PGx in DTCG? Doesn’t stand up to Useful testing.


HT Don Rule today as well as the ENTIRE Pharmacogenomics Advisory Group that I am a proud member of.


Don wrote this comment a few days ago

"I was curious about what SNPs the DTC companies offer so I wrote a little applet (http://snpweb.cloudapp.net/#/PharmGKBSNPs) to compare them to the SNPs in PharmGKB. It turns out the the Cytochromes are particularly sparse."

Well Don, you are correct. Even more so, as we began to review SNP data it became crystal clear on Monday.

The reason I was pissed about 23andMe doing the CF testing is because they missed hundreds of potential carrier alleles. What was even more so angering when I realized, you could be "tested" by one of these DTCG companies for "Plavix Metabolism" and come up with the absolute wrong answer.

Imagine that. Most people turn to DNA for an "absolute call" but when you don't look for the right SNPs or all of the needed SNPs, you miss a whole bunch.

Quick story. I had this pulmonologist physician, an elder statesman, super smart, Ivy league trained come up to me and say "Hey Steve, can you help me out?"

He is a sleep doctor too. He said "I have been trying to test for this narcolepsy gene and I can't get the right answer"

I said "Sure Dr. X, what do you mean 'keep getting the wrong answer'?"

He Said

"Well I am looking for HLA DQB1 and they keep telling me about this HLA DR, I have sent this test 3 times now and still gotten no information about HLA DQB1."

I did a big 'ol face palm.



Instead it searched for an imperfect haplotype......

That's the problem. If you don't test for exactly what you are looking for, you will never find it. Nor will you have the correct clinical answer.

If you only test 2 SNPs for CYP 2C19, you will never be able to accurately predict what someone's metabolizer status is.

What people should be using to assess metabolizer status of medications is something like the DMET Plus with additional PCR or another platform. AmpliChip does a nice job, but we have to be serious when it comes to medical care.

You Cannot, I repeat Cannot take the advice from 23andMe when it comes to metabolizer status for Plavix.

Please, please, please listen to me. Even 23andMe states it on their post about Plavix

This DTCG test is not ready to be used in the clinic or even trusted to tell your metabolizer status. Right now, they are not testing enough SNPs for me to be happy with it and use it in the office.

Don't stop your Plavix! Instead go get a clinical pharmacogenomic test done by someone who understands the limitations of the labs.

That drunk who lost their keys is still looking under the lamposts because that is where the light is..........

That is a stupid way to do clinical pharmacogenomics.

The Sherpa Says: Pretending to be clinical without standing up to clinical rigor is a recipe for disaster. I await the lawsuit from in stent thrombosis for the poor sap that trusts 23andMe enough to stop their Plavix.

The Mightiest Mite: Dung Beetle Is Crowned World’s Strongest Bug | 80beats

dung-beetlesA certain species of dung beetle has been crowned the world’s strongest insect. A male Onthophagus taurus can pull 1,141 times its own body weight — the equivalent of a 70-kilogramme (154-pound) person being able to lift 80 tonnes, the weight of six double-decker buses [AFP]. That power comes in handy not just to roll up a few extra dung-balls, but also to protect mates and stave off potential rivals.

Chronicling the insect’s amazing strength in the journal Proceedings of the Royal Society B, scientists Rob Knell and Leigh Simmons explain that the beetle’s amazing strength is connected to his sex life. These female dung beetles dig tunnels beneath choice pieces of dung in which to lay their eggs. If another male enters a tunnel already occupied by a rival, then the dung beetles duke it out, each male using his immense strength in an attempt to push the other out. Usually, the male that guards the tunnel repeatedly mates with the female inside.

In the study, scientists calibrated the males’ strength by gluing a cotton thread to the beetles’ hard wing-cases, stringing the thread across a pulley, and tying it to a miniature bucket, to which they added drops of water [ScienceNOW]. The dung beetle’s coronation as the world’s strongest insect steals the thunder from the rhinoceros beetle, which can lift up to 850 times its own weight.

The weaker males in this brawny insect community aren’t entirely out of luck, as nature has endowed them with other survival advantages. Knell added that some male dung beetles are smaller and weaker, but do not have to fight for female attention due to their “substantially bigger testicles”. “Instead of growing super strength to fight for a female, they grow lots more sperm to increase their chances of fertilizing her eggs and fathering the next generation” [AFP].

