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ORCIDMikael Bodén
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2020 – today
- 2024
[j43]Sanjana Tule, Gabriel Foley, Chongting Zhao, Michael Forbes, Mikael Bodén:
Optimal phylogenetic reconstruction of insertion and deletion events. Bioinform. 40(Supplement_1): i277-i286 (2024)- 2022
- [j42]Gabriel Foley
, Ariane Mora, Connie M. Ross, Scott Bottoms, Leander Sützl, Marnie L. Lamprecht, Julian Zaugg, Alexandra Essebier, Brad Balderson, Rhys Newell, Raine E. S. Thomson, Bostjan Kobe, Ross T. Barnard, Luke Guddat, Gerhard Schenk, Jörg Carsten, Yosephine Gumulya, Burkhard Rost, Dietmar Haltrich, Volker Sieber, Elizabeth M. J. Gillam, Mikael Bodén:
Engineering indel and substitution variants of diverse and ancient enzymes using Graphical Representation of Ancestral Sequence Predictions (GRASP). PLoS Comput. Biol. 18(10): 1010633 (2022) - 2020
- [j41]Timothy O'Connor, Charles E. Grant, Mikael Bodén, Timothy L. Bailey:
T-Gene: improved target gene prediction. Bioinform. 36(12): 3902-3904 (2020)
2010 – 2019
- 2019
- [j40]Maria Littmann, Tatyana Goldberg, Sebastian Seitz, Mikael Bodén, Burkhard Rost:
Detailed prediction of protein sub-nuclear localization. BMC Bioinform. 20(1): 205:1-205:15 (2019) - [j39]Maria Littmann, Tatyana Goldberg, Sebastian Seitz, Mikael Bodén, Burkhard Rost:
Correction to: Detailed prediction of protein sub-nuclear localization. BMC Bioinform. 20(1): 727 (2019) - 2018
- [j38]Stephen J. Fletcher, Mikael Bodén, Neena Mitter, Bernard J. Carroll:
SCRAM: a pipeline for fast index-free small RNA read alignment and visualization. Bioinform. 34(15): 2670-2672 (2018) - [j37]Julian Zaugg, Yosephine Gumulya, Mikael Bodén, Alan E. Mark, Alpeshkumar K. Malde:
Effect of Binding on Enantioselectivity of Epoxide Hydrolase. J. Chem. Inf. Model. 58(3): 630-640 (2018) - [j36]Michael Bernhofer, Tatyana Goldberg, Silvana Wolf, Mohamed Ahmed, Julian Zaugg, Mikael Bodén, Burkhard Rost:
NLSdb - major update for database of nuclear localization signals and nuclear export signals. Nucleic Acids Res. 46(Database-Issue): D503-D508 (2018) - 2017
- [j35]Ralph Patrick, Bostjan Kobe, Kim-Anh Lê Cao, Mikael Bodén:
PhosphoPICK-SNP: quantifying the effect of amino acid variants on protein phosphorylation. Bioinform. 33(12): 1773-1781 (2017) - [j34]Julian Zaugg, Yosephine Gumulya, Alpeshkumar K. Malde, Mikael Bodén:
Learning epistatic interactions from sequence-activity data to predict enantioselectivity. J. Comput. Aided Mol. Des. 31(12): 1085-1096 (2017) - 2015
- [j33]Minh Duc Cao, Sureshkumar Balasubramanian, Mikael Bodén:
Sequencing technologies and tools for short tandem repeat variation detection. Briefings Bioinform. 16(2): 193-204 (2015) - [j32]Ralph Patrick, Kim-Anh Lê Cao, Bostjan Kobe, Mikael Bodén:
PhosphoPICK: modelling cellular context to map kinase-substrate phosphorylation events. Bioinform. 31(3): 382-389 (2015) - 2014
- [j31]Jakub Mazgut, Peter Tiño, Mikael Bodén, Hong Yan:
Dimensionality reduction and topographic mapping of binary tensors. Pattern Anal. Appl. 17(3): 497-515 (2014) - 2013
- [j30]Ahmed M. Mehdi, Muhammad Shoaib B. Sehgal, Bostjan Kobe, Timothy L. Bailey, Mikael Bodén:
DLocalMotif: a discriminative approach for discovering local motifs in protein sequences. Bioinform. 29(1): 39-46 (2013) - [j29]Patricio Oyarzún, Jonathan J. Ellis, Mikael Bodén, Bostjan Kobe:
PREDIVAC: CD4+ T-cell epitope prediction for vaccine design that covers 95% of HLA class II DR protein diversity. BMC Bioinform. 14: 52 (2013) - 2012
- [j28]Ralph Patrick, Kim-Anh Lê Cao, Melissa J. Davis, Bostjan Kobe, Mikael Bodén:
Mapping the stabilome: a novel computational method for classifying metabolic protein stability. BMC Syst. Biol. 6: 60 (2012) - [j27]Kai Willadsen, Nurul Mohamad, Mikael Bodén:
