscent of the state of play at the time of the meeting in the advent of a SARS second coming. It was then the infamous “Super-Spreader” event in Guangzhou Second Hospital, which evoked the epidemics in Guangzhou, the second phase, and then the Hotel M event that ultimately led to the massive scale of the SARS epidemic, the third phase to Northern China and other countries/regions in the world. Comparisons of the genome at each phase together with information about the relation between human SARS and the disease in the animal carriers, palm civets, is providing important clues about controlling SARS and vaccine development.

With regard to diagnosis, treatment, and protection, CHEN added that Guangzhou’s Prof. ZHONG Nan Shan is something of a hero in China for having first identified SARS as a new pathogen; he and his collaborators developed effective treatments using corticosteroids, antiviral drugs and non-invasive positive pressure ventilation, as well as integrating it with Traditional Chinese Medicine.

Diagnostic tools and kits have been developed in response to the first epidemic are now revealing themselves to be critical in controlling the recent appearance of SARS cases in 2004. Physical protective equipment for personal and hospital use are also being rapidly developed, added CHEN. The Chinese government has issued new security guidelines to help it cope with another outbreak. The scientific conservation of samples of the SARS coronavirus for further researchers is another important measure that CHEN mentioned briefly.

Beijing researchers had reported at the time of the meeting the effectiveness of inactivated SARS viral particle in laboratory tests, but says CHEN , many questions remain to be answered before a safe and effective vaccine will be ready.

The lessons of SARS have led to open reporting, especially in China, which means “next time”, the international health and research communities will be better equipped to respond.

The victims of SARS

Robert Maunder’s hospital, the Mount Sinai Hospital in Toronto, was on the frontline during the SARS epidemic. One aspect of such an epidemic that does not always immediately come to mind is the psychological impact on health workers.

The outbreak of SARS in 2003 provided a system-wide stress upon healthcare workers in the Toronto region, said Maunder, reminding us of when public-health messages were common and quarantine widely used. To understand the psychological impact on hospital staff and the wider community, we should recall the eighteenth century when hospitals were considered places to die rather than centres of healing.

The disease hit Toronto in two waves, said maunder. The first wave had a major impact on Mount Sinai Hospital allowing the researchers to survey of healthcare workers at three hospitals in late May. The effect of stringent controls put in place meant no visitors and non-essential staff ordered to stay home. The public perception of hospitals was severely affected, hospitals were seen as places with disease, and healthcare workers were seen as victims and carriers of disease.

Maunder’s team has studied data from two sources of information. First, observations by he and his colleagues of administrators and mental health professionals providing support during the SARS epidemic in March and April, and a survey of about 1600 healthcare workers at three Toronto hospitals in May and June. The results provide a picture of the factors which lead the SARS outbreak to be experienced as a psychological trauma.

Maunder described how more than 35% of those surveyed reported severe stress symptoms, including intrusive thoughts and feelings and avoidance and blunted feelings. The degree of risk of traumatic stress was related to degree and duration of exposure to SARS patients as well as other factors. These included isolation from family and colleagues, and the wider community as well as job stress, and problems with family life. Rules prevented colleagues shaking hands or eating in the hospital cafeteria compound the problems leading to poor sleep, anxiety, and preoccupation with signs of illness among many healthcare workers.

There is a psychological cost to controlling a disease like SARS, said Maunder. This must be considered when planning the public-health response and invaluable psychological support provided during the early stages of an outbreak.

New hosts for new diseases

Biologist Dr Diana Bell of the University of East Anglia, Norwich, immediately drew three conclusions about the nature of emerging diseases like SARS.

First, she suggested that the search for diseases of animal origin should be extended, not only geographically, but also to small carnivores other than the masked palm civet from which SARS emerged. Secondly, there are major ecological shifts favouring the emergence of zoonotic diseases, in South East Asia. Thirdly, new collaboration between conservation biologists and vertebrate ecologists would help in finding and controlling such diseases.

The search for disease has focused on the animal markets of Southern China, but many of the animals traded here are illegally imported. The animal reservoir for SARS and other viruses could extend far outside China. Moreover, China’s neighbours in the Indochina hotspot of biodiversity – Cambodia, Laos, Thailand – also exploit wild animals in the restaurant trades, traditional medicine, perfumes, skins for clothing, and as pets. The limelight has shone on three small carnivore species: the masked palm civet, Chinese ferret badger, and raccoon dog. Many other endangered species are also exploited.

