Olaf Wolkenhauer

Affiliations:
  • University of Rostock, Germany


According to our database1, Olaf Wolkenhauer authored at least 77 papers between 1997 and 2024.

Collaborative distances:
  • Dijkstra number2 of four.
  • Erdős number3 of four.

Timeline

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Bibliography

2024
ConvGeN: A convex space learning approach for deep-generative oversampling and imbalanced classification of small tabular datasets.
Pattern Recognit., March, 2024

stanscofi and benchscofi: a new standard for drug repurposing by collaborative filtering.
J. Open Source Softw., February, 2024

2022
Convex space learning improves deep-generative oversampling for tabular imbalanced classification on smaller datasets.
CoRR, 2022

Melanoma 2.0. Skin cancer as a paradigm for emerging diagnostic technologies, computational modelling and artificial intelligence.
Briefings Bioinform., 2022

Attention Retrieval Model for Entity Relation Extraction From Biological Literature.
IEEE Access, 2022

2021
LoRAS: an oversampling approach for imbalanced datasets.
Mach. Learn., 2021

A multi-schematic classifier-independent oversampling approach for imbalanced datasets.
CoRR, 2021

Automated annotation of rare-cell types from single-cell RNA-sequencing data through synthetic oversampling.
BMC Bioinform., 2021

A Multi-Schematic Classifier-Independent Oversampling Approach for Imbalanced Datasets.
IEEE Access, 2021

Combining uniform manifold approximation with localized affine shadowsampling improves classification of imbalanced datasets.
Proceedings of the International Joint Conference on Neural Networks, 2021

2020
An integrative network-driven pipeline for systematic identification of lncRNA-associated regulatory network motifs in metastatic melanoma.
BMC Bioinform., 2020

GEMtractor: extracting views into genome-scale metabolic models.
Bioinform., 2020

2019
Harmonizing semantic annotations for computational models in biology.
Briefings Bioinform., 2019

2018
Quick tips for creating effective and impactful biological pathways using the Systems Biology Graphical Notation.
PLoS Comput. Biol., 2018

Impact of graphene-based nanomaterials (GBNMs) on the structural and functional conformations of hepcidin peptide.
J. Comput. Aided Mol. Des., 2018

Evolution of computational models in BioModels Database and the Physiome Model Repository.
BMC Syst. Biol., 2018

A systematic survey of centrality measures for protein-protein interaction networks.
BMC Syst. Biol., 2018

Identifying frequent patterns in biochemical reaction networks: a workflow.
Database J. Biol. Databases Curation, 2018

2017
The RNA workbench: best practices for RNA and high-throughput sequencing bioinformatics in Galaxy.
Nucleic Acids Res., 2017

2016
How Modeling Standards, Software, and Initiatives Support Reproducibility in Systems Biology and Systems Medicine.
IEEE Trans. Biomed. Eng., 2016

Finding patterns in biochemical reaction networks.
PeerJ Prepr., 2016

TRAPLINE: a standardized and automated pipeline for RNA sequencing data analysis, evaluation and annotation.
BMC Bioinform., 2016

COMODI: an ontology to characterise differences in versions of computational models in biology.
J. Biomed. Semant., 2016

An algorithm to detect and communicate the differences in computational models describing biological systems.
Bioinform., 2016

The RNA world in the 21st century - a systems approach to finding non-coding keys to clinical questions.
Briefings Bioinform., 2016

Personalized cancer immunotherapy using Systems Medicine approaches.
Briefings Bioinform., 2016

Challenges and opportunities for system biology standards and tools in medical research.
Proceedings of the 7th Workshop on Ontologies and Data in Life Sciences, 2016

2015
Annotation-based feature extraction from sets of SBML models.
J. Biomed. Semant., 2015

Combining computational models, semantic annotations and simulation experiments in a graph database.
Database J. Biol. Databases Curation, 2015

Mehrebenensysteme in der Biomedizin.
Proceedings of the Wissenschaft und Kunst der Modellierung, 2015

2014
Anti-inflammatory effects of reactive oxygen species - a multi-valued logical model validated by formal concept analysis.
BMC Syst. Biol., 2014

Annotation-Based Feature Extraction from Sets of SBML Models.
Proceedings of the Data Integration in the Life Sciences - 10th International Conference, 2014

2013
Reverse Engineering of Biochemical Reaction Networks Using Co-evolution with Eng-Genes.
Cogn. Comput., 2013

Simulations of stressosome activation emphasize allosteric interactions between RsbR and RsbT.
BMC Syst. Biol., 2013

Improving the reuse of computational models through version control.
Bioinform., 2013

2012
Parameter Identifiability and Sensitivity Analysis Predict Targets for Enhancement of STAT1 Activity in Pancreatic Cancer and Stellate Cells.
PLoS Comput. Biol., 2012

Multi-compartmental modeling of SORLA's influence on amyloidogenic processing in Alzheimer's disease.
BMC Syst. Biol., 2012

Considerations of graph-based concepts to manage of computational biology models and associated simulations.
Proceedings of the 57. Jahrestagung der Deutschen Gesellschaft für Medizinische Informatik, Biometrie und Epidemiologie, 42. Jahrestagung der Gesellschaft für Informatik, Was bewegt uns in der/die Zukunft?, 2012

