Anders Krogh

Anders Krogh
Residence Denmark
Nationality Danish
Fields Bioinformatics
Institutions University of Copenhagen
Alma mater University of Copenhagen
Known for hidden Markov models, neural networks
Website
people.binf.ku.dk/krogh

Professor Anders Krogh is a bioinformatician at the University of Copenhagen,[1] 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),[2][3][4] and is co-author of a widely used textbook in bioinformatics.[5] In addition, he also co-authored one of the early textbooks on neural networks.[6] His current research interests include promotor analysis,[7][8][9] non-coding RNA,[10][11][12] gene prediction[13][14][15] and protein structure prediction.[16][17][18][19][20]

References

  1. "Archived copy". Archived from the original on 2011-09-02. Retrieved 2011-04-14. Professor Anders Krogh, The Bioinformatics Centre, Department of Molecuar Biology, University of Copenhagen
  2. 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. doi:10.1006/jmbi.1994.1104. PMID 8107089.
  3. 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. doi:10.1093/nar/22.22.4768. PMC 308529Freely accessible. PMID 7984429.
  4. 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. doi:10.1093/bioinformatics/12.4.327. PMID 8902360.
  5. Durbin, Richard M.; Eddy, Sean R.; Krogh, Anders; Mitchison, Graeme (1998), Biological Sequence Analysis: Probabilistic Models of Proteins and Nucleic Acids (1st ed.), Cambridge: Cambridge University Press, doi:10.2277/0521629713, ISBN 0-521-62971-3
  6. 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
  7. Marstrand TT, Frellsen J, Moltke I, et al. (2008). Copley R, ed. "Asap: A Framework for Over-Representation Statistics for Transcription Factor Binding Sites". PLoS ONE. 3 (2): e1623. doi:10.1371/journal.pone.0001623. PMC 2229843Freely accessible. PMID 18286180.
  8. 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. PMC 2134772Freely accessible. PMID 18032727.
  9. 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. PMC 2238834Freely accessible. PMID 18006571.
  10. 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. PMC 2098865Freely accessible. PMID 18052543.
  11. 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.
  12. 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.
  13. Munch K, Krogh A (2006). "Automatic generation of gene finders for eukaryotic species". BMC Bioinformatics. 7: 263. doi:10.1186/1471-2105-7-263. PMC 1522026Freely accessible. PMID 16712739.
  14. 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. PMC 1481622Freely accessible. PMID 16672042.
  15. 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.
  16. Krogh A, Larsson B, von Heijne G, Sonnhammer EL (2001). "Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes". J Mol Biol. 305 (3): 567–580. doi:10.1006/jmbi.2000.4315. PMID 11152613.
  17. Winther O, Krogh A (2004). "Teaching computers to fold proteins". Phys. Rev. E. 70 (3): 030903. doi:10.1103/PhysRevE.70.030903. PMID 15524499.
  18. 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. PMC 2072961Freely accessible. PMID 17888163.
  19. 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. PMC 1570370Freely accessible. PMID 17002495.
  20. Boomsma W, Mardia KV, Taylor CC, Ferkinghoff-Borg J, Krogh A, Hamelryck T (2008). "A generative, probabilistic model of local protein structure". PNAS. 105 (26): 8932–8937. doi:10.1073/pnas.0801715105. PMC 2440424Freely accessible. PMID 18579771.

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