Joe Raedle/Getty
Vast stores of DNA samples and data have been produced by the increasing pace of genetic sequencing.
Early last year, three researchers set out to create one genetic data set to rule them all. The trio wanted to assemble the worlds most comprehensive catalogue of human genetic variation, a single reference database that would be useful to researchers hunting rare disease-causing genetic variants.
Unlike past big data projects, which have involved large groups of scientists, this one deliberately kept itself small, deploying just five analysts. Nearly two years in, it has identified about 50million genetic variants points at which one persons DNA differs from anothers in whole-genome sequence data collected by 23other research collaborations. The group, called the Haplotype Reference Consortium, will unveil its database in San Diego, California, on 20October, at the annual meeting of the American Society of Human Genetics.
Geneticists have not always been so willing to share data. But that seems to be changing. Its been surprisingly easy to bring all these data sets together, says Jonathan Marchini, a statistical geneticist at the University of Oxford, UK, and one of the consortiums leaders. There is a lot of goodwill between the people in the field; they all understand the benefits of doing this and have worked hard to make their data available.
In the past five years, there has been an explosion in rates of sequencing human genomes thanks to the falling cost of the technology. At the same time, geneticists have realized that linking genes to diseases and traits will require much bigger sample sizes than any one research centre can assemble.
It was once assumed that common diseases and traits could be traced to a few common genetic variants that would be relatively easy to find. But that has turned out not to be the case. It is now clear that thousands of different variants each play a small part in determining a persons height or risk of schizophrenia, for example. And finding those thousands of variants means looking at a daunting number of people. At the same time, the increased pace of genetic sequencing has made it possible to collect enough genomes to uncover those variants.
Here are a bunch of data sets that individually cost millions of dollars to generate, and you have people willing to make that data available to a shared resource, which is amazing, says geneticist Daniel MacArthur of Massachusetts General Hospital in Boston.
MacArthur is part of the Exome Aggregation Consortium, another attempt to create a supersized library of human genetic variation. On 20October, MacArthur and his colleagues plan to unveil their own public database containing the protein-coding portions, or exomes, of 63,000 human genomes originally gathered by other researchers. We can say from looking at a very large cohort of peoplethis is what the distribution of rare variation looks like, says MacArthur. And that is very powerful.
MacArthur is developing tools to comb the data for mutations that disable genes. Only some of these loss-of-function mutations cause harm; predicting which are pathogenic will require knowing more about which ones regularly occur in healthy people.
See more here:
Giant gene banks take on disease
- June 11th At Westport, CT: Federal Red Flags, HIPAA Security Rules and Fraud Prevention [Last Updated On: November 7th, 2009] [Originally Added On: November 7th, 2009]
- Do not learn Dvorak! [Last Updated On: November 7th, 2009] [Originally Added On: November 7th, 2009]
- You Can’t Solve Problems By Making It Illegal To Have The Problem [Last Updated On: November 7th, 2009] [Originally Added On: November 7th, 2009]
- A Force Fix for Healthcare [Last Updated On: November 7th, 2009] [Originally Added On: November 7th, 2009]
- Yahble, HIT, Bubblecon, BIZDEV!, Solid State [Last Updated On: November 7th, 2009] [Originally Added On: November 7th, 2009]
- 15 things that suck about the Palm Pre [Last Updated On: November 7th, 2009] [Originally Added On: November 7th, 2009]
- What an Indie Genomics Lab Looks Like [Last Updated On: November 7th, 2009] [Originally Added On: November 7th, 2009]
- Practice Fusion: Class D Felony? [Last Updated On: February 26th, 2010] [Originally Added On: February 26th, 2010]
- Practice Fusion Responds [Last Updated On: March 7th, 2010] [Originally Added On: March 7th, 2010]
- Practice Fusion: Do the math: $44,000 is a LIE [Last Updated On: March 10th, 2010] [Originally Added On: March 10th, 2010]
