Thomas Dandekar
Orcid: 0000-0003-1886-7625Affiliations:
- University of Würzburg, Germany
According to our database1,
Thomas Dandekar
authored at least 65 papers
between 1997 and 2023.
Collaborative distances:
Collaborative distances:
Timeline
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Online presence:
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on zbmath.org
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on orcid.org
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on id.loc.gov
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on d-nb.info
On csauthors.net:
Bibliography
2023
2022
Optimization of synthetic molecular reporters for a mesenchymal glioblastoma transcriptional program by integer programing.
Bioinform., 2022
2021
A systems-biology model of the tumor necrosis factor (TNF) interactions with TNF receptor 1 and 2.
Bioinform., 2021
2020
Modeling of shotgun sequencing of DNA plasmids using experimental and theoretical approaches.
BMC Bioinform., 2020
A comprehensive method protocol for annotation and integrated functional understanding of lncRNAs.
Briefings Bioinform., 2020
Briefings Bioinform., 2020
2019
Analyzing pharmacological intervention points: A method to calculate external stimuli to switch between steady states in regulatory networks.
PLoS Comput. Biol., 2019
2018
An open source tool for automatic spatiotemporal assessment of calcium transients and local 'signal-close-to-noise' activity in calcium imaging data.
PLoS Comput. Biol., 2018
Proceedings of the Bioinformatics and Biomedical Engineering, 2018
2017
FIJI Macro 3D ART VeSElecT: 3D Automated Reconstruction Tool for Vesicle Structures of Electron Tomograms.
PLoS Comput. Biol., 2017
Optimality principles reveal a complex interplay of intermediate toxicity and kinetic efficiency in the regulation of prokaryotic metabolism.
PLoS Comput. Biol., 2017
2016
The drug-minded protein interaction database (DrumPID) for efficient target analysis and drug development.
Database J. Biol. Databases Curation, 2016
Mining biomedical images towards valuable information retrieval in biomedical and life sciences.
Database J. Biol. Databases Curation, 2016
Proceedings of the Bioinformatics and Biomedical Engineering, 2016
2015
MSL: Facilitating automatic and physical analysis of published scientific literature in PDF format.
F1000Research, 2015
<i>Lipid-Pro: </i> a computational lipid identification solution for untargeted lipidomics on data-independent acquisition tandem mass spectrometry platforms.
Bioinform., 2015
2014
Developing sustainable software solutions for bioinformatics by the "<i>Butterfly</i>" paradigm.
F1000Research, 2014
'Isotopo' a database application for facile analysis and management of mass isotopomer data.
Database J. Biol. Databases Curation, 2014
Briefings Bioinform., 2014
2013
Analysing molecular polar surface descriptors to predict blood-brain barrier permeation.
Int. J. Comput. Biol. Drug Des., 2013
PlanktoVision - an automated analysis system for the identification of phytoplankton.
BMC Bioinform., 2013
Jimena: efficient computing and system state identification for genetic regulatory networks.
BMC Bioinform., 2013
Software LS-MIDA for efficient mass isotopomer distribution analysis in metabolic modelling.
BMC Bioinform., 2013
Database J. Biol. Databases Curation, 2013
2012
Int. J. Web Appl., 2012
Integrated pathway modules using time-course metabolic profiles and EST data from Milnesium tardigradum.
BMC Syst. Biol., 2012
Bioinform., 2012
Briefings Bioinform., 2012
2011
Time-resolved in silico modeling of fine-tuned cAMP signaling in platelets: feedback loops, titrated phosphorylations and pharmacological modulation.
BMC Syst. Biol., 2011
2010
Towards Design and Implementation of a Language Technology based Information Processor for PDM Systems
CoRR, 2010
The IronChip evaluation package: a package of perl modules for robust analysis of custom microarrays.
BMC Bioinform., 2010
Bioinform., 2010
2009
Modeling system states in liver cells: Survival, apoptosis and their modifications in response to viral infection.
BMC Syst. Biol., 2009
JANE: efficient mapping of prokaryotic ESTs and variable length sequence reads on related template genomes.
BMC Bioinform., 2009
2008
Nucleic Acids Res., 2008
BMC Syst. Biol., 2008
Bioinform., 2008
Identifying functional modules in protein-protein interaction networks: an integrated exact approach.
Proceedings of the Proceedings 16th International Conference on Intelligent Systems for Molecular Biology (ISMB), 2008
2007
BMC Bioinform., 2007
2006
The internal transcribed spacer 2 database - a web server for (not only) low level phylogenetic analyses.
Nucleic Acids Res., 2006
4SALE - A tool for synchronous RNA sequence and secondary structure alignment and editing.
BMC Bioinform., 2006
XML schemas for common bioinformatic data types and their application in workflow systems.
BMC Bioinform., 2006
inGeno - an integrated genome and ortholog viewer for improved genome to genome comparisons.
BMC Bioinform., 2006
Modelling interaction sites in protein domains with interaction profile hidden Markov models.
Bioinform., 2006
2005
Nucleic Acids Res., 2005
CBCAnalyzer: inferring phylogenies based on compensatory base changes in RNA secondary structures.
Silico Biol., 2005
YANA - a software tool for analyzing flux modes, gene-expression and enzyme activities.
BMC Bioinform., 2005
ProfDist: a tool for the construction of large phylogenetic trees based on profile distances.
Bioinform., 2005
Briefings Bioinform., 2005
2004
Nucleic Acids Res., 2004
Integration of Data in Pathogenomics: Three Layers of cellular complexity and an XML-based Framework.
J. Integr. Bioinform., 2004
J. Chem. Inf. Model., 2004
Stoffwechselanalyse: Der Weg vom Genom zum metabolischen Netzwerk (Pathway Analysis: On the Route from Genomics to Metabolic Networks).
it Inf. Technol., 2004
2003
Nucleic Acids Res., 2003
Robust estimation of the phylogeny of Chlorophyceae(Chlorophyta)based on profile distances.
Proceedings of the German Conference on Bioinformatics, 2003
2002
J. Chem. Inf. Comput. Sci., 2002
Medical Target Prediction From Genome Sequence: Combining Different Sequence Analysis Algorithms with Expert Knowledge and Input From Artificial Intelligence Approaches.
Comput. Chem., 2002
Exploring the pathway structure of metabolism: decomposition into subnetworks and application to Mycoplasma pneumoniae.
Bioinform., 2002
Metabolic Pathways.
Proceedings of the Gene Regulations and Metabolism - Postgenomic Computational Approaches, 2002
2000
Structural Analysis of Metabolic Networks: Elementary Flux Modes, Analogy to Petri Nets, and Application to Mycoplasma Pneumoniae.
Proceedings of the German Conference on Bioinformatics (GCB 2000), 2000
1998
Systematic genomic screening and analysis of mRNA in untranslated regions and mRNA precursors: combining experimental and computational approaches.
Bioinform., 1998
Pathway alignment: Application in the comparative analysis of glycolysis.
Proceedings of the German Conference on Bioinformatics, 1998
1997
Systematic genomic screening and analysis of mRNA in the 5' and 3' untranslated region.
Proceedings of the German Conference on Bioinformatics, 1997