Anders Krogh

Anders Krogh
Nationality Danish
Fields Bioinformatics
Institutions University of Copenhagen
Known for hidden Markov models, neural networks

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]

References

  1. ^ http://wiki.binf.ku.dk/User:Krogh 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 308529. PMID 7984429. http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pmcentrez&artid=308529. 
  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. 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, ISBN 0-521-62971-3, http://www.cambridge.org/gb/knowledge/isbn/item1158701 
  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, Richard. 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 2229843. PMID 18286180. http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pmcentrez&artid=2229843. 
  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 2134772. PMID 18032727. http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pmcentrez&artid=2134772. 
  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 2238834. PMID 18006571. http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pmcentrez&artid=2238834. 
  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 2098865. PMID 18052543. http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pmcentrez&artid=2098865. 
  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 1522026. PMID 16712739. http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pmcentrez&artid=1522026. 
  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 1481622. PMID 16672042. http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pmcentrez&artid=1481622. 
  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. ^ Winther O, Krogh A (2004). "Teaching computers to fold proteins". Phys. Rev. E 70 (3): 030903. doi:10.1103/PhysRevE.70.030903. PMID 15524499. 
  17. ^ 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 2072961. PMID 17888163. http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pmcentrez&artid=2072961. 
  18. ^ 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 1570370. PMID 17002495. http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pmcentrez&artid=1570370. 

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