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Comment: Guns and Epidemiology (Score 1) 739

by Guppy (#43787631) Attached to: House Bill Would Mandate Smart Gun Tech By U.S. Manufacturers

I'm not a doctor or pharmacist, so I don't have any opinion on proper methods manufacture, store, or otherwise handle various classes of prescription drugs.
I have no idea what regulations make sense. It would be STUPID of me to comment on how a pharmacy must be run since I don't know anything about the subject.

Speaking of medicine, I'd like to bring up some of the metrics that are used to evaluate the cost/benefit of a drug. Think of an ID lock as being equivalent to the drug benefit; the number of deaths or injuries avoided with this technology (for guns, we would probably consider it more like a vaccine than a drug, since "deaths avoided" benefit includes both the owner and surrounding people). Likewise, side effects would be the number of deaths or injuries that would not occur in absense of this technology (because it failed to fire when needed, or malfunctioned in a lethal way).

Of course there are details that are must be thought through; for instance, if you consider reduction in suicides (suicide by a non-owner who obtains the weapon), do you credit the full "value" of a suicide avoided, or only the proportional reduction in suicide completion vs non-firearm attempts? Or, how do we evaluate the death of an intended target in terms of deaths caused/avoided; the situation can be rather complex when we consider the details of domestic violence murders.

The we ask, what is the Relative Risk of this technology? Is the number greater or less than 1? Then, some additional parameters we should need to consider include Number to Treat, from which we can start to consider the Pharmacoeconomics of the technology.

Comment: Re:Having had a whooping cough outbreak in the fam (Score 2) 272

by Guppy (#43776615) Attached to: Uptick In Whooping Cough Linked To Subpar Vaccines

OTOH, my daughter will NOT get the cervical cancer vaccine, because HPV is preventable in behavior

On the plus side for her, even if she contracts the virus the most likely outcome is that she will eventually clear it, as most infected individuals do. The risk for cervical cancer arises from the collision of a rather rare outcome with a extremely common exposure; nearly all sexually active adults will unknowingly carry HPV at some time in their lives. Unfortunately, the combination results in some 12,000 cases of cervical cancer per year, in the US.

The original research that identified the HPV-Cancer link actually had to study Nuns to find a sufficiently isolated population; the virus is actually rather common even in monogamous women. Men are not routinely screened for HPV status, and contrary to common belief infections does not necessarily result in genital warts -- for instance, high-risk strain HPV 16 is exceptionally good at producing invisible infections (which may be why it ranks among the more common of HPV strains, actually). These infections may persist undetected for anywhere from months to years, and while your daughter may remain virgin until her wedding night, the same might not be true for her husband (and oral sex counts as far as the virus is concerned, being related to risk of head-and-neck cancers).

An interesting bit of trivia: genetic material from high-risk strains of HPV can be found in some 15-25% of lung cancers tissue samples. We don't have sufficient evidence to make a claim for a causal relationship at this time, but it's a very interesting coincidence. Also interesting is that high-risk strains of HPV have also been found in the CNS of infants with certain forms of intractable epilepsy (Focal Cortical Dysplasia Type II-B). The more we look, the more places we are finding this virus.

Comment: FDA driving the shift to "defined-medium" culture (Score 2) 353

by Guppy (#43705645) Attached to: Engineering the $325,000 Burger

I used to work in a company that grows animal tissue cultures. You certainly CAN grow lots of tissue types without horse serum or any animal-related products. In fact, lots of lab protocols require that.

Cyberax is correct, and the main driving force behind the shift has been the FDA; they've been pushing hard for chemically-defined culture media, with elimination of serum-type materials whenever possible. Although bio-pharm materials are closely examined for both known and unknown pathogens, their concern is that animal derived substances may yet harbor pathogens too novel to be detected by conventional methods. We're used to defined media for microbes being simple and cheap, but the ones used for mammalian cells are more complex and frequently must be tailored to each particular cell lineage, with comparatively exorbitant costs.

In any case, if you've got the capability to do large-scale mammalian cell culture, you'd be a fool to use it for a product that sells for dollars-per-pound, when that capacity could be put to work performing contract manufacturing of bio-pharmaceuticals that sell for for thousands-of-dollars-per-gram.

Comment: Re:Would most people be better off undiagnosed? (Score 3, Interesting) 329

by Guppy (#43703897) Attached to: Psychiatrists Cast Doubt On Biomedical Model of Mental Illness

When it comes to mental "illness", often the only (or at least the best) treatments are behavioral therapy, in which the "illness" is trained away.

For mild forms of mental illness (bearing in mind that what we call "mild" mental illness can be crippling and painful from the perspective of the individual), perhaps. I'm not sure I agree with the way you phrase your position, but it is at least a valid position.

But behavioral therapy supposes that patient has enough function to engage with the therapist; even in the days before neuroleptics, it was recognized that some forms of mental illness did not respond well to talk therapy. A severely disorganized schizophrenic will turn even the simplest statements into jumbled hash; a catatonic depressive might not have sufficient volition to even reply.

