Today I will be taking a few days off of posting as I head out for a family emergency. But before I do, I would like to point your attention towards David Hamilton's post yesterday.
From His Post:
deCODEme provides its customers with an analysis of SNPs that have been linked to 18 diseases, calculating a risk summary that compares an individual’s odds of getting sick those for the population — well, a population — at large. The trouble, as we noted earlier, is that in many cases deCODEme bases this risk assessment on just one or two SNPs, when most diseases are thought to be influenced by tens or hundreds of different genes. That means the disease risks deCODEme calculates are very likely to be wildly inaccurate — potentially a serious state of affairs for the folks paying roughly $1,000 for this very analysis, even if deCODEme is careful to caution its users not to rely on the data as medical information. (Exactly what other use it might be isn’t entirely clear to me.)
Read the Rest
Thank you all. I will return to the blogosphere ASAP, and announce the big news.
Keep Climbing,
-The Sherpa
Sunday, January 27, 2008
Sherpa Family Emergency
Posted by Steve Murphy MD at 7:54 AM 1 comments
Thursday, January 24, 2008
Got TT? Stay away from "water pills"
In case you missed it. In the Journal of the American Medical Association a large retrospective analysis of the ALLHAT trial was done. What is the ALLHAT trial? It was an analysis of high blood pressure, treatments and outcomes. In the land of what us physician folk call Landmark Studies, this is a big study.
ALLHAT was a randomized, double-blind, multicenter clinical trial (623 clinical centers) with 42 418 hypertensive participants aged 55 years or older who had 1 or more additional risk factors for cardiovascular disease. ALLHAT was designed to determine if the incidence of fatal coronary heart disease (CHD) and nonfatal myocardial infarction in high-risk hypertensive patients was lower with treatment using each of 3 antihypertensive drug classes: a calcium channel blocker (amlodipine), an ACE inhibitor (lisinopril), and an -adrenergic blocker (doxazosin) compared with treatment using a diuretic (chlorthalidone).
The posthoc analysis using genotypes was performed from 2004-2005. The results are just being published now. What did they genotype?
GenHAT genotyped variants in several hypertension-related genes in 39 114 ALLHAT participants with available DNA, making the study design a post hoc subgroup analysis of a randomized clinical trial. The goal of GenHAT was to understand gene-treatment interactions on CVD outcomes and blood pressure lowering.... There were 38 462 participants with data available for at least 1 variant.
The variant of interest is a gene called NPPA. Studies in animal models have shown that animals which have "minor alleles" for this gene end up with salt provoked hypertension. In addition and possibly more importantly, these patients showed higher risk of horrible disease such as stroke or heart attack.
I will not get into the physiology of high blood pressure today. But suffice it to say that there are several ways to lower the pressure in our arteries. Think of arteries like garden hoses. If there is alot of water in the hose, the pressure is up. If I take that same hose and that same amount of water, then I squeeze the hose. Guess what? The pressure goes up. So if I can lower the amount of water in the hose or dilate the hose to a bigger size, then I can lower the pressure. The "water pill" chlorthalidone removes water, the amlodipine dilates the hose. The Ace-inhibitor removes water indirectly.
Here's where we get a Landmark result for Personalized Medicine:
The NPPA T2238C variant was associated with modification of antihypertensive medication effects on cardiovascular disease and BP. Minor C allele carriers experienced more favorable cardiovascular disease outcomes when randomized to receive a diuretic, whereas TT allele carriers had more favorable outcomes when randomized to receive a calcium channel blocker.
What the hell does this mean? If you carry the TT pair of this NPPA gene, you shouldn't take the diuretic. Unless you want to have a higher risk of stroke.
The Sherpa Says: Despite being a modest elevation in risk, 126%. It is certainly easy enough to change a person's medications to avoid poor outcomes. This is what Personalized Medicine IS. The right diagnosis leading to the right drug for the right person. This is what we do at my offices. Does this come on the Illumina gene chips? SNP database ID rs5065. To my firend Brandon, check this one out!
Posted by Steve Murphy MD at 4:04 AM 5 comments
Labels: 23 and me, Helix Health of Connecticut, personalized medicine
Sunday, January 20, 2008
The Sherpa Reaches 20,000
- The prostate cancer risk genes and Family history. Guess what? Family history doubles the risk which the genes confer. Big surprise!
