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Søren Brunak Vis

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*2009
45EEFrancesco Pappalardo, Mark D. Halling-Brown, Nicolas Rapin, Ping Zhang, Davide Alemani, Andrew Emerson, Paola Paci, Patrice Duroux, Marzio Pennisi, Arianna Palladini, Olivo Miotto, Daniel Churchill, Elda Rossi, Adrian J. Shepherd, David S. Moss, Filippo Castiglione, Massimo Bernaschi, Marie-Paule Lefranc, Søren Brunak, Santo Motta, Pierluigi Lollini, Kaye E. Basford, Vladimir Brusic: ImmunoGrid, an integrative environment for large-scale simulation of the immune system for vaccine discovery, design and optimization. Briefings in Bioinformatics 10(3): 330-340 (2009)
2008
44EENicholas Paul Gauthier, Malene Erup Larsen, Rasmus Wernersson, Ulrik de Lichtenberg, Lars Juhl Jensen, Søren Brunak, Thomas Skøt Jensen: Cyclebase.org - a comprehensive multi-organism online database of cell-cycle experiments. Nucleic Acids Research 36(Database-Issue): 854-859 (2008)
2007
43EEFrank Panitz, Henrik Stengaard, Henrik Hornshøj, Jan Gorodkin, Jakob Hedegaard, Susanna Cirera, Bo Thomsen, Lone B. Madsen, Anette Høj, Rikke K. Vingborg, Bujie Zahn, Xuegang Wang, Xuefei Wang, Rasmus Wernersson, Claus B. Jørgensen, Karsten Scheibye-Knudsen, Troels Arvin, Steen Lumholdt, Milena Sawera, Trine Green, Bente J. Nielsen, Jakob Hull Havgaard, Søren Brunak, Merete Fredholm, Christian Bendixen: SNP mining porcine ESTs with MAVIANT, a novel tool for SNP evaluation and annotation. ISMB/ECCB (Supplement of Bioinformatics) 2007: 387-391
42EEClaus Lundegaard, Ole Lund, Can Kesmir, Søren Brunak, Morten Nielsen: Modeling the adaptive immune system: predictions and simulations. Bioinformatics 23(24): 3265-3275 (2007)
2006
41EEPhilip E. Bourne, Søren Brunak: ISMB 2006. ISMB (Supplement of Bioinformatics) 2006: 1-2
2005
40EEJannick Dyrløv Bendtsen, Henrik Nielsen, David Widdick, Tracy Palmer, Søren Brunak: Prediction of twin-arginine signal peptides. BMC Bioinformatics 6: 167 (2005)
39EESvava Ósk Jónsdóttir, Flemming Steen Jørgensen, Søren Brunak: Prediction methods and databases within chemoinformatics: emphasis on drugs and drug candidates. Bioinformatics 21(10): 2145-2160 (2005)
38EEUlrik de Lichtenberg, Lars Juhl Jensen, Anders Fausbøll, Thomas Skøt Jensen, Peer Bork, Søren Brunak: Comparison of computational methods for the identification of cell cycle-regulated genes. Bioinformatics 21(7): 1164-1171 (2005)
2004
37EEClaus Lundegaard, Morten Nielsen, Kasper Lamberth, Peder Worning, Christina Sylvester-Hvid, Søren Buus, Søren Brunak, Ole Lund: MHC Class I Epitope Binding Prediction Trained on Small Data Sets. ICARIS 2004: 217-225
36 Claus A. F. Andersen, Søren Brunak: Representation of Protein-Sequence Information by Amino Acid Subalphabets. AI Magazine 25(1): 97-104 (2004)
35EELars Kiemer, Ole Lund, Søren Brunak, Nikolaj Blom: Coronavirus 3CLpro proteinase cleavage sites: Possible relevance to SARS virus pathology. BMC Bioinformatics 5: 72 (2004)
34EEMorten Nielsen, Claus Lundegaard, Peder Worning, Christina Sylvester-Hvid, Kasper Lamberth, Søren Buus, Søren Brunak, Ole Lund: Improved prediction of MHC class I and class II epitopes using a novel Gibbs sampling approach. Bioinformatics 20(9): 1388-1397 (2004)