Bell suggested that putative hosts must be screened across all routes from capture to marketplace and beyond. This would allow researchers to pinpoint at what point the animals first show signs of infection.

Wildlife trade is a global problem, not restricted to South East Asia. African civets are eaten as bush meat and should be screened. Moreover, the problem is very much a global one. Huge numbers of wild animals are imported into the USA each year, including 49 million live amphibians and 2 million live reptiles. The wildlife trade, Bell said, is not only a threat to biodiversity but seriously threatens human health.

To combat this trade, it is important to hit supply and demand, said Bell. Better law enforcement and community participation as well as education could be key to reducing the demand for wild meat.

Read on in Session 4:

Listening out for one-over-f noise

One over f noiseThe universe is a noisy place – from traffic growling along roads to the random fluctuations in DNA sequences and from the distribution of stars in galaxies to the hissy fit that is electronic noise. One thing all these forms of noise have in common is they are related by the phrase “One-over-f”, the reciprocal of frequency.

A new understanding of “1/f” has emerged from a collaboration between scientists in Norway, Russia, and the USA. Their work could lead to more sensitive sensors and detectors based on semiconductor electronics.

According to materials scientist Valerii Vinokour of Argonne National Laboratory, Illinois, “Finding the common origin of one-over-f noise in its many forms is one of the grand challenges of materials physics,” he says. He and his colleagues have developed a new theory of 1/f noise establishes its origin and lower limit in semiconductor electronics, which could help developers optimize detectors for commercial applications.

Noise is nothing more than timely fluctuations, deviations from the average. In microelectronics, noise is generated by random fluctuations of electrons. Vinokur and his colleagues report in the May 11 issue of the science journal Phys Rev Lett how 1/f noise in doped semiconductors, the platform for all modern electronics, originates in the random distribution of impurities and the mutual interaction of the many electrons surrounding them.

These two ingredients – randomness and interaction – lead to electrons being trapped in a Coulomb glass state in which electrons hop randomly from point to point.

“Our results,” Vinokour explains, “establish that one-over-f noise is a generic property of Coulomb glasses and, moreover, of a wide class of random interacting systems and phenomena ranging from mechanical properties of real materials and electric properties of electronic devices to fluctuations in the traffic of computer networks and the Internet.”

Martian volcanoes hit home plate

Mars home plateA plateau on the planet Mars called Home Plate looks like it had a volcanic past, according to the latest data from NASA’s rover Spirit. The data also support earlier hints at that water once existed at or beneath the planet’s surface.

Home Plate has a finely layered appearance and so made it a tantalizing target for Spirit, according mission controller Steve Squyres. The rover captured its first panoramic image of Home Plate in August 2005 from the summit of Husband Hill and reached the plateau in the Columbia Hills’ inner basin in February 2006. Squyres called one of those images, “one of the neatest pictures we’ve taken with the rovers.”

The image shows nothing more than a small (4 cm) fragment of rock cradled within a downward deflection in otherwise straight layers. Earthly geologists refer to such features as bomb sags and they are usually formed only when a rock fragment (the bomb) is flung upward in an explosion and lands in soft material, causing it to sag.

Chemical analysis has demonstrated that the Martian rock is composed of basalt, a volcanic rock, which precludes it being a meteorite. The rock also carries tiny coagulated ash particles, which could only be present after ash rains down following a volcanic eruption.

NASA says any volcanic activity at Home Plate probably occurred billions, of years ago. “There are lots and lots of places on Mars where, from orbit, you see layered deposits locally that kind of look like this,” says Squyres, “and so it really raises the possibility that a lot of these things all over the planet could be explosive volcanic deposits.”

The fact that the Home Plate rocks are basalt also suggests water may have been present. Basalt is not normally associated with explosions. “When basalt erupts, it often does so as very fluid lava, rather than erupting explosively,” Squyres explains A notable exception comes when hot basalt meets water to cause a steam-driven explosion.

The Science paper is based on data collected during a frenetic few months in 2006, as Spirit was rolling down the Columbia Hills toward a safe place to ride out the Martian winter. The route to safety included a path across Home Plate – leaving Spirit’s drivers on Earth with a dilemma.

