2023
Sahar Iravani, Tim Conrad	An Interpretable Deep Learning Approach for Biomarker Detection in LC-MS Proteomics Data	IEEE/ACM Transactions on Computational Biology and Bioinformatics, 20(1), pp. 151-161, 2023	BibTeX DOI
Sydney Paltra, Tim Conrad	Effectiveness of Paxlovid - A Review	Frontiers in Public Health, 2023 (revision under review)	BibTeX DOI
Sebastian Müller, Sydney Paltra, Jakob Rehmann, Kai Nagel, Tim OF Conrad	Explicit modeling of antibody levels for infectious disease simulations in the context of SARS-CoV-2	iScience, 26(9), 2023	BibTeX DOI
Erhun Giray Tuncay, Rıza Cenk Erdur, Tim Conrad	Parallel Exchange of Randomized SubGraphs for Optimization of Network Alignment: PERSONA	IEEE/ACM Transactions on Computational Biology and Bioinformatics, 20(3), pp. 2064-2077, 2023	BibTeX DOI
Kateryna Melnyk, Kuba Weimann, Tim Conrad	Understanding microbiome dynamics via interpretable graph representation learning	Scientific Reports, Vol.13, p. 2058, 2023	BibTeX DOI
2022
Mona Rams, Tim Conrad	Dictionary learning allows model-free pseudotime estimation of transcriptomics data	BMC Genomics, Vol.23, 2022	BibTeX DOI
Patrick E Obermeier, Albert Heim, Barbara Biere, Elias Hage, Maren Alchikh, Tim Conrad, Brunhilde Schweiger, Barbara A Rath	Linking digital surveillance and in-depth virology to study clinical patterns of viral respiratory infections in vulnerable patient populations	iScience, 25(5), 2022	BibTeX DOI
2021
Nada Cvetkovic, Tim Conrad, Han Cheng Lie	A Convergent Discretisation Method for Transition Path Theory for Diffusion Processes	Multiscale Modeling & Simulation, 19(1), pp. 242-266, 2021	BibTeX DOI
Hanna Wulkow, Tim Conrad, Natasa Djurdjevac Conrad, Sebastian A. Müller, Kai Nagel, Christof Schütte	Prediction of Covid-19 spreading and optimal coordination of counter-measures: From microscopic to macroscopic models to Pareto fronts	PLOS One, 16(4), 2021	BibTeX DOI
K. Weimann, Tim Conrad	Transfer Learning for ECG Classification	Scientific Reports, Vol.11, 2021	BibTeX DOI
YongTian Liang, Chengji Piao, Christine B. Beuschel, David Toppe, Laxmikanth Kollipara, Boris Bogdanow, Marta Maglione, Janine Lützkendorf, Jason Chun Kit See, Sheng Huang, Tim Conrad, Ulrich Kintscher, Frank Madeo, Fan Liu, Albert Sickmann, Stephan J. Sigrist	eIF5A hypusination, boosted by dietary spermidine, protects from premature brain aging and mitochondrial dysfunction	Cell Reports, 35(2), 2021	BibTeX DOI
2020
Huy Le Duc, Tim Conrad	A light-weight and highly flexible software system for analyzing large bio-medical datasets	Future Generation Computer