2003
33EEClaus Lundegaard, Thomas Nordahl Petersen, Morten Nielsen, Henrik Bohr, Jakob Bohr, Søren Brunak, Garry Gippert, Ole Lund: Prediction of Protein Secondary Structure at High Accuracy Using a Combination of Many Neural Networks. Mathematical Methods for Protein Structure Analysis and Design 2003: 117-122
32 Lars Juhl Jensen, Ramneek Gupta, Hans Henrik Stærfeldt, Søren Brunak: Prediction of human protein function according to Gene Ontology categories. Bioinformatics 19(5): 635-642 (2003)
31EEJens Kaae Christensen, Kasper Lamberth, Morten Nielsen, Claus Lundegaard, Peder Worning, Sanne Lise Lauemøller, Søren Buus, Søren Brunak, Ole Lund: Selecting Informative Data for Developing Peptide-MHC Binding Predictors Using a Query by Committee Approach. Neural Computation 15(12): 2931-2942 (2003)
30 Tanja la Cour, Ramneek Gupta, Kristoffer Rapacki, Karen Skriver, Flemming M. Poulsen, Søren Brunak: NESbase version 1.0: a database of nuclear export signals. Nucleic Acids Research 31(1): 393-396 (2003)
2002
29EERamneek Gupta, Søren Brunak: Prediction of Glycosylation Across the Human Proteome and the Correlation to Protein Function. Pacific Symposium on Biocomputing 2002: 310-322
28 Jeppe S. Spicker, Friedrik Wikman, Ming-Lan Lu, Carlos Cordon-Cardo, Christopher T. Workman, Torben F. Ørntoft, Søren Brunak, Steen Knudsen: Neural network predicts sequence of TP53 gene based on DNA chip. Bioinformatics 18(8): 1133-1134 (2002)
27EEDavid Ussery, Dikeos Mario Soumpasis, Søren Brunak, Hans Henrik Stærfeldt, Peder Worning, Anders Krogh: Bias of Purine Stretches in Sequenced Chromosomes. Computers & Chemistry 26(5): 531-541 (2002)
2001
26 Søren Brunak, Anders Krogh: ISMB 2001. ISMB (Supplement of Bioinformatics) 2001: 1-4
25 Pierre Baldi, Søren Brunak: Bioethics, Fiction Science, and the Future of Mankind - Session Introduction. Pacific Symposium on Biocomputing 2001
24EEPierre Baldi, Søren Brunak, Paolo Frasconi, Gianluca Pollastri, Giovanni Soda: Bidirectional Dynamics for Protein Secondary Structure Prediction. Sequence Learning 2001: 80-104
23 Pierre-François Baisnée, Pierre Baldi, Søren Brunak, Anders Gorm Pedersen: Flexibility of the genetic code with respect to DNA structure. Bioinformatics 17(3): 237-248 (2001)
22EEJan Gorodkin, Bodil Søgaard, Hanne Bay, Hans Doll, Per Kølster, Søren Brunak: Recognition of Environmental and Genetic Effects on Barley Phenolic Fingerprints by Neural Networks. Computers & Chemistry 25(3): 301-307 (2001)
2000
21 Pierre Baldi, Gianluca Pollastri, Claus A. F. Andersen, Søren Brunak: Matching Protein b-Sheet Partners by Feedforward and Recurrent Neural Networks. ISMB 2000: 25-36
20 Pierre Baldi, Søren Brunak, Yves Chauvin, Claus A. F. Andersen, Henrik Nielsen: Assessing the accuracy of prediction algorithms for classification: an overview. Bioinformatics 16(5): 412-424 (2000)
19EEThomas M. Frimurer, Robert Bywater, Lars Nærum, Leif Nørskov Lauritsen, Søren Brunak: Improving the Odds in Discriminating "Drug-like" from "Non Drug-like" Compounds. Journal of Chemical Information and Computer Sciences 40(6): 1315-1324 (2000)
1999
18 Jan Gorodkin, Ole Lund, Claus A. F. Andersen, Søren Brunak: Using Sequence Motifs for Enhanced Neural Network Prediction of Protein Distance Constraints. ISMB 1999: 95-105
