Talks/Publications

Talks

Find below a list of selected talks I gave. For some presentations slides and other media files are available.

  • Ignite 2010 talk – General thoughts about how to fix the world (March 1st, 2010) Brotfabrik, Frankfurt, Germany (PDF file)
  • Principles and tools of the social web – An introductory seminar (February, 19th, 2010) EBI, Hinxton, UK (PDF file)
  • Wiki training course for EMBL staff, Heidelberg, Germany (PDF file version 1, 23rd July, 2009; PDF file version 2, 30th July, 2009; PDF file version 3, 6th August, 2009)
  • Computational analysis of metagenomic data: delineation of compositional features and screens for desirable enzymes (2009, February 4th) PhD defense / Promotionsverteidigung, Würzburg, Germany (PDF file)
  • The ProductTransparency project (2008, December 29th) 25th Chaos Communication Congress (25C3), Berlin, Germany (PDF file)
  • The What, Why and How of openness in science with Lars J. Jensen (2008, February 25th) EMBL Biocomputing Unit Retreat, Garmisch, Germany (PDF file, entry at nature precedings)
  • A quick trip through openness, freedom and transparency (2007, September 8th) EMBL PhD retreat, Barcelona, Spain (PDF file [screencast version], video as avi (XviD4), video as mpeg, Video at Google video [bad quality], entry at nature precedings) – The “open formats” topic was not presented at the retreat due to time limitations but is included in the screencast video.
  • Revolutionizing scientific communication and collaboration (2007, April 12th) Allen Press Emerging Trends in Scholarly Publishing Seminar, Washington, USA (PDF file, entry at nature precedings)
  • Basic concepts of the Semantic Web and applications of it in science (2007, February 11th) EMBL Biocomputing Unit Retreat, Garmisch, Germany
  • Metagenomics – See what’s really out there (2006, October 8) EMBL PhD Retreat, Prague, Czech Republic
  • Information overflow? Stay tuned with a click – Use blogs and RSS for your research (2006, May 23) EMBL Computational Biology Center Seminar, Heidelberg Germany (also part of the First Online EMBL PhD Symposium), download files from here or here
  • Using new web concepts for more efficient research – An introduction for the less-techy crowd (2006, May 16) EMBL Computational Biology Center Seminar, Heidelberg Germany (also part of the First Online EMBL PhD Symposium), download files from here or here
  • Web Server Design Part III: Web 2.0 – The Future of the Web? (2006, May 16th), EMBL Biocomputing Unit Retreat, Garmisch, Germany

Publications

  • Computational analysis of metagenomic data: delineation of compositional features and screens for desirable enzymes. Foerstner KU, my PhD thesis (cumulative dissertation), 2008, PDF file
  • A Nitrile Hydratase in the Eukaryote Monosiga brevicollis. Foerstner KU, Doerks T, Muller J, Raes J, Bork P. PloS ONE 2008;3(12):e3976 Pubmed | Full text at PloS ONE
  • A computational screen for type I polyketide synthases in metagenomics shotgun data. Foerstner KU, Doerks T, Creevey CJ, Doerks A, Bork P PloS ONE 2008;3(10):e3515 Pubmed | Full text at PloS ONE
  • A Molecular Study of Microbe Transfer between Distant Environments. Hooper SD, Raes J, Foerstner KU, Harrington ED, Dalevi D, Bork P PloS ONE 2008 3(7): e2607 Pubmed | Full text at PloS ONE
  • Get the most out of your metagenome: computational analysis of environmental sequence data. Raes J, Foerstner KU, Bork P Curr Opin Microbiol. 2007 Oct 11; Pubmed | Fulltext (shhhh!)
  • Splicing factors stimulate polyadenylation via USEs at non-canonical 3′ end formation signals. Danckwardt S, Kaufmann I, Gentzel M, Foerstner KU, Gantzert AS, Gehring NH, Neu-Yilik G, Bork P, Keller W, Wilm M, Hentze MW, Kulozik AE EMBO J. 2007 Apr 26; Pubmed | Full text at PubMed Central
  • The sigmaB regulon in Staphylococcus aureus and its regulation. Pane-Farre J, Jonas B, Förstner K, Engelmann S, Hecker M Int J Med Microbiol. 2006 Aug ; 296(4-5): 237-58 Pubmed
  • Comparative analysis of environmental sequences: potential and challenges. Foerstner KU, von Mering C, Bork P Philos Trans R Soc Lond B Biol Sci. 2006 Mar 29; 361(1467): 519-23 Pubmed | Full text at PubMed Central
  • Environments shape the nucleotide composition of genomes. Foerstner KU, von Mering C, Hooper SD, Bork P EMBO Rep. 2005 Dec ; 6(12): 1208-13 PubMed | Full text at PubMed Central