Entering edit mode
8.1 years ago
ahmedakhokhar
▴
150
Please to ask a lazy question,
I am trying to find the genomic sequences of Ebola virus disease survivors and deceased persons, can someone provide me with information about a resource or a publication ?
Thanks !
Interesting task to identify resistance genotype, unfortunately I doubt it in part (being as lazy, not searching the web), because of the gravity and contagiousness of the infection. Edit: was guessing wrong in the paper linked below, they seem to have overcome all problems thanks to the power of small NGS sequencing. It should be possible to obtain human exomes in the same way.
Not at all correct. There has been huge amounts of sequencing done (on the virus).
Yes, I should have googled, but there doesn't seem to be human exomes at least.
But I need data on human hosts sequences not the virus.
I don't think you'll find that out in the open. Human sequence data would be PPI, and there would have to be access restrictions around it. From what's been published, I don't recall anyone producing human sequencing data. I think most of the effort has been focused on duration of infection/viral persistence, host immune responses, etc. Sequencing virus was important to the understanding the dynamics of the outbreak.
One of the things I've seen in all of the data I've looked at is that it seems very difficult to control (if not impossible) for the dizzying array of variables and confounding factors. Even if there was human sequencing data (exomes, RNA-Seq, etc) publicly available, I wouldn't wager on being able to perform a very solid analysis.
If anything, I'd suggest finding papers where they were sequencing virus from human blood samples and email the authors asking if they did or plan to do any human sequencing. They might be able to help you.
This is a very lazy question, we're not going to dig through PubMed/Google Scholar for you!
Dear all, being Lazy, I was being polite, as we alI know how to use google and contact other recourses, I was asked to put this query here by UCSC Ebola Genome Portal contact person, because he/she couldn't able to help me :) Cheers !
Good job trying by yourself first. If I were you I'd have mentioned the UCSC Ebola Genome Portal thing in the post when I created it - gives you a lot more credit, that part.