17 Pierre Baldi, Søren Brunak, Yves Chauvin, Anders Gorm Pedersen: Structural basis for triplet repeat disorders: a computational analysis. Bioinformatics 15(11): 918-929 (1999)
16 Pierre Baldi, Søren Brunak, Paolo Frasconi, Giovanni Soda, Gianluca Pollastri: Exploiting the past and the future in protein secondary structure prediction. Bioinformatics 15(11): 937-946 (1999)
15 Jan Gorodkin, Hans Henrik Stærfeldt, Ole Lund, Søren Brunak: MatrixPlot: visualizing sequence constraints. Bioinformatics 15(9): 769-770 (1999)
14EEAnders Gorm Pedersen, Pierre Baldi, Yves Chauvin, Søren Brunak: The Biology of Eukaryotic Promoter Prediction - A Review. Computers & Chemistry 23(3-4): 191-207 (1999)
13 Andres Kreegipuu, Nikolaj Blom, Søren Brunak: PhosphoBase, a database of phosphorylation sites: release 2.0. Nucleic Acids Research 27(1): 237-239 (1999)
12 Ramneek Gupta, Hanne Birch, Kristoffer Rapacki, Søren Brunak, Jan E. Hansen: O-GLYCBASE version 4.0: a revised database of O-glycosylated proteins. Nucleic Acids Research 27(1): 370-372 (1999)
1998
11 Pierre Baldi, Søren Brunak, Yves Chauvin, Anders Gorm Pedersen: Computational Applications of DNA Structural Scales. ISMB 1998: 35-42
10 Nikolaj Blom, Andres Kreegipuu, Søren Brunak: PhosphoBase: a database of phosphorylation sites. Nucleic Acids Research 26(1): 382-386 (1998)
9 Jan E. Hansen, Ole Lund, Jette Nilsson, Kristoffer Rapacki, Søren Brunak: O-GLYCBASE Version 3.0: a revised database of O-glycosylated proteins. Nucleic Acids Research 26(1): 387-389 (1998)
1997
8 Jan Gorodkin, Laurie J. Heyer, Søren Brunak, Gary D. Stormo: Displaying the information contents of structural RNA alignments: the structure logos. Computer Applications in the Biosciences 13(6): 583-586 (1997)
7EEHenrik Nielsen, Jacob Engelbrecht, Søren Brunak, Gunnar von Heijne: A Neural Network Method for Identification of Prokaryotic and Eukaryotic Signal Peptides and Prediction of their Cleavage Sites. Int. J. Neural Syst. 8(5-6): 581-599 (1997)
6 Jan E. Hansen, Ole Lund, Kristoffer Rapacki, Søren Brunak: O-GLYCBASE version 2.0: a revised database of O-glycosylated proteins. Nucleic Acids Research 25(1): 278-282 (1997)
1996
5 Anders Gorm Pedersen, Pierre Baldi, Søren Brunak, Yves Chauvin: Characterization of Prokaryotic and Eukaryotic Promoters Using Hidden Markov Models. ISMB 1996: 182-191
4 Jan E. Hansen, Ole Lund, Jens O. Nielsen, John-E. S. Hansen, Søren Brunak: O-GLYCBASE: a revised database of O-glycosylated proteins. Nucleic Acids Research 24(1): 248-252 (1996)
1995
3 Pierre Baldi, Søren Brunak, Yves Chauvin, Jacob Engelbrecht, Anders Krogh: Periodic Sequence Patterns in Human Exons. ISMB 1995: 30-38
1993
2EEPierre Baldi, Søren Brunak, Yves Chauvin, Jacob Engelbrecht, Anders Krogh: Hidden Markov Models for Human Genes. NIPS 1993: 761-768
1990
1EEHenrik Fredholm, Henrik Bohr, Jakob Bohr, Søren Brunak, Rodney M. J. Cotterill, Benny Lautrup, Steffen B. Petersen: A Novel Approach to Prediction of the 3-Dimensional Structures. NIPS 1990: 523-529

Coauthor Index

1Davide Alemani [45]
2Claus A. F. Andersen [18] [20] [21] [36]
3Troels Arvin [43]
4Pierre-François Baisnée [23]
