Cyberinfrastructure for biological sciences

This paper takes a more semantic web and forward looking view than recent cyberinfrastructure articles:

  • Stein, L. D. (2008).Towards a cyberinfrastructure for the biological
    sciences: progress, visions and challenges Nat Rev Genet, 9(9), 678-688. DOI: 10.1038/nrg2414

Things like Semantic Web Pipes - missing from the article - can be found on the wiki page for the article (Thanks Matthias Samwald).

Related recent articles:
  • Goble, C., Stevens, R. (2008). State of the nation in data integration for bioinformatics. Journal of Biomedical Informatics DOI: 10.1016/j.jbi.2008.01.008

  • Stockinger, H., Attwood, T., Chohan, S.N., Cote, R., Cudre-Mauroux, P., Falquet, L., Fernandes, P., Finn, R.D., Hupponen, T., Korpelainen, E., Labarga, A., Laugraud, A., Lima, T., Pafilis, E., Pagni, M., Pettifer, S., Phan, I., Rahman, N. (2008). Experience using web services for biological sequence analysis. Briefings in Bioinformatics DOI: 10.1093/bib/bbn029

  • Garciasanchez, F., Fernandezbreis, J., Valenciagarcia, R., Gomez, J., Martinezbejar, R. (2008). Combining Semantic Web technologies with Multi-Agent Systems for integrated access to biological resources. Journal of Biomedical Informatics DOI: 10.1016/j.jbi.2008.05.007

  • Belleau, F., Nolin, M., Tourigny, N., Rigault, P., Morissette, J. (2008). Bio2RDF: Towards a mashup to build bioinformatics knowledge systems. Journal of Biomedical Informatics DOI: 10.1016/j.jbi.2008.03.004

  • Sagotsky, J.A., Zhang, L., Wang, Z., Martin, S., Deisboeck, T.S. (2008). Life Sciences and the web: a new era for collaboration. Molecular Systems Biology, 4 DOI: 10.1038/msb.2008.39




Comments

Post a Comment

Popular posts from this blog

Java, MySql increased performance with Huge Pages

[Resources updates: 2010.07.07 , 2009.11.03 , 2009.05.27 ] Long running, large memory, high performant applications often have special needs with respect to their memory management. On Linux, Solaris and other modern OSes, the translation look-aside buffer ( TLB ) - whose page size of 4k for many CPUs/OSes - becomes a scalability issue in these extreme conditions. In order to get around TLB scalability issues, huge page sizes are used to reduce the impact on performance. This can be of use to installations with large scale Java, MySql and other large memory applications. 300% improvement : " Well, in my case, I was able to achieve an over 3x improvement in my EJB 3 application, of which fully 60 to 70% of that was due to using large page memory with a 3.5GB heap. Now, a 3.5GB heap without the large memory pages didn't provide any benefit over smaller heaps without large pages. Besides the throughput improvements, I also noticed that GC frequency was cut down by two-third...
Read more

IBM on Linux: "Lean, clean, and green"

IBM developerWorks has an article ( Linux: Lean, clean, and green: How GNU/Linux is becoming more eco-friendly - 26 May 2009) which examines some of the Green benefits of the Linux operating system. It focuses primarily on the low resource demands Linux has on systems (as well as its support for older systems), thus extending the life of machines that would otherwise be junked. Also discussed is virtualization and aspects of the Linux OS that reduce power consumption in servers. Additional Green Linux and Open Source resource: LessWatts.org - Saving Power on Intel systems with Linux Ten ways Linux can turn you green . 2009 Green Computing With Open Source Software . 2009 Open Source is Already Naturally Green: Fewer Lawyers, Fewer Showers, More Real People Add Up to Big Green Wins . 2009 Is Linux the Greenest Operating System . 2009 Go Green, Save Green with Linux . 2008 Linux captures the 'green' flag, beats Windows 2008 power-saving measures 2008 Canadian Green Party...
Read more

Postscript coding resources

Image
Postscript is one of my favourite programming languages. Resources for postscript programming are not too common, and are always popping up and then disappearing, as things tend to do on the Web. Here is a snapshot of links that work: I will do my best to keep them up-to-date.
Read more