Therapy is pretty advanced when dealing with patients who can't function enough to take care of their basic survival needs -- I'm not talking about acceptance of particular choices or values (by society or by self), or even whether they fit in well enough to hold a job. Rather, individuals rendered unable to attend to basic functions like "avoid freezing to death in winter" or "obtain and prepare sufficient food to maintain life, without endangering others". In such cases it is often a useful adjunct, but supposes that the patient can improve enough to be establish some level of meaningful communication.

Comment: Ender's Game hasn't aged well, for me at least. (Score 4, Interesting) 470

by Guppy (#43660681) Attached to: <em>Ender's Game</em> Trailer Released

Yes I read the book, I thought it was garbage pulp fantasy for those of limited breadth and imagination.

At the time I read Ender's Game as an adolescent, I thought it was awesome. Years later I picked it up again, and came to the same conclusion you did.

On the other hand, I didn't take much note of "Speaker for the Dead" as a young reader; it seemed a rather ho-hum sequel. I've since since changed my mind -- as a work of Science Fiction literature, it is the superior work. OTOH, Children of the Mind is still crap, Full Stop.

Comment: Re:Analysis of Content-Free PR Blurb (Score 1) 95

by Guppy (#43660471) Attached to: Device Can Extract DNA With Full Genetic Data In Minutes

it's even less generally useful than I'd thought.

Same goes for the Slashdot story posting. The Slashdot summary and only linked article is useless to anyone who actually works with genetics and sequencing. As for the linked article, the more you know about the words being smashed together, the less sense it makes (the very definition of technobabble). It's a content-free wad of marketing promises.

There were some 80+ replies to this story by last night, and NOT ONE of them discussed anything specific to the actual device or technology featured in the story (so of course, that's why I had to do it :).

Samzenpus might as well have posted some bullshit that said something like "Genetic synergy innovates best-of-breed paradigm shift in DNA extraction for a win-win GATTACA future.. Discuss!". And, we would have probably gotten comments of approximately equal value in response, compared to what we're seeing here.

Comment: Particle size about 300nm (Score 1) 121

Why group them into a network? Doesn't that increase the risk of an embolism?

From the supplementary materials PDF, it looks like these particles are about 300nm in diameter. That's a fraction of the diameter of a single red blood cell, individual particles wouldn't be big enough to block even our smallest capillaries. However, 300nm is about the size of a large virus; I don't know how immunogenic these things are, but even if moderately inert they'd likely be targeted by our normal debris-removal functions, as the immune system really does not like virus-sized foreign particles.

Comment: Analysis of Content-Free PR Blurb (Score 3, Informative) 95

by Guppy (#43647995) Attached to: Device Can Extract DNA With Full Genetic Data In Minutes

W engineers designed microscopic probes that dip into a fluid sample – saliva, sputum or blood – and apply an electric field within the liquid. That draws particles to concentrate around the surface of the tiny probe. Larger particles hit the tip and swerve away, but DNA-sized molecules stick to the probe and are trapped on the surface.

I read through the entire article link, and didn't learn a whole lot about how it actually performs. The above paragraph was the only technical information included. From what I can see, neither really tests performance against really challenging samples with a lot of crud or difficult-to-extract material. We only have the PR blurb's claim that it's better than a typical Miniprep column.

Found a couple of papers that might be more relevant:
Size-Specific Concentration of DNA to a Nanostructured Tip Using Dielectrophoresis and Capillary Action (Has downloadable PDF)
Nanotips for single-step preparation of DNA for qPCR analysis (Paywall)

Ok, from the first paper, we find out what this is really for:

Extracellular DNA is of great interest in the fields of disease diagnostics and environmental molecular biology. Unlike the genomic DNA in normal cells, extracellular DNA is the free DNA released from dead cells. Thus, extracellular DNA circulating in body fluids can be used as an early indicator for various acute diseases such as cancer. For example, the concentration of extracellular DNA for a normal person is 30ng/mL, but the concentration is increased to 300 ng/mL for a cancer patient. When the issue comes to environmental monitoring, extracellular DNA dissolved in lakes and soil is an indicator for environmental quality because the dissolved DNA is generated from cell lysis and excretion. In spite of such a great potential, the study of extracellular DNA is limited by the standard sample preparation methods.

The conventional methods begin with filtering, centrifuging, and collecting DNA from a raw sample. In aggressive experimental protocols, genomic DNA from normal cells is released and mixed with extracellular DNA. In addition, a few hours is required for the sample preparation process, which can degrade and mutate extracellular DNA.6 As a result, the original information of extracellular DNA is partially or completely lost. Therefore, a rapid process that can concentrate extracellular DNA is very important for identifying pathogenic information. This paper presents a size-specific concentration mechanism directly extracting extracellular DNA from a sample mixture using a nanostructured tip. The concentration process is performed with two sequences: (1) an alternating current (AC) electric field is applied to attract DNA and other bioparticles in the vicinity of a nanotip; (2) only the DNA is size-selectively captured onto the nanotip by the combination of dielectrophoresis and capillary action. In the analytical section, the forces involved in the concentration are estimated to investigate the capturing process. An analytical model is presented for capillary induced size-selectivity that is described as the function of the ratio of a particle to a tip diameter.

