Journal Samantha Wright's Journal: Biology Help Desk: Volume 4 22
Bring me your curiosity! As before, if this expires and you want to ask a question, just slip me a comment (or an e-mail) and I'll put up another one of these. No question is too trivial; no thinly-veiled troll too transparent! (I'm going to regret saying that, I'm sure.)
Read lengths (Score:2)
Your statement that short ion torrents read lengths are 10x longer than they need to be makes no sense whatsoever. That's true if you are ok with a 4% error rate in the genome .. and missing crucial mutations.
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Bioinformatics for HS Student? (Score:2)
Hi and thanks for the offer to answer questions. I'm going to repost something I wrote in the google science fair thread:
Ok slashdotters, I've had no luck getting this question answered elsewhere so I might as well try here. My son is very interested in coding. He's competent in Java and he's picking up c quite well. He's taken an interest in GPU programming and I know over the next year he will do OK with those concepts too (I've been able to get both OpenCL and CUDA code up and running). In other words,
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Thanks for the info. I will try to find some medical journals. We have a family member with Parkinson's so we might start with that. As far as the statistics, yes, he is taking a class and luckily his mom is a statistician :)
what do biologists think of python2-python3 (Score:2)
is everyone clinging to python2 forever?
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Bi
awesome... thanks (Score:2)
strangely enough i find myself using a text editor from the 1990s.
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DNA sequencing vs. DNA tests (Score:1)
There's now a story out that says human genome sequencing could be done rapidly and for about $1,000. I have been trying to get a medical test that's just sequencing a single gene (CPT2). The test takes 4-6 weeks to get results and costs $1100. Do you have any insight why this might be? Is there more work for the single-gene sequencing that doesn't get factored into the full genome price?
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Could a layperson, for example, use one to determine their risk of disease with strong genetic factors? A criticism in the Wired article stated that, "The thermal-cycling machine is only a small piece of what's important about PCR and what's required to do it. You need so many other things, including access to chemistry (a reference to proprietary reagents) that's way harder to hack than the machinery itself.
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As for the science fiction mechanic: Like most things that can go wrong in the human body, it already exists [wikipedia.org]. (And it's horrible.)
Bacteria (Score:2)
Hi,
I followed with interest the news of the bacteria that can use arsenic. Later (if I understood correctly) it turned out to be less impressive than initially thought, and can only substitute arsenic for a small percentage of the phosphorus it needs.
I was wondering if there have been any attempts to create such bacteria by artificial selection. Is there any sort of targeted effort along those lines to try to determine in what conditions can life exist?
Thanks!
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I don't know of any such strains personally, but experiments to produce extremophiles certainly exist. (Here's one example [asm.org]: high-pressure E. coli.) A search query like this one [google.com] is probably a good place to start.
This all being said, for us to find life on other planets that exists in some of these forms, there has to be a plausible path backing up the process; I think a lot of people don't quite get this. Just because you can breed, say, extremely radiation-resistant bacteria in a lab doesn't mean that life
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Cool, thanks
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