On 02/21/2012 03:50 PM, Andreas Tille wrote: > I admit I can not give any sure confirmation whether I will join or not > but there is a 60% chance that I will show up at this event. I'm > specifically interested in extending the time over the weekend > (21.+22.7.) as it is suggested unofficially. > > My work plan would be to work on the Debian Med project and if needed > give presantations about Debian Med in whatever detail is wanted > (including packaging training). My main motivation will be to find new ways to collaborate as a community. So, it may be good when we are both coming.
I see a) biological workflows and Debian ... I think I would like a session on that b) collection of questions - and answers to those should be given in that uses the workflows of a) Now some wild brain storming on example questions and individuals from which I hope to get some workflow templates at least outlined: I) I find a couple of transcripts to be co-regulated. And I know others that are not related at all. My hunch is that some transcription factor may be in control of the first group. Can I please have some suggestions for shared binding sites? What other transcripts should I have a closer look at? (Individuals to propose an answer: Steffen ... there is no perfect answer, but we should define how far we get with Free tools) II) Comparing healthy and affected individuals (patients, mice, whatever, ...) there are about five genes with each 5 nucleotide differences in the genes most differentially expressed with Affy/Illumina chip soandso. How can I know that the SNP was not having an influence on the differential expression measurement? What SNP is most likely to be relevant for the disease (Individuals to propose an answer: Steffen, Laszlo, .... ) III) (Let's just presume for a second) I am an expert in Ubiquitin and all the many forms of associated modifications that we find for various forms of transport for many proteins in multiple biological processes. The GeneOntology (GO) is not up to my level of understanding, but I need those Gene Set Enrichment analyses for the expression data at hand and would love to have GO enhanced for my purpose. (Individuals to propose an answer: Steffen ... seeing the OBO tools missing with Debian ) ..... add what you want to add .... It is just another of my hunches, but such questions at a visible location with understandable and maybe even "working" answers, should find quite some audience. And those answers should steadily improve as we improve - in deepness and broadness. The Codefest to me would be the seed of such an effort. Would I be alone with that? Steffen -- To UNSUBSCRIBE, email to [email protected] with a subject of "unsubscribe". Trouble? Contact [email protected] Archive: http://lists.debian.org/[email protected]