Basically, this is a special purpose method for concentrating extra-cellular DNA while leaving whole cell material intact. It's not meant to compete against a Miniprep, but analyze a whole different type of sample material; you are trying to fish out what genetic material is already floating around outside of your cells. Really a niche kind of research thing, I don't know if this will make a whole lot of impact, either practically, academically, or economically.

Comment: Re:I have become.... (Score 1) 190

by Guppy (#43640893) Attached to: Tylenol May Ease Pain of Existential Distress, Social Rejection

From what I gather from the literature, you are right about the hangover, but wrong about the mixing with alcohol. The blood concentration of the toxic degradation product is lowered when paracetamol is taken with alcohol, probably due to the alcohol successfully competing with cytochrome P450 in the liver, in much the same way that alcohol can be used to treat methanol poisoning (though another enzyme is competed for here).

Stumbled upon a good review of the pharmacology of Acetaminophen-Alcohol interactions (from back in 2000). Apparently it's more complicated than I thought:
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2014937/

The interactions between paracetamol and ethanol are complex and many questions remain to be answered. In animals, chronic administration of ethanol causes microsomal enzyme induction with increased toxic metabolic activation of paracetamol and enhanced hepatotoxicity. Conversely, the acute administration of ethanol inhibits the potentially toxic oxidative metabolism of paracetamol and protects against liver damage. This protective effect disappears when the ethanol is eliminated and the time interval between the intake of ethanol and paracetamol is critical.

Although the possibility that chronic alcoholics are at increased risk of paracetamol hepatotoxicity can by no means be excluded, the available evidence does not support claims for a major toxic interaction between ethanol and paracetamol in man.

In contrast to the findings in animals, chronic alcoholics do not produce abnormally increased amounts of the potentially toxic metabolite of paracetamol. There is only modest, short-lived induction of CYP2E1 in chronic alcoholics and it seems that other isoenzymes are primarily responsible for the metabolic activation of paracetamol in man. In keeping with the metabolic data, there is no convincing clinical evidence to support the claims that chronic alcoholics are at increased risk of liver damage either following overdosage of paracetamol or with its therapeutic use. Such evidence as exists is purely anecdotal and similar toxicity has been reported in both circumstances in patients who are not alcoholic.

I would caution though, that while normal humans have an enormous amount of extra functional reserve in their livers, this may not be true for chronic alcohol users. Even if the absolute pharmacological toxicity is identical (or even modestly lessened), the same overdose that a non-alcoholic recovers from, could be fatal to someone with pre-existing damage. In addition, the cognitive and psychological impairment produced by alcohol could make both accidental and deliberate mis-use of other drugs more likely.

Comment: Re:Does Paracetamol actually do anything? (Score 1) 190

by Guppy (#43640705) Attached to: Tylenol May Ease Pain of Existential Distress, Social Rejection

Serious question - Every now and then I get a headache, or muscle ache, or hurt myself in some way. Regardless of the source of the pain if I take paracetamol I get no noticeable pain relief, it feels exactly like taking a placebo.

Quite possibly -- there is always individual variation in response to substances; I would expect this to be doubly true for a pro-drug that requires further metabolism to activate. Unfortunately, I didn't find much in a quick search just now regarding variability in pain relief with acetaminophen, although there are plenty of studies examining variable responses regarding liver toxicty.

+ - Tylenol may ease pain of existential distress, social rejection

Submitted by Guppy
Guppy writes "Does Tylenol reduce existential distress? Acetaminophen (Paracetamol) has been used to relieve mild-to-moderate physical pain for over a century, yet its actual mechanism of action continues to be debated; modern research has demonstrated an intriguing connection with the body's endocannabinoid system, raising the question of whether it may also have subtle psychological effects as well. A recent paper claims Acetaminophen can alter our response to existential challenge; previous findings have suggested that it may blunt the pain of social rejection as well."

+ - Milk Consumption is falling in the US every year now

Submitted by Jacob Freer-Balko
Jacob Freer-Balko writes "Despite 20 years of “Got Milk?” mustache ads, milk consumption in the US falls more every year. The National Dairy Promotion and Research Program and the National Fluid Milk Processor Promotion Program cite competition from calcium-fortied and vitamin-enhanced beverages, milk’s lack of availability “in many eating establishments” (You can’t find milk anywhere!) and a growing percentage of African Americans and Latinos in the US population who are not traditionally big milk consumers."

+ - Are Social Networking Internet Sites a Factor in Psychotic Symptoms?-> 5

Submitted by cold fjord
cold fjord writes "Most people on Slashdot probably have read comments somewhere on-line that they thought were crazy. It turns out, they might be, and use of social networking sites may be a contributing factor. From the story: "In his study, the researcher presented three in-depth case studies linking psychotic episodes to Internet communications from his own practice. According to Dr. Nitzan, patients shared some crucial characteristics, including loneliness or vulnerability due to the loss of or separation from a loved one, relative inexperience with technology, and no prior history of psychosis or substance abuse. In each case, a connection was found between the gradual development and exacerbation of psychotic symptoms, including delusions, anxiety, confusion, and intensified use of computer communications.""
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