Next generation sequencing: research opportunities and bioinformatic challenges. A seminar I gave for the Computational Life Science (Univ. of Oslo) seminar series, March 2, 2011
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NGS: bioinformatic challenges
1. Next generation sequencing research opportunities and bioinformatic challenges Lex Nederbragt Norwegian High-Throughput Sequencing Centre (NSC) and Centre for Ecological and Evolutionary Synthesis (CEES)
14. Challenges "The rule of thumb in the genomics community is that every dollar spent on sequencing hardware must be matched by a comparable investment in informatics." http://www.the-scientist.com/2011/3/1/60/1/
21. Challenges New technologies coming soon Next-Next-Generation Sequencing NSC expects delivery of the Pacific Biosciences RS in December 2011 http://www.pacificbiosciences.com
35. Norwegian Sequencing Center User: "I have the hypothesis" "You gave me the data" "I need help to answer my question"
36. NSC user user comfortable with data amounts, type, software? should user learn unix? should user buy commercial programs? are these good enough? should user go into cloud computing? fsteurope.com
37. NSC bioinformaticians should NSC test these programs? should NSC/UiO provide computing power? does NSC have a responsibility to provide infrastructure? applications? training? analyses?
38. NSC bioinformaticians if we do analyses: as collaboration, i.e. coauthor? charge per hour? are Norwegian researchers used to collaborate in this way?
Yes, it is true that I poorly understand what I am doing, but I am a molecular biologist and I don't have degree in bioinformatics/statistics/or any computer related field. I don't want to describe here my situation with my supervisor, I have now two ways out from my situation - give up on my PhD or do everything I can do to finish.My supervisor doesn't want to collaborate with anyone, he says that "this is easy". Instead of getting to the end of my PhD I find myself fighting with my supervisor and seeking for help on forum. All I dream of is to finish and find a job within a group doing 'real' metagenomics. But, without any publications I don't have chance to obtain that.