- EGAPP issues its guidance on ONCOTypeDX. Close to ready for prime time. MammaPrint, too soon to tell.
- Six new genes and Cholesterol? Get the genetic tests? No. Go get your cholesterol checked.
- Searching for your ancestry? Wind up finding cancer! If this happens to you give Helix Health of Connecticut a call
- The Gene Count drops to 20k! Should be easy for Google to catalog that.
Posted by Steve Murphy MD at 5:11 PM 2 comments
Labels: 23 and me, Fox, Helix Health of Connecticut, mammaprint, navigenics, nbc, NYT, oncotype DX, wsj
Saturday, January 19, 2008
Failed the Test? Blame Homocysteine!
Recently there was an article which raised some red flags for me. It explains why we can't be jumping to all sorts of conclusions about genes and their effects.
From Medical News Today:
"UMaine psychology professors Merrill F. "Pete" Elias, Michael A. Robbins and Penelope K. Elias, in collaboration with colleagues in Syracuse, N.Y., England and Australia, studied the relationships among the gene ApoE, homocysteine concentrations, and cognitive performance"
This prompts me to ask what variants did they study and what do they mean by cognitive performance?
Nine hundred eleven dementia-free and stroke-free subjects (59% women) from the Maine-Syracuse study (26–98 years old) were stratified into no-ApoE-4 (n = 667) and ApoE-4 carrier (n = 244) cohorts
The clinical diagnosis of dementia was determined from cognitive data, self-report, and medical records, using the National Institute of Neurological and Communicative Diseases and Stroke/Alzheimer’s Disease and Related Disorders Association (NINCDS-ADRDA) criteria
This is quite a few people, but they do not eliminate those patients who may have had a TIA or separated them by IQ. Which is probably a better way to assess this. In addition, Self report is a notoriously poor way for dementia patients to identify themselves. Remember these people who have dementia frequently deny that they have dementia.
Participants completed the Center for Epidemiological Studies Depression Scale (CES-D [34]) within one week prior to neuropsychological testing. Following a fast from midnight, a blood sample was drawn and a light breakfast was served. A physical examination and neuropsychological testing followed.
Probably some of the best testing so far....
What did they find?
With adjustment for the Expanded model (Basic +CVD+ B-vitamin covariates), we found that persons with high, as versus low, plasma tHcy in the presence of an ApoE-4 allele performed 0.30S.D. and 0.40S.D. lower on the Global composite and the MMSE, respectively. Deficits of this magnitude are of considerable importance at the population level and constitute a risk factor for dementia
Here's where the researchers make a huge error! They state "But there is hope for prevention and reversal of cognitive deficit related to elevated homocysteine by reducing homocysteine levels."
Great! If you have Apo-E4 you should take folate? No!
Hope? Listen, this same old story was thought to be true for cardiovascular disease. "We'll give you folate to lower your risk for heart attack" What happened? Nothing. In fact recently there is literature hinting that folate may actually increase your risk of colon cancer growth!
The Sherpa Says:
So where does this leave us? Is Folate good for those with APO-E4? Don't starting taking it yet. Nutrigenomics is coming, but the data, much like in Personalized Genomic testing, is not there yet. In Folate's case, what you don't know might actually kill you. Or At least give you colon cancer. That's why you need the Sherpas, to guide you through the study trail!
Posted by Steve Murphy MD at 8:05 AM 3 comments
Labels: 23 and me, Breast cancer, Colon cancer, folic acid, Helix Health of Connecticut, navigenics
Friday, January 18, 2008
Big News.
I have some big news to announce. But not until Tuesday.
-Steve
Posted by Steve Murphy MD at 4:25 PM 0 comments
Thursday, January 17, 2008
Don't Be Evil? Devil to Ben.......
In reading through my RSS feeder I stumbled across an interesting video at Testing Hiatus. It comes from the website Master Plan the Movie. Before you watch this YouTube video I first would like you to take a gander at an excerpt from
"The Google Story"
Sergey Brin and Larry Page have ambitious long-term plans for Google's expansion into the fields of biology and genetics through the fusion of science, medicine, and technology. . . .One of the most exciting Google projects involves biological and genetic research that could foster important medical and scientific breakthroughs. Through this effort, Google may help accelerate the era of personalized medicine, in which understanding an individual's precise genetic makeup can contribute to the ability of physicians and counselors to tailor health care treatment, rather than dispensing medications or recommending treatments based on statistics or averages.
"We need to use the largest computers in the world," Venter said. "Larry and Sergey have been excited about our work and about giving us access to their computers and their algorithm guys and scientists to improve the process of analyzing data. It shows the broadness of their thinking. Genetic information is going to be the leading edge of information that is going to change the world. Working with Google, we are trying to generate a gene catalogue to characterize all the genes on the planet and understand their evolutionary development. Geneticists have wanted to do this for generations."Over time, Venter said, Google will build up a genetic database, analyze it, and find meaningful correlations for individuals and populations. . . . Google's data-mining techniques appear well-suited to the formidable challenges posed by analyzing the genetic sequence.
It has begun work on this project, but has not been required to disclose any information about it publicly since the work has no impact on its current revenue and profits."People will be able to log on to a Google site using search capacities and have the ability to understand things about themselves as they change in real time," Venter said. "What does it mean to have this variation in genes? What else is known? And instead of having a few elitist scientists doing this and dictating to the world what it means, with Google it would be creating several million scientists.
"Google has empowered individuals to do searches and get information and have things in seconds at their fingertips," he went on. "Where is that more important than understanding our own biology and its connection to disease and behavior? With Google, you will be able to get an understanding of your own genes. Google has the capacity to do all of this, and it is one of the discussions I have had with Larry and Sergey."
Ok, So now you can watch the movie at Testing Hiatus
Let me know what you think. Does Don't be Evil mean Be Good? Or Does it mean something else?
The Sherpa Says: 23andME has been in the works long before it hit the radar. See Russ Altman earn his advisorship to 23 and Me here.
Posted by Steve Murphy MD at 7:16 PM 1 comments
Labels: 23 and me, Craig Venter genes, deCODEme, DNA direct, Helix Health of Connecticut, navigenics
Wednesday, January 16, 2008
Zetia is No Zocor!
Ok, so I wanted to talk a little bit today about cholesterol and how the human body is often misunderstood. In the ENHANCE trial which tested the effect of Vytorin (ezetimibe and simvastatin combined) versus Zocor (simvastatin alone), results showed that the Vytorin, was no better than the Zocor by itself.
Why did this study get such a big press coverage? Because Zocor costs about 4 USD at WalMart whereas Vytorin can runs hundreds of dollars. But more importantly, it speaks to the fact that what we thought we know about heart disease and atherosclerotic plaques may not be the whole story. This is a very important point.
I urge caution with these test results though. The study only assessed the reduction of cholesterol plaque, NOT, I repeat, NOT a clinical outcome such as reduction in heart attack or stroke. It's not like the original Vytorin studies covered this well either though.
Why do statins work? No one know. Maybe it is a reduction in inflammation, maybe it is the lowering of LDL, maybe it is some pathway none of us know about. This is why GWAS(GenomeWide Association Studies) are so important, they give us clues into what causes a disease by unbiased search of the genes in our body. If we put all our eggs in the cholesterol basket, then, as this study suggests, then we could end up pretty hungry, and pretty poor.
In a recent study published in the journal Nature Genetics, there is an article which identifies new genes linked to high cholesterol and triglycerides (The building blocks of atherosclerosis)
These genes or regions of DNA could be new targets for drug discovery. The problem I have is, until we know what the true cause of heart disease is, designing drugs based on our assumptions could be just as useless as Zetia (the other drug in Vytorin)
The Sherpa Says:
What does this have to do with personalized medicine? Everything! We must challenge old assumptions and cast a doubt on new things that have not been validated. This study should remind us "All that glitters is not Always gold, But Does always have a hell of a marketing team behind them"
Posted by Steve Murphy MD at 11:25 AM 0 comments
Sunday, January 13, 2008
Evidence Base, Not Eminence Base for Genomic Medicine
"Why should genomic medicine become more evidence-based?" He describes why we need to make the shift and why we haven't been so good at it. One of the biggest reasons is that the geneticists and research PhD geneticists have not needed to use evidence based medicine to publish. This is in direct contrast to large medicine trials, such as those required for blockbuster medicines. In Internal Medicine and Adult medicine, residents are raised on such evidenced based articles to guide best practices.
