Wednesday, 7 December 2011

GCAT-SEEKquence: Genome Consortium for Active Teaching of Undergraduates through Increased Faculty Access to Next-Generation Sequencing Data.

regarding this point about 
create a large database of raw data and analyzed results for pedagogical use by GCAT-SEEK members

I think that any resource that puts up raw data and analyzed results would help anyone/everyone to get started with NGS data analysis. I do wonder though are the resources already out there, just that it needs curators to collate. There's also the issue of data sensitivity. If it's sequenced for academic learning, there might be no issue. But if it's data already analysed and published, maybe there would be issues with having it relooked by scores of undergrads. (though I feel that good science shld stand up to scrutiny like this) 

I think part of the reason why PGM is gaining in popularity is that the datasets are out in the wild so that ppl are free to play around with the data and share their findings and ultimately create a community of support.


To transform undergraduate biology education, faculty need to provide opportunities for students to engage in the process of science. The rise of research approaches using next-generation (NextGen) sequencing has been impressive, but incorporation of such approaches into the undergraduate curriculum remains a major challenge. In this paper, we report proceedings of a National Science Foundation-funded workshop held July 11-14, 2011, at Juniata College. The purpose of the workshop was to develop a regional research coordination network for undergraduate biology education (RCN/UBE). The network is collaborating with a genome-sequencing core facility located at Pennsylvania State University (University Park) to enable undergraduate students and faculty at small colleges to access state-of-the-art sequencing technology. We aim to create a database of references, protocols, and raw data related to NextGen sequencing, and to find innovative ways to reduce costs related to sequencing and bioinformatics analysis. It was agreed that our regional network for NextGen sequencing could operate more effectively if it were partnered with the Genome Consortium for Active Teaching (GCAT) as a new arm of that consortium, entitled GCAT-SEEK(quence). This step would also permit the approach to be replicated elsewhere.

[PubMed - in process] 
PMCID: PMC3228652
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