- How Much Until Doctors Approve of 23andMe? [Last Updated On: March 10th, 2010] [Originally Added On: March 10th, 2010]
- Biochemicals as Media, Not Methods [Last Updated On: March 10th, 2010] [Originally Added On: March 10th, 2010]
- More Practice Fusion Reality Distortion [Last Updated On: March 10th, 2010] [Originally Added On: March 10th, 2010]
- Same Test Results: 23andMe is Myriad is BRCA is Medicine [Last Updated On: March 12th, 2010] [Originally Added On: March 12th, 2010]
- BRCA is 23andMe is Myriad is Medicine [Last Updated On: March 13th, 2010] [Originally Added On: March 13th, 2010]
- Getting Serious About Genomics as Common Medical Practice [Last Updated On: March 15th, 2010] [Originally Added On: March 15th, 2010]
- The New John Mackey of Genetics: Linda Avey? [Last Updated On: March 15th, 2010] [Originally Added On: March 15th, 2010]
- Keep the Medical, Well, Medical [Last Updated On: March 16th, 2010] [Originally Added On: March 16th, 2010]
- If 23andMe shuts down, it won’t be for some mundane reason like the bills weren’t paid [Last Updated On: March 16th, 2010] [Originally Added On: March 16th, 2010]
- If I Run A Medical Practice, How Do I Use A 23andMe? [Last Updated On: March 17th, 2010] [Originally Added On: March 17th, 2010]
- 23andMe Contract in Bad Faith [Last Updated On: March 19th, 2010] [Originally Added On: March 19th, 2010]
- Doctors CANNOT Use 23andMe Due To 23andMe’s Bad Faith Contract [Last Updated On: March 20th, 2010] [Originally Added On: March 20th, 2010]
- Pathway Compared to 23andMe and Navigenics [Last Updated On: March 22nd, 2010] [Originally Added On: March 22nd, 2010]
- There’s a Word for “Views Differ” When One View Is The State [Last Updated On: March 24th, 2010] [Originally Added On: March 24th, 2010]
- Association for Molecular Pathology, et al. v. USPTO, et al. – Opinion [Last Updated On: March 29th, 2010] [Originally Added On: March 29th, 2010]
- Birth of a Super Villain [Last Updated On: April 3rd, 2010] [Originally Added On: April 3rd, 2010]
- “Medical Products” like 23andMe must not become the new “Financial Products” [Last Updated On: April 4th, 2010] [Originally Added On: April 4th, 2010]
- How I Would Apply Genomic Technology In Clinical Use Today [Last Updated On: April 5th, 2010] [Originally Added On: April 5th, 2010]
- Gmail Enterprise: World’s Best EMR [Last Updated On: April 6th, 2010] [Originally Added On: April 6th, 2010]
- Brief Primer on Health Law Compliance [Last Updated On: April 9th, 2010] [Originally Added On: April 9th, 2010]
- Spoiler: You ARE the “Valids” [Last Updated On: April 9th, 2010] [Originally Added On: April 9th, 2010]
- Rachel Lehmann-Haupt Line by Line Take Down [Last Updated On: April 9th, 2010] [Originally Added On: April 9th, 2010]
- Is Medicare Bankrupt? What the Hell Is Going On? [Last Updated On: April 17th, 2010] [Originally Added On: April 17th, 2010]
- The Big Shuffle: Medicare Cuts Rates by 21.3% (but not “technically”) [Last Updated On: April 17th, 2010] [Originally Added On: April 17th, 2010]
- “Tech Hiring Binge” == “Fear for Your Job, Nerds” [Last Updated On: April 18th, 2010] [Originally Added On: April 18th, 2010]
- How Bad is Bad? $.20 on the Private Medical Insurance Dollar [Last Updated On: April 20th, 2010] [Originally Added On: April 20th, 2010]
- Update: How Bad is Bad? It Used to Be $.45 on the Medical Insurance Dollar [Last Updated On: April 20th, 2010] [Originally Added On: April 20th, 2010]
- World’s Best “EMR” for $1000: Google Spreadsheets + iPad [Last Updated On: April 21st, 2010] [Originally Added On: April 21st, 2010]
- Don’t Insult Me with your “AOL Keyword” Strategy, Google Health [Last Updated On: April 21st, 2010] [Originally Added On: April 21st, 2010]
- How to Play LAWGAMES [Last Updated On: April 23rd, 2010] [Originally Added On: April 23rd, 2010]
- Top 4 Predatory Schemes Encroaching on American Medicine: Part 1 [Last Updated On: April 25th, 2010] [Originally Added On: April 25th, 2010]
- What’s the Big Deal About iPads? [Last Updated On: April 27th, 2010] [Originally Added On: April 27th, 2010]
- Got Google Android for Google I/O [Last Updated On: April 27th, 2010] [Originally Added On: April 27th, 2010]
- Google Enterprise meets HIPAA and HITECH Compliant Laws [Last Updated On: April 29th, 2010] [Originally Added On: April 29th, 2010]
- Pixels of Accuracy CHALENGE: Diagnostic Medical Imaging [Last Updated On: April 29th, 2010] [Originally Added On: April 29th, 2010]
- 23andMe Launder AlioGenetics Doesn’t Even Bother to Remove 23andMe Logo [Last Updated On: April 30th, 2010] [Originally Added On: April 30th, 2010]