5Pierre Baldi [2] [3] [5] [11] [14] [16] [17] [20] [21] [23] [24] [25]
6Kaye E. Basford [45]
7Hanne Bay [22]
8Christian Bendixen [43]
9Jannick Dyrløv Bendtsen [40]
10Massimo Bernaschi [45]
11Hanne Birch [12]
12Nikolaj Blom [10] [13] [35]
13Henrik Bohr [1] [33]
14Jakob Bohr [1] [33]
15Peer Bork [38]
16Philip E. Bourne [41]
17Vladimir Brusic [45]
18Søren Buus [31] [34] [37]
19Robert Bywater [19]
20Filippo Castiglione [45]
21Yves Chauvin [2] [3] [5] [11] [14] [17] [20]
22Jens Kaae Christensen [31]
23Daniel Churchill [45]
24Susanna Cirera [43]
25Carlos Cordon-Cardo [28]
26Rodney M. J. Cotterill [1]
27Tanja la Cour [30]
28Hans Doll [22]
29Patrice Duroux [45]
30Andrew Emerson [45]
31Jacob Engelbrecht [2] [3] [7]
32Anders Fausbøll [38]
33Paolo Frasconi [16] [24]
34Henrik Fredholm [1]
35Merete Fredholm [43]
36Thomas M. Frimurer [19]
37Nicholas Paul Gauthier [44]
38Garry Gippert [33]
39Jan Gorodkin [8] [15] [18] [22] [43]
40Trine Green [43]
41Ramneek Gupta [12] [29] [30] [32]
42Mark D. Halling-Brown [45]
43Jan E. Hansen [4] [6] [9] [12]
44John-E. S. Hansen [4]
45Jakob Hull Havgaard [43]
46Jakob Hedegaard [43]
47Gunnar von Heijne [7]
48Laurie J. Heyer [8]
49Anette Høj [43]
50Henrik Hornshøj [43]
51Lars Juhl Jensen [32] [38] [44]
52Thomas Skøt Jensen [38] [44]
53Svava Ósk Jónsdóttir [39]
54Claus B. Jørgensen [43]
55Flemming Steen Jørgensen [39]
56Can Kesmir [42]
57Lars Kiemer [35]
58Steen Knudsen [28]
59Per Kølster [22]
60Andres Kreegipuu [10] [13]
61Anders Krogh [2] [3] [26] [27]
62Kasper Lamberth [31] [34] [37]
63Malene Erup Larsen [44]
64Sanne Lise Lauemøller [31]
65Leif Nørskov Lauritsen [19]
66Benny Lautrup [1]
67Marie-Paule Lefranc [45]
68Ulrik de Lichtenberg [38] [44]
69Pierluigi Lollini [45]
70Ming-Lan Lu [28]
71Steen Lumholdt [43]
72Ole Lund [4] [6] [9] [15] [18] [31] [33] [34] [35] [37] [42]
73Claus Lundegaard [31] [33] [34] [37] [42]
74Lone B. Madsen [43]
75Olivo Miotto [45]
76David S. Moss [45]
77Santo Motta [45]
78Lars Nærum [19]
79Bente J. Nielsen [43]
80Henrik Nielsen [7] [20] [40]
81Jens O. Nielsen [4]
82Morten Nielsen [31] [33] [34] [37] [42]
83Jette Nilsson [9]
84Torben F. Ørntoft [28]
85Paola Paci [45]
86Arianna Palladini [45]
87Tracy Palmer [40]
88Frank Panitz [43]
89Francesco Pappalardo [45]
90Anders Gorm Pedersen [5] [11] [14] [17] [23]
91Marzio Pennisi [45]
92Steffen B. Petersen [1]
93Thomas Nordahl Petersen [33]
94Gianluca Pollastri [16] [21] [24]
95Flemming M. Poulsen [30]
96Kristoffer Rapacki [6] [9] [12] [30]
97Nicolas Rapin [45]
98Elda Rossi [45]
99Milena Sawera [43]
100Karsten Scheibye-Knudsen [43]
101Adrian J. Shepherd [45]
102Karen Skriver [30]
103Giovanni Soda [16] [24]
104Bodil Søgaard [22]
105Dikeos Mario Soumpasis [27]
106Jeppe S. Spicker [28]
107Hans Henrik Stærfeldt [15] [27] [32]
108Henrik Stengaard [43]
109Gary D. Stormo [8]
110Christina Sylvester-Hvid [34] [37]
111Bo Thomsen [43]
112David Ussery [27]
113Rikke K. Vingborg [43]
114Xuefei Wang [43]
115Xuegang Wang [43]
116Rasmus Wernersson [43] [44]
117David Widdick [40]
118Friedrik Wikman [28]
119Christopher T. Workman [28]
120Peder Worning [27] [31] [34] [37]
121Bujie Zahn [43]
122Ping Zhang [45]

Colors in the list of coauthors

Copyright © Tue Nov 3 08:52:44 2009 by Michael Ley (ley@uni-trier.de)