https://customercare.23andme.com/entries/23241132-Does-the-2...
Micro-array analysis (as opposed to the Exome sequencing they are starting to offer, which may be useful for BRCA diagnosis) focusses on frequently occurring single nucleotide polymorphisms (substitution of one base for another). The majority of these are benign.
By looking at lots of commonly occurring variants it is hoped that they can map regions of the genome that may harbour other mutations that may actually have an effect.
Baynes et al., 2007 [1] showed that none of the commonly occurring SNP's in BRCA (> 1-5% of the population) have a significant risk in cancer.
There is currently a case before the Supreme Court trying to invalidate Myriad's patents, as well as all patents on human DNA.
The issue, however, is that Myriad's value is no longer in their patents, but in the data they collected over the past 20 years.
Myriad charges ~$3k for their tests, while a full sequence of your entire genome is only ~$5k, and will tell you the same genetic data. But Myriad has been able to correlate much more of your DNA and the BRCA regions with cancer risk, and that data is not public.
23andMe is definitely not a substitute.
For anyone interested in the patents and the current Supreme Court case, check out: http://www.genomicslawreport.com/index.php/2013/05/01/some-t...
That's a great blog on genomics and the law, and there are other interesting blog posts on Myriad if you look through their archive.
or is there a completely different way of mapping specific genes?
The most significant of the "something really bad and unexpected" are the risk factors for Alzheimer's and Breast Cancer. I believe that there are certain markers for both those diseases which could reveal that you have a much higher lifetime risk (for some cases of breast cancer, >50%), which is obviously scary. Don't quote me on this, but I believe in both situations you are very likely to have had some family history in these diseases, so it should not be a total surprise. And if you have a family history of breast cancer, you should be getting Myriad's full BRCA test (see my other post). I would probably look into a clinical test for Alzheimers too if I thought I was at risk.
There are a few other diseases that also have big impact (>50% lifetime risk), but they are rarer, and I'm not sure if there are any where you would have had no family or personal history to clue you in on the possibility.
The vast majority of the diseases 23andMe reports on give you very little actionable data. For example, it might say I have a 2x risk of prostate cancer, from a background risk of 2% chance to a personalized 4% chance. I view that as pretty unhelpful. Furthermore, it's based on SNP-associations currently known. It's possible, I have another SNP that's associated with a .25x risk, and therefore I actually have only 1% chance overall, i.e. half the general population's risk.
23andMe can be useful for other reasons. For example, it will tell you if you are a recessive carrier of certain diseases, which is helpful if and when you decide to have children. It's also fun, has ancestry info, etc.
I think that a lot of programmers are probably more cold and logical in their thinking (like me) so it was a pretty easy choice for me.
My wife is a lot more emotional and I have tried to convince her to get 23andMe but she refuses because she doesn't want to know.