Anders Krogh

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Anders Krogh is professor in bioinformatics at the university of Copenhagen, where he leads the university's bioinformatics center. He is well known for his pioneering work on the use of hidden Markov models in bioinformatics (together with David Haussler)[1][2][3], and is co-author of a widely used textbook in bioinformatics[4]. In addition, he also co-authored one of the early textbooks on neural networks[5]. His current research interests include promotor analysis[6][7][8], non-coding RNA[9][10][11], gene prediction[12][13][14] and protein structure prediction[15][16].

[edit] References

  1. ^ Krogh A, Brown M, Mian IS, Sjölander K, Haussler D (1994). "Hidden Markov models in computational biology. Applications to protein modeling". J. Mol. Biol. 235 (5): 1501–31. PMID 8107089. 
  2. ^ Krogh A, Mian IS, Haussler D (1994). "A hidden Markov model that finds genes in E. coli DNA". Nucleic Acids Res. 22 (22): 4768–78. PMID 7984429. 
  3. ^ Sjölander K, Karplus K, Brown M, et al (1996). "Dirichlet mixtures: a method for improved detection of weak but significant protein sequence homology". Comput. Appl. Biosci. 12 (4): 327–45. PMID 8902360. 
  4. ^ Biological Sequence Analysis: Probabilistic Models of Proteins and Nucleic Acids. (1999) Richard Durbin, Sean R. Eddy, Anders Krogh, Graeme Mitchison, Cambridge University Press
  5. ^ Introduction to the Theory of Neural Computation (Santa Fe Institute Studies in the Sciences of Complexity). (1991) John A. Hertz, Richard G. Palmer, Anders Krogh, Westview Press
  6. ^ Marstrand TT, Frellsen J, Moltke I, et al (2008). "Asap: a framework for over-representation statistics for transcription factor binding sites". PLoS ONE 3 (2): e1623. doi:10.1371/journal.pone.0001623. PMID 18286180. 
  7. ^ Frith MC, Valen E, Krogh A, Hayashizaki Y, Carninci P, Sandelin A (2008). "A code for transcription initiation in mammalian genomes". Genome Res. 18 (1): 1–12. doi:10.1101/gr.6831208. PMID 18032727. 
  8. ^ Bryne JC, Valen E, Tang MH, et al (2008). "JASPAR, the open access database of transcription factor-binding profiles: new content and tools in the 2008 update". Nucleic Acids Res. 36 (Database issue): D102–6. doi:10.1093/nar/gkm955. PMID 18006571. 
  9. ^ Lindow M, Jacobsen A, Nygaard S, Mang Y, Krogh A (2007). "Intragenomic matching reveals a huge potential for miRNA-mediated regulation in plants". PLoS Comput. Biol. 3 (11): e238. doi:10.1371/journal.pcbi.0030238. PMID 18052543. 
  10. ^ Lindgreen S, Gardner PP, Krogh A (2007). "MASTR: multiple alignment and structure prediction of non-coding RNAs using simulated annealing". Bioinformatics 23 (24): 3304–11. doi:10.1093/bioinformatics/btm525. PMID 18006551. 
  11. ^ Lindgreen S, Gardner PP, Krogh A (2006). "Measuring covariation in RNA alignments: physical realism improves information measures". Bioinformatics 22 (24): 2988–95. doi:10.1093/bioinformatics/btl514. PMID 17038338. 
  12. ^ Munch K, Krogh A (2006). "Automatic generation of gene finders for eukaryotic species". BMC Bioinformatics 7: 263. doi:10.1186/1471-2105-7-263. PMID 16712739. 
  13. ^ Munch K, Gardner PP, Arctander P, Krogh A (2006). "A hidden Markov model approach for determining expression from genomic tiling micro arrays". BMC Bioinformatics 7: 239. doi:10.1186/1471-2105-7-239. PMID 16672042. 
  14. ^ Nielsen P, Krogh A (2005). "Large-scale prokaryotic gene prediction and comparison to genome annotation". Bioinformatics 21 (24): 4322–9. doi:10.1093/bioinformatics/bti701. PMID 16249266. 
  15. ^ Won KJ, Hamelryck T, Prügel-Bennett A, Krogh A (2007). "An evolutionary method for learning HMM structure: prediction of protein secondary structure". BMC Bioinformatics 8: 357. doi:10.1186/1471-2105-8-357. PMID 17888163. 
  16. ^ Hamelryck T, Kent JT, Krogh A (2006). "Sampling realistic protein conformations using local structural bias". PLoS Comput. Biol. 2 (9): e131. doi:10.1371/journal.pcbi.0020131. PMID 17002495.