“There was all this fabulous science around us,” Squyres says. But with winter approaching, the team had to get Spirit to its safe spot on time, while gathering as much data as possible along the way. “We got an amazing amount of science done, all things considered,” he said. “But there’s more work to be done here.” Spirit is now back at Home Plate, continuing exploration there.

The team published further details of their findings in Science this week (2007, 316, 738-742).

Open access medical records

Open access medicineFancy being a case report for medical scientists to ponder? If your answer to that question is yes, then you probably carry a donor card, regularly give blood, and have already willed your body to medical science. If the answer was no, then read on, the following may persuade you to if not donate your remains then perhaps make yourself a case in point.

Medical case reports serve a vital role in medicine. Like those howto and self-help feature articles one sees in popular lifestyle magazines, they focus entirely on an individual patient, but at a slightly more technical level. Case studies provide unique insights into the rare side effects of new medications, early warning indicators of potential new diseases, unexpected associations between diseases or symptoms, and much more. Indeed, it was through case reports in the medical literature, that the earliest information on AIDS, Lyme disease and toxic shock syndrome emerged.

In recent years, however, economic and ethical pressures have led research journals to publish fewer and fewer medical case reports. The main pressure seems to be that such papers are of limited interest when read in isolation and more problematic from the publishers’ point of view are unlikely to be highly cited. Many research journals tout citation counts as a major selling point both to authors and subscribers, so poor-selling papers are unattractive to the marketing team.

The end result, is that a vast wealth of unique scientific data is simply lost.

Michael Kidd, Professor and Head of the Discipline of General Practice at the University of Sydney, hopes to change all that. He is founder of the open access (OA) Journal of Medical Case Reports. The OA approach taken by this journal means that medical case reports can find an audience regardless of citation concerns. By utilizing the OA publishing model, interesting case reports can reach the medical profession where previously they would simply sink without trace. With open access to this information, doctors can easily compare symptoms and treatments between patients and researchers and can sift through thousands of reports to formulate hypotheses and search for patterns and correlations. Who knows when the next AIDS or Lyme disease will emerge. Case reports might provide the first hints from the unfortunate “early adopters.”

Cocaine in a can

Cocaine structureDespite appearances, anyone hoping to get some kind of a buzz from a soft drink marketed as “Speed in a Can,” “Liquid Cocaine” and “Cocaine – Instant Rush”, will get nothing more than a potentially harmful spiking of their blood sugar concentration and a dash of the stimulant caffeine. The soda in a red can with an almost familiar logo, actually contains no illicit drugs and is supposedly marketed only as an energy drink and food supplement. The product has been sold since August 2006 in at least a dozen US states, but has come under attack from the FDA (Food and Drug Administration) and was this week pulled from supermarket shelves.

The FDA website shows the full warning letter sent to manufacturer Redux Beverages LLC of Las Vegas, which outlines how the marketing for this product is in breach of several US laws. According to the original Redux website, the drink “Cocaine is marketed as an alternative to an illicit street drug, and certain ingredients contained therein are intended to prevent, treat, or cure disease conditions.” All such claims are illegal under US law. One claim in particular seems to suggest that there is more to “Cocaine” than meets the eye: “This beverage should be consumed by responsible adults. Failure to adhere to this warning may result in excess excitement, stamina, . . . and possible feeling of euphoria,” it says. But, which company would be so stupid as to suggest that its soft drink contains actual cocaine? Of course, it is no urban legend that the original formulation of an older soft drink today bought in red cans with an all too familiar logo did indeed contain said illicit pharmaceutical, but is no longer used.

Clegg Ivey, a partner in Redux is on record as saying, “We like to think we have a great sense of humor…And our market, primarily folks from ages 20 to 30, they love the ideas, they love the name, they love the whole campaign. These are not drug users.”

They really love it, do they? What could be lamer than a bunch of deluded twenty and thirty somethings who do not use cocaine, imbibing a soft drink marketed as “liquid cocaine”? I can almost see a big “L” for loser hovering in front of their foreheads as they chug the stuff.

InChI=1/C17H21NO4/c1-18-12-8-9-13(18)15(17(20)21-2)14(10-12)22-16(19)11-6-4-3-5-7-11/h3-7,12-15H,8-10H2,1-2H3/t12?,13?,14-,15+/m0/s1