NSort/DB: An Intranuclear Compartment Protein Database. Genom. Proteom. Bioinform. 10(4): 226-229 (2012) - [j26]Praveen K. Madala, David P. Fairlie, Mikael Bodén:
Matching Cavities in G Protein-Coupled Receptors to Infer Ligand-Binding Sites. J. Chem. Inf. Model. 52(5): 1401-1410 (2012) - 2011
- [j25]Ahmed M. Mehdi, Muhammad Shoaib B. Sehgal, Bostjan Kobe, Timothy L. Bailey, Mikael Bodén:
A probabilistic model of nuclear import of proteins. Bioinform. 27(9): 1239-1246 (2011) - [j24]Denis C. Bauer, Kai Willadsen, Fabian A. Buske, Kim-Anh Lê Cao, Timothy L. Bailey, Graham Dellaire, Mikael Bodén:
Sorting the nuclear proteome. Bioinform. 27(13): 7-14 (2011) - 2010
- [j23]Fabian A. Buske, Mikael Bodén, Denis C. Bauer, Timothy L. Bailey:
Assigning roles to DNA regulatory motifs using comparative genomics. Bioinform. 26(7): 860-866 (2010) - [j22]Timothy L. Bailey, Mikael Bodén, Tom Whitington, Philip Machanick:
The value of position-specific priors in motif discovery using MEME. BMC Bioinform. 11: 179 (2010) - [j21]Nurul Mohamad, Mikael Bodén:
The proteins of intra-nuclear bodies: a data-driven analysis of sequence, interaction and expression. BMC Syst. Biol. 4: 44 (2010) - [j20]Denis C. Bauer, Fabian A. Buske, Timothy L. Bailey, Mikael Bodén:
Predicting SUMOylation sites in developmental transcription factors of Drosophila melanogaster. Neurocomputing 73(13-15): 2300-2307 (2010) - [j19]Mikael Bodén, Graham Dellaire, Kevin Burrage, Timothy L. Bailey:
A Bayesian Network Model of Proteins' Association with Promyelocytic Leukemia (PML) Nuclear Bodies. J. Comput. Biol. 17(4): 617-630 (2010) - [j18]Liwen You, Vladimir Brusic, Marcus Gallagher, Mikael Bodén:
Using Gaussian Process with Test Rejection to Detect T-Cell Epitopes in Pathogen Genomes. IEEE ACM Trans. Comput. Biol. Bioinform. 7(4): 741-751 (2010) - [c17]Jakub Mazgut, Peter Tiño, Mikael Bodén, Hong Yan:
Multilinear Decomposition and Topographic Mapping of Binary Tensors. ICANN (1) 2010: 317-326
2000 – 2009
- 2009
- [j17]Timothy L. Bailey, Mikael Bodén, Fabian A. Buske, Martin C. Frith, Charles E. Grant, Luca Clementi, Jingyuan Ren, Wilfred W. Li, William Stafford Noble:
MEME SUITE: tools for motif discovery and searching. Nucleic Acids Res. 37(Web-Server-Issue): 202-208 (2009) - [j16]Fabian A. Buske, Stefan Maetschke, Mikael Bodén:
It's about time: Signal recognition in staged models of protein translocation. Pattern Recognit. 42(4): 567-574 (2009) - [c16]Isye Arieshanti, Mikael Bodén, Stefan Maetschke, Fabian A. Buske:
Detecting sequence and structure homology via an integrative kernel: A case-study in recognizing enzymes. CIBCB 2009: 46-52 - 2008
- [j15]Mikael Bodén, Rohan D. Teasdale:
Determining Nucleolar Association from Sequence by Leveraging Protein-Protein Interactions. J. Comput. Biol. 15(3): 291-304 (2008) - [c15]Mikael Bodén:
Predicting Nucleolar Proteins Using Support-Vector Machines. APBC 2008: 19-28 - [c14]Denis C. Bauer, Fabian A. Buske, Mikael Bodén:
Predicting SUMOylation Sites. PRIB 2008: 28-40 - 2007
- [j14]Marie Bodén, Mikael Bodén:
Evolving spelling exercises to suit individual student needs. Appl. Soft Comput. 7(1): 126-135 (2007) - [j13]Jakkarin Suksawatchon, Chidchanok Lursinsap, Mikael Bodén:
Computing the Reversal Distance between genomes in the Presence of Multi-gene Families via Binary Integer Programming. J. Bioinform. Comput. Biol. 5(1): 117-133 (2007) - [c13]Stefan Maetschke, Marcus Gallagher, Mikael Bodén:
A Comparison of Sequence Kernels for Localization Prediction of Transmembrane Proteins. CIBCB 2007: 367-372 - [c12]Liwen You, Ping Zhang, Mikael Bodén, Vladimir Brusic:
Understanding Prediction Systems for HLA-Binding Peptides and T-Cell Epitope Identification. PRIB 2007: 337-348 - [p1]Peter Tiño, Barbara Hammer, Mikael Bodén:
Markovian Bias of Neural-based Architectures With Feedback Connections. Perspectives of Neural-Symbolic Integration 2007: 95-133 - 2006
- [j12]Mikael Bodén, Timothy L. Bailey:
Identifying sequence regions undergoing conformational change via predicted continuum secondary structure. Bioinform. 22(15): 1809-1814 (2006) - [j11]Mikael Bodén, Zheng Yuan, Timothy L. Bailey:
Prediction of protein continuum secondary structure with probabilistic models based on NMR solved structures. BMC Bioinform. 7: 68 (2006) - [j10]Denis C. Bauer, Mikael Bodén, Ricarda Thier, Elizabeth M. J. Gillam:
STAR: predicting recombination sites from amino acid sequence. BMC Bioinform. 7: 437 (2006) - [c11]Mikael Bodén, John Hawkins:
Evolving discriminative motifs for recognizing proteins imported to the peroxisome via the PTS2 pathway. IEEE Congress on Evolutionary Computation 2006: 2750-2755 - 2005
- [j9]Mikael Bodén, John Hawkins:
Prediction of subcellular localization using sequence-biased recurrent networks. Bioinform. 21(10): 2279-2286 (2005) - [j8]John Hawkins, Mikael Bodén:
The Applicability of Recurrent Neural Networks for Biological Sequence Analysis. IEEE ACM Trans. Comput. Biol. Bioinform. 2(3): 243-253 (2005) - [j7]Mikael Bodén, John Hawkins:
Improved access to sequential motifs: a note on the architectural bias of recurrent networks. IEEE Trans. Neural Networks 16(2): 491-494 (2005) - [c10]Mikael Bodén, John Hawkins:
Detecting residues in targeting peptides. APBC 2005: 131-140 - [c9]Stefan Maetschke, Michael Towsey, Mikael Bodén:
BLOMAP: An encoding of amino acids which improves signal peptide cleavage site prediction. APBC 2005: 141-150 - [c8]Jakkarin Suksawatchon, Chidchanok Lursinsap, Mikael Bodén:
Heuristic Algorithm for Computing Reversal Distance with MultiGene Families via Binary Integer Programming. CIBCB 2005: 187-193 - [c7]John Hawkins, Mikael Bodén:
Predicting Peroxisomal Proteins. CIBCB 2005: 469-474 - [c6]Denis C. Bauer, Mikael Bodén, Ricarda Thier, Zheng Yuan:
Predicting Structural Disruption of Proteins Caused by Crossover (based on Amino Acid Sequence). CIBCB 2005: 514-520 - [c5]Mark Wakabayashi, John Hawkins, Stefan Maetschke, Mikael Bodén:
Exploiting Sequence Dependencies in the Prediction of Peroxisomal Proteins. IDEAL 2005: 454-461 - 2004
- [j6]Mikael Bodén:
Generalization by symbolic abstraction in cascaded recurrent networks. Neurocomputing 57: 87-104 (2004) - 2003
- [j5]Mikael Bodén, Alan D. Blair:
Learning the Dynamics of Embedded Clauses. Appl. Intell. 19(1-2): 51-63 (2003) - [c4]Mikael Bodén:
Using evolutionary noise to improve prediction of rapidly evolving targeting peptides. IEEE Congress on Evolutionary Computation 2003: 2821-2828 - 2002
- [j4]Mikael Bodén, Janet Wiles:
On learning context-free and context-sensitive languages. IEEE Trans. Neural Networks 13(2): 491-493 (2002) - [c3]Mikael Bodén:
Generalization by structural properties from sparse nested symbolic data. ESANN 2002: 377-382 - 2000
- [j3]Mikael Bodén, Lars Niklasson:
Semantic systematicity and context in connectionist networks. Connect. Sci. 12(2): 111-142 (2000) - [j2]Mikael Bodén, Janet Wiles:
Context-free and context-sensitive dynamics in recurrent neural networks. Connect. Sci. 12(3-4): 197-210 (2000) - [c2]Mikael Bodén, Henrik Jacobsson, Tom Ziemke:
Evolving context-free language predictors. GECCO 2000: 1033-1040
1990 – 1999
- 1997
- [b1]Mikael Bodén:
Context-sensitive connectionist representations for nonmonotonic inheritance. University of Exeter, UK, 1997 - 1996
- [c1]Mikael Bodén:
A Connectionist Variation of Inheritance. ICANN 1996: 353-358 - 1993
- [j1]Mikael Bodén, Lars Niklasson:
Editorial. Artif. Intell. Rev. 7(5): 259-260 (1993)
Coauthor Index
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