Research Topics
| A KroghSummaryAffiliation: Center for Biological Sequence Analysis Country: Denmark Publications
| Collaborators
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Detail Information
Publications
Two methods for improving performance of an HMM and their application for gene findingA Krogh
Center for Biological Sequence Analysis, Technical University of Denmark, Lyngby, Denmark
Proc Int Conf Intell Syst Mol Biol 5:179-86. 1997..A new (approximative) algorithm is described, which finds the most probable prediction summed over all paths yielding the same prediction. We show that these methods contribute significantly to the high performance of HMMgene...- Hidden neural networksA Krogh
Department of Chemistry, Center for Biological Sequence Analysis, Technical University of Denmark, Building 208, DK 2800 Lyngby, Denmark
Neural Comput 11:541-63. 1999..An evaluation of the HNN on the task of recognizing broad phoneme classes in the TIMIT database shows clear performance gains compared to standard HMMs tested on the same task... - Using database matches with for HMMGene for automated gene detection in DrosophilaA Krogh
Center for Biological Sequence Analysis, Technical University of Denmark, 2800 Lyngby, Denmark
Genome Res 10:523-8. 2000..The specificity drops more than the sensitivity increases when ESTs are used. This is due to the high noise level in EST matches, and it is discussed in more detail why this is and how it might be improved... - Predicting transmembrane protein topology with a hidden Markov model: application to complete genomesA Krogh
Center for Biological Sequence Analysis, Technical University of Denmark, Building 208, 2800 Lyngby, Denmark
J Mol Biol 305:567-80. 2001..We discuss the possible relevance of this finding for our understanding of membrane protein assembly mechanisms. A TMHMM prediction service is available at http://www.cbs.dtu.dk/services/TMHMM/... - Genome organisation and chromatin structure in Escherichia coliD Ussery
Center for Biological Sequence Analysis, Department of Biotechnology, Building 208, The Technical University of Denmark, 2800 Kgs Lyngby, Denmark
Biochimie 83:201-12. 2001..We also show that the regions upstream of genes regulated by H-NS are more curved and have a higher AT content than regions upstream of other genes. These regions in general would also be localised near the replication terminus... - Prediction of signal peptides and signal anchors by a hidden Markov modelH Nielsen
Center for Biological Sequence Analysis, Technical University of Denmark, Lyngby, Denmark
Proc Int Conf Intell Syst Mol Biol 6:122-30. 1998.... - On the total number of genes and their length distribution in complete microbial genomesM Skovgaard
Center for Biological Sequence Analysis, BioCentrum-DTU, The Technical University of Denmark, Building 208, DK-2800 Lyngby, Denmark
Trends Genet 17:425-8. 2001..Although it is often claimed that Escherichia coli has about 4300 genes, we show that it probably has only approximately 3800 genes, and that a similar discrepancy exists for almost all published genomes... - Sigma A recognition sites in the Bacillus subtilis genomeH Jarmer
Center for Biological Sequence Analysis, Building 208, and Section for Molecular Microbiology, Building 301, BioCentrum-DTU, Technical University of Denmark, DK-2800 Lyngby, Denmark
Microbiology 147:2417-24. 2001..Some of the response-regulator aspartate phosphatases were among the predictions of promoters containing extended sites. The expression of rapA and rapB was confirmed by site-directed mutagenesis to depend on the extended -10 region... - Prediction of human protein function from post-translational modifications and localization featuresL J Jensen
Center for Biological Sequence Analysis, BioCentrum-DTU, Building 208, The Technical University of Denmark, DK-2800 Lyngby, Denmark
J Mol Biol 319:1257-65. 2002..These attributes include features associated with post-translational modifications and protein sorting, but also much simpler aspects such as the length, isoelectric point and composition of the polypeptide chain...