Related Content:
80beats: Female Dung Beetles Evolved Elaborate Horns to Fight for the Choicest Poop
Discoblog: Enough of This S#%t! Dung Beetles Morph into Millipede-Eaters
Discoblog: A Literally Crappy House Protects Beetle Larva From Predators
The Loom: An Inordinate Fondness for Beetle Horns

Image: Alex Wild. Two male dung beetles fight for supremacy. 

Rebecca Sink-Burris Announces a Run for At-Large LNC Seat

Fellow Libertarians,

I am extremely pleased to announce the candidacy of a long-time LPIN activist, candidate and financial supporter for the position of Libertarian National Committee At-Large representative at the upcoming LP Convention at St. Louis.

Rebecca Sink-Burris has been a Libertarian Party member since the 1970’s and has served the LPIN in many capacities including Vice-Chair.  She has also run for U.S. Senate and was instrumental in helping us retain our ballot access when she ran for Secretary of State in 2002 gaining will over 4% of the statewide vote when we were required to gain just 2%.

I would strongly encourage delegates to meet Rebecca at the convention and ask her about the future of the Libertarian Party.

Her message follows:

Having served on the board as an alternate and as a 2 term regional representative for one of our more effective regions, I have seen how damaging it is when board members don’t work well with each other, I want to continue to serve in order to help bridge the gap. I’ve been a Libertarian since the 70’s and have served the party by collecting signatures, taking on leadership positions at state and national level, running for office numerous times, including being the candidate for Indiana’s ballot access race. I am interested in being part of an effective LNC, I value the diversity of ideas within the Libertarian Party and can be counted on to listen to all viewpoints and work with all members respectfully. The emphasis needs to be on getting the job done, or in the words of Elvis ” A little less conversation, a little more action please.”  This is our time, let’s move forward.

Thanks,

Rebecca

UNSUBSCRIBE???

I want to be taken off your email list I do not want any of your email's I am mactheknife stop send me stuff You are a pest and if this doesn't get you stopped I'm going to complane!

Microfractures in Steel Parts

Hello partners, I tray to found a provider of a micro fracture developer liquid.

I know to exist one´s to be fluorescent with ultraviolet light.

please if you know the name of any mark or provider please contact me.

Regards.

Pressure Exerted on a Coating

Hello All

My field is Chemistry and we are doing a test to determine if a concrete garage coating will delaminate or stain when subjected to the hot tires of a vehicle. The test we do is to heat up a piece of tire that is 3 inches by 5 inches and then apply pressure to the tire on top

I Am A Skeptic | Bad Astronomy

Skeptic Magazine’s website has a new feature I like: short bios of important skeptics.

swoopybanner

Daniel Loxton, the creator of this series, also made banners to put a face on skepticism. The face featured here is for the tireless and wondrous and totally awesome Swoopy*, who runs the Skepticality podcast with Derek Colanduno.

I suspect you might recognize some of the others there too. And if you don’t, get to know them! You’ll be happy you did. But don’t believe me. Prove it for yourself.


*MMMMmmmmm, Swooooooopy.


New Review of Unscientific America in Science Communication | The Intersection

Our book reviews aren't over yet--perhaps they will keep coming out all the way to the paperback release date in May. The latest is from David J. Tenenbaum of the University of Wisconsin-Madison, founding feature writer for the WhyFiles, who is reviewing in the journal Science Communication. Tenenbaum begins with a revealing vignette:
I e-mailed an eminent limnologist today, seeking to discuss an environmental issue that he’s considered important enough to study for several years. To my delight, he immediately responded with word that a new study was forthcoming in an important journal. Then, to my dismay, he added that the journal’s embargo would expire a couple of weeks after my publication date.
No problem, I replied. He’d watched the issue develop for years and would surely have a useful comment. Then I got the silent treatment.
Huh? When you contact scientists for a living (I admit, science journalism can seem a branch of telemarketing), you get used to nonresponses, to experts who think a “tight deadline” means 3 months, or are in Mongolia or at an invitation-only conference in Estonia. This latest wrinkle on the rejection letter told me that this expert would be happy to get help publicizing his newest research ...

NASA Procurement Pays Gourmet Prices for Hotel Snack Food

NASA Pays Sky-High $66 a Person for Seminar Snacks, AP

"The nation's space agency paid the out-of-this-world price of $66 a person a day for bagels, cookies and juice at a conference, a new report found. The subject of the NASA conference? It was a training session for its procurement officials -- the people who do the buying with taxpayer funds. During the three-day conference, the 317 attendees snacked on "light refreshments" of soda, coffee, fruit, bagels and cookies at a cost of $62,611, according to a NASA Inspector General report. That's $66 a day per person. And that wasn't the only problem. The NASA financial watchdog criticized the financially strapped space agency's spending on conferences in general. The inspector general said NASA didn't price shop to get cheaper locations for conferences and that NASA's spending on food and drinks was "excessive."

Keith's note: Of course, the procurement folks on travel to this meeting also put meals on their travel expenses too, right? Hmm, seeing their travel vouchers for this meeting would be a fascinating FOIA exercise ... "do as I say - not as I do", eh?

Final Memorandum on the Analysis of Fiscal Year 2009 NASA-Sponsored Conferences, NASA OIG

Looking Backward – Not Forward

House panel vows to save Constellation, Orlando Sentinel

"To emphasize its doubt, the subcommittee asked Thomas Young, a former Lockheed Martin executive, to testify. He flatly told the committee that the White House plan was untenable and said that NASA should not rely on commercial rockets to transport astronauts. "In my view, this is a risk too high and not a responsible course. The commercial crew option should not be approved," he said, adding that the best policy would continue a longstanding partnership between NASA and the aerospace industry because the U.S. needs NASA's space expertise."

Keith's note: As I Twittered yesterday: "Tom Young has his gaze firmly affixed on the past not the future and thinks of ways of how not to do things rather than how to do them. FAIL"

Worst Science Article of The Week: Facebook Causes Syphilis | Discoblog

2114874155_b660780928Here’s what we know about the social networking site, Facebook. It can mysteriously suck away large portions of your day, and make you sneaky, nosy, and narcissistic. It can also, in some extreme cases, cause carpal tunnel syndrome from clicking through the bazillion vacation pictures you posted online. But does Facebook cause syphilis? The short answer is “no.” The longer one is “Are you nuts?”

But that didn’t stop British tabloid The Sun from cranking up its imagination and posting an article titled “Sex diseases soaring due to Facebook romps.”

The piece was based on a British National Health Service (NHS) report that noted that syphilis cases in the Teesside region, an area of northeast England, were up four fold. It said casual sex in the area had spiked and as a result of people not using condoms, a surprising number of women had contracted syphilis. So, from fewer than ten cases in 2008, the number had now gone up to 30.

The Sun quotes Professor Peter Kelly, director of Public Health for NHS Tees:

“I don’t get the names of people affected, just figures. And I saw that several of the people had met sexual partners through these sites…. Social networking sites are making it easier for people to meet up for casual sex. There is a rise in syphilis because people are having more sexual partners than 20 years ago and often do not use condoms.”

So the professor is stating what’s in the report: More people are finding dates online and are having casual sex, which leads, in some cases, to syphilis. From his quote above, it’s clear that he makes no specific mention of Facebook, nor is he saying that people who meet sexual partners on Facebook–rather than in bars, through friends, or via online dating sites–are more likely to wind up with an STD.

But here is how The Sun sums up what the professor said:

And an NHS trust chief said Facebook and similar sites were to blame for a shocking rise in cases of potentially-lethal syphilis in the region.

Once The Sun was on the story, other tabloids followed suit, starting with The Telegraph’s article “Facebook Linked to Rise in Syphilis” and The Independent’sInternet Casual Sex is Blamed For Rise in Syphilis.” The BBC states that while Facebook is Britain’s favorite social networking site, it wasn’t entirely unreasonable to make that connection, but to literally put words in the professor’s mouth was inaccurate and misleading.

Edward Kunonga, Professor Kelly’s colleague told the BBC:

Our press release was simply trying to highlight the risks of casual sex. We did not make the claim that social networking sites are causing the rise in the incidence of syphilis.”

Gawker meanwhile ran a quote by a Facebook spokesperson, who scoffed at the false reporting:

While it makes for interesting headlines, the assertions made in newspaper reports that Facebook is responsible for the transmission of STDs are ridiculous, exaggerate the comments made by the professor, and ignore the difference between correlation and causation. As Facebook’s more than 400 million users know, our Web site is not a place to meet people for casual sex – it’s a place for friends, family and coworkers to connect and share.

Most readers, luckily, recognize that using Facebook and practicing safe sex are two completely different things. But that hasn’t stopped the Internet from tittering about the latest story; as one person commented on The Telegraph’s article: “My suggestion, practice ’safe social networking,’ wear a condom when on Facebook.”

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Image: Flickr/benstein

From GM: A 2-Wheeled, Electric, Networked Urban People Mover | 80beats

wheels-EN-V-red-blogSpanWhat looks like a giant helmet, can potentially zip through congested city streets, has eco-friendly bona fides, and can “talk” with other vehicles on the road? It’s the new 2-person EN-V, an “Electric Networked Vehicle” from GM–a concept car that the company hopes will change the way people in crowded cities drive in the future.

GM unveiled several models of the helmet-shaped concept vehicle in Shanghai. The 2-wheeled vehicles, built in collaboration with Segway and GM’s Chinese partner S.A.I.C., are powered by electric motors and can travel up to 25 miles on a single charge. The two-seater EN-V is also a third of the length of a regular car at 1.5 meters [about 5 feet]. It will be equipped with wireless communication and GPS-based navigation that will help it avoid accidents and pick the fastest routes based on real-time traffic conditions, GM says [The Wall Street Journal]. A driver could either control the car manually or could put it into the more relaxing autonomous mode.

Says GM executive Kevin Wale: “It provides an ideal solution for urban mobility that enables future driving to be free from petroleum and emissions, free from congestion and accidents, and more fun and fashionable than ever before” [The New York Times].

But don’t expect to see the EN-V on roads anytime soon. GM says the concept car is meant to showcase “what might be possible by 2030,” when infrastructure for networked vehicles might be in place. The company says that if the EN-V is eventually put into production, it will cost less than a small car but more than a moped.

GM’s decision to unveil the EN-V in Shanghai underscores China’s importance for GM’s future plans. It is GM’s second-largest market after the United States and a strategic battleground for all foreign automakers, with the likes of Volkswagen AG (VOWG.DE) and Toyota fighting fiercely for bigger market share [Reuters]. The country also has some of the most congested cities in the world, making it well-suited for tiny cars like GM’s EN-V.

The EN-V, however is not GM’s first eco-friendly offering. Its Chevrolet Volt plug-in hybrid is slated to hit showrooms later this year.

Here’s a closer look at the new EN-V in action.

Related Content:
80beats: In the Commute of the Future, Drivers Can Let a Pro Take the Wheel
80beats: An Electric-Car Highway in California, But Just for Tesla
80beats: How Would You Like Your Green Car: Hydrogen-Powered, or With a Unicycle on the Side?
80beats: What Does GM’s Bankruptcy Mean for Its Much-Hyped Electric Car?
DISCOVER: 6 Blue-Sky Ideas for Revolutionizing the Automobile (photo gallery)
DISCOVER: The Next Source of Green Energy: Your Car Itself

Image: General Motors

Texas Tech offers quicker degrees to family docs – The Associated Press

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Mount Sinai Shows Interest in St. Vincent’s Hospital – New York Times


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Nebula Continues to Expand

NASA's Nebula rolls out in the cloud, Federal News Radio

"Nebula is 18 months old and is literally rolling along. Agencies across the federal government are exploring cloud computing, but NASA's work in the area could be become the poster child for its use. Their Nebula Cloud Computing Platform at the Ames Research Center in California is being touted as a possible model for others. Chris Kemp, chief information officer of NASA Ames, explains the benefits of Nebula. "The real thrust of the project was making it easier for NASA to make its data accessible on the Web. NASA started using the Internet long ago, and, as a result, we have thousands of public-facing Web sites, and in today's environment, that's expensive to operate. It's also a large attack surface from a security perspective. We're trying to make it easier and more secure for NASA data to be accessed by our partners and the public."