2011
A model-based strategy to investigate the role of <i>microRNA</i> regulation in cancer signalling networks.
Theory Biosci., 2011

Minimum Information About a Simulation Experiment (MIASE).
PLoS Comput. Biol., 2011

A stem cell niche dominance theorem.
BMC Syst. Biol., 2011

Modeling the Calvin-Benson cycle.
BMC Syst. Biol., 2011

A systems biology approach to investigate the effect of pH-induced gene regulation on solvent production by Clostridium acetobutylicum in continuous culture.
BMC Syst. Biol., 2011

Modelling Molecular Processes by Individual-Based Simulations Applied to Actin Polymerisation.
Proceedings of the Simulation and Modeling Methodologies, Technologies and Applications, 2011

Agent-based Simulation of Molecular Processes - An Application to Actin-polymerisation.
Proceedings of the SIMULTECH 2011 - Proceedings of 1st International Conference on Simulation and Modeling Methodologies, Technologies and Applications, Noordwijkerhout, The Netherlands, 29, 2011

2010
Integration of sensitivity and bifurcation analysis to detect critical processes in a model combining signalling and cell population dynamics.
Int. J. Syst. Sci., 2010

Non-coding RNA detection methods combined to improve usability, reproducibility and precision.
BMC Bioinform., 2010

2009
Exploration of homodimer receptor: homodimer protein interactions.
Int. J. Bioinform. Res. Appl., 2009

A multi-level model accounting for the effects of JAK2-STAT5 signal modulation in erythropoiesis.
Comput. Biol. Chem., 2009

2008
Dynamics of receptor and protein transducer homodimerisation.
BMC Syst. Biol., 2008

A systems biology approach to analyse amplification in the JAK2-STAT5 signalling pathway.
BMC Syst. Biol., 2008

Dynamic properties of a delayed protein cross talk model.
Biosyst., 2008

The role of dynamic stimulation pattern in the analysis of bistable intracellular networks.
Biosyst., 2008

Ein Beitrag zu einer Theorie lebender Zellen (A Contribution towards a Theory of Living Cells).
Autom., 2008

2007
PLMaddon: a power-law module for the Matlab<sup>TM</sup> SBToolbox.
Bioinform., 2007

SBML export interface for the systems biology toolbox for MATLAB.
Bioinform., 2007

Interpreting Rosen.
Artif. Life, 2007

2006
Information Technology in Systems Biology (Informationstechnologien in der Systembiologie).
it Inf. Technol., 2006

Bioinformatics and The Virtual Cell.
it Inf. Technol., 2006

2005
Clustering of unevenly sampled gene expression time-series data.
Fuzzy Sets Syst., 2005

A fully Bayesian model to cluster gene-expression profiles.
Proceedings of the ECCB/JBI'05 Proceedings, Fourth European Conference on Computational Biology/Sixth Meeting of the Spanish Bioinformatics Network (Jornadas de BioInformática), Palacio de Congresos, Madrid, Spain, September 28, 2005

From Networks to Systems to Complex Systems: A Signaling Pathway Coordination Case Study.
Proceedings of the 44th IEEE IEEE Conference on Decision and Control and 8th European Control Conference Control, 2005

2004
Advanced significance analysis of microarray data based on weighted resampling: a comparative study and application to gene deletions in Mycobacterium bovis.
Bioinform., 2004

2003
Introduction to the Special Issue on Systems Biology and Simulation.
Simul., 2003

Experimental Design in Systems Biology, Based on Parameter Sensitivity Analysis Using a Monte Carlo Method: A Case Study for the TNFalpha-Mediated NF-kappa B Signal Transduction Pathway.
Simul., 2003

Level sets and minimum volume sets of probability density functions.
Int. J. Approx. Reason., 2003

Fuzzy Clustering of Short Time-Series and Unevenly Distributed Sampling Points.
Proceedings of the Advances in Intelligent Data Analysis V, 2003

Simulation Study of the TNF alpha Mediated NF-kappa B Signaling Pathway.
Proceedings of the Computational Methods in Systems Biology, First International Workshop, 2003

Mathematical Modeling of the Influence of RKIP on the ERK Signaling Pathway.
Proceedings of the Computational Methods in Systems Biology, First International Workshop, 2003

How to Synthesize an Optimized Genetic-Switching System? A System-Theoretic Approach Based on SQP.
Proceedings of the Computational Methods in Systems Biology, First International Workshop, 2003

2002
Random set system identification.
IEEE Trans. Fuzzy Syst., 2002

2001
Systems Biology: the Reincarnation of Systems Theory Applied in Biology?.
Briefings Bioinform., 2001

Random Sets and Histograms.
Proceedings of the 10th IEEE International Conference on Fuzzy Systems, 2001

On Information Fusion in the Life-Sciences.
Proceedings of the Data Fusion and Perception, 2001

Data engineering - fuzzy mathematics in systems theory and data analysis.
Wiley, ISBN: 978-0-471-41656-2, 2001

1997
Possibilistic Testing of Distribution Functions for Change Detection.
Intell. Data Anal., 1997

Qualitative Uncertainty Models from Random Set Theory.
Proceedings of the Advances in Intelligent Data Analysis, 1997


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