- Anthem of CT Denies $600 Until “Subscriber Responds to our Coordination of Benefits Questionnaire” [Last Updated On: May 1st, 2010] [Originally Added On: May 1st, 2010]
- Apple And Google Team Up To Launch Revolutionary Mobile Health System [Last Updated On: May 1st, 2010] [Originally Added On: May 1st, 2010]
- Funny Pictures from This Year Building the Medical Practice [Last Updated On: May 6th, 2010] [Originally Added On: May 6th, 2010]
- Remote Medical Video Monitoring on iPad and iPhone [Last Updated On: May 7th, 2010] [Originally Added On: May 7th, 2010]
- Google Calendar Overhead Waiting Room Display [Last Updated On: May 7th, 2010] [Originally Added On: May 7th, 2010]
- Various Whiteboards on Solid State Medical Operations [Last Updated On: May 7th, 2010] [Originally Added On: May 7th, 2010]
- The Raw Facts about Counsyl [Last Updated On: May 7th, 2010] [Originally Added On: May 7th, 2010]
- Brawndo: Still Mutilating Thirst, Still Not Yet Sold at the Stop-n-Shop Pharmacy [Last Updated On: May 9th, 2010] [Originally Added On: May 9th, 2010]
- Video: Google Enterprise to Outsource Medical Administration [Last Updated On: May 9th, 2010] [Originally Added On: May 9th, 2010]
- Gattaca: “The Matrix” of Genomics [Last Updated On: May 11th, 2010] [Originally Added On: May 11th, 2010]
- 23andMe Now Diagnoses Fatal Tay-Sachs Disease [Last Updated On: May 12th, 2010] [Originally Added On: May 12th, 2010]
- Why Was Pathway Targeted for FDA Enforcement and Not 23andMe? [Last Updated On: May 15th, 2010] [Originally Added On: May 15th, 2010]
- John Dolan on Aging and the Horrifying Conclusion of GWAS [Last Updated On: May 16th, 2010] [Originally Added On: May 16th, 2010]
- Sam R. Riley Wants To Tell You About Practice Fusion [Last Updated On: May 17th, 2010] [Originally Added On: May 17th, 2010]
- Response to “Genomic Medicine: Lost” [Last Updated On: May 19th, 2010] [Originally Added On: May 19th, 2010]
- Death And Taxes: CMS to IRS [Last Updated On: May 19th, 2010] [Originally Added On: May 19th, 2010]
- Please Stop Antagonizing the AMA [Last Updated On: May 26th, 2010] [Originally Added On: May 26th, 2010]
- Dan Vorhaus, Attorney At Law, Legally Advises Medical Doctors Can Use 23andMe To Provide Medical Advice [Last Updated On: May 28th, 2010] [Originally Added On: May 28th, 2010]
- Singularity Summit 2010 in San Francisco to Explore Intelligence Augmentation [Last Updated On: June 7th, 2010] [Originally Added On: June 7th, 2010]
- OpenPCR: DNA amplification for anyone [Last Updated On: June 10th, 2010] [Originally Added On: June 10th, 2010]
- FDA sends letters to 5 genetic testing companies [Last Updated On: June 11th, 2010] [Originally Added On: June 11th, 2010]
- Amazon And The NIH Team Up To Put Human Genome In The Cloud [Last Updated On: March 31st, 2012] [Originally Added On: March 31st, 2012]
- ReproSource Comments on New Study Linking Infertility to Genetics [Last Updated On: April 25th, 2012] [Originally Added On: April 25th, 2012]
- Genetics 101 Part 1: What are genes? - Video [Last Updated On: April 30th, 2012] [Originally Added On: April 30th, 2012]
- Red Ice Radio - David Icke - Hour 1 - The Manipulation of Humanity - Video [Last Updated On: April 30th, 2012] [Originally Added On: April 30th, 2012]
- Genetics Part 5: Human Genetic Disorders - Video [Last Updated On: April 30th, 2012] [Originally Added On: April 30th, 2012]
- C2CAM - The Nephilim, Genetic Manipulation [Last Updated On: April 30th, 2012] [Originally Added On: April 30th, 2012]
- Human Nature talk with Robert Sapolsky, Gabor Mate, James Gilligan, Richard Wilkinson - Video [Last Updated On: April 30th, 2012] [Originally Added On: April 30th, 2012]
- Human Genetic Diseases - Video [Last Updated On: April 30th, 2012] [Originally Added On: April 30th, 2012]
- Alien Scientist on Genetics, Implants [Last Updated On: April 30th, 2012] [Originally Added On: April 30th, 2012]
- Research and Markets: Genetics, 6th Edition International Student Version Continues To Educate Today's Students for ... [Last Updated On: May 4th, 2012] [Originally Added On: May 4th, 2012]
- Myriad Genetics to Present at the Bank of America Merrill Lynch 2012 Health Care Conference [Last Updated On: May 4th, 2012] [Originally Added On: May 4th, 2012]
- Genetics may explain some people's dislike of meat [Last Updated On: May 4th, 2012] [Originally Added On: May 4th, 2012]
- 'Blond Genes' May Vary Around the World [Last Updated On: May 4th, 2012] [Originally Added On: May 4th, 2012]