Posted by Steve Murphy MD at 6:04 PM 0 comments
Labels: 23 and me, DNA direct, Helix Health of Connecticut, knome, navigenics
Saturday, January 12, 2008
Sir Hillary? What about Norgay?
Posted by Steve Murphy MD at 4:12 PM 1 comments
Labels: 23 and me, barack obama, edmund hillary, Helix Health of Connecticut, mt everest, navigenics, nepal, new zealand, oprah, tenzing norgay
Thursday, January 10, 2008
Navigenics? Who was that?
So after the New England Journal of Medicine has given Personal Genome Sequencing the thumbs down, I ask you...."What will happen to these personal genome companies?"
Posted by Steve Murphy MD at 4:10 PM 5 comments
Labels: DNA direct, drudge report, existence genetics, Helix Health of Connecticut, New england journal of medicine
The Gene Genie Gone Awry?
Posted by Steve Murphy MD at 11:09 AM 1 comments
Labels: 23 and me, Craig Venter genes, DNA direct, Helix Health of Connecticut, knome, navigenics
Tuesday, January 8, 2008
I saw the Future!
What is going on? It is the future, and it is inevitable. The last phase of "America's Greatest Generation" is now succumbing to the wounds of chronic disease. Emphysema, Heart Failure, Kidney Failure, Metastatic Cancer. You can only live so long. More importantly, we have been able to keep you alive much longer than if we were living in the 1960s or even the 1980s.
The future is here. This economic and medical strain of this critical care will break the system. How can we fix it? We can prevent the chronic diseases. How do we do that? We act before the disease has time to damage us. We use molecular detection, we take family histories, we use genetic screening. But who would pay for that? Smart consumers, that's who.
By identifying risk, we can reduce behaviors that kill us. How do we do this? We won't be able to under the current system of episodic care. We need a paradigm shift!
The Sherpa Says:
Personalized Medicine is that paradigm shift! Prediction, Prevention, Privacy is what is needed here. I have seen the future. We can change it, but first we must suffer from the effects of our unwillingness to change.
Posted by Steve Murphy MD at 1:36 PM 0 comments
Labels: 23 and me, bab, barack obama, DNA direct, Helix Health of Connecticut, medicare
Saturday, January 5, 2008
Watching the Debates
Tonight I take a night off of genetics posting to watch the debates. What I can't get over is that the debates are being sponsored by Facebook. Have these presidential debates always been sponsored?
If so, then have they always been marketed like a bowl game?
Will they continue to be?
The Sherpa Says:
My gosh..... I hope these politicos are ready to start "Juicing"
Posted by Steve Murphy MD at 6:36 PM 1 comments
Labels: barack obama, hillary clinton, john edwards, john mccain, mike huckabee, mitt romney, roger clemens, rudy guiliani, steroids
Friday, January 4, 2008
Garbage In, Gospel Out
Posted by Steve Murphy MD at 1:27 PM 2 comments
Labels: 23 and me, DNA direct, francis collins, Helix Health of Connecticut, herceptin, navigenics
Wednesday, January 2, 2008
2008 Here We Come!!!
On the contrary, personalized molecular medicine appears to be at our doorstep.
The Sherpa Says: The conclusions are coming. I think Yoda said it best "Patience" This year will require tremendous amounts of it. Francis Collins tells a joke "There is this woman who is married to a research geneticist. He keeps telling her how great their sex life WILL be." Thank you to a certain unnamed TV news series for thinking of me when covering Personal Genomics. I look forward to our discussions. Does anyone think the New Year's Ball looks like an AAV?
Posted by Steve Murphy MD at 8:16 AM 0 comments
Labels: DNA direct, duchenne muscular dystrophy, francis collins, Helix Health of Connecticut, NEJM, New england journal of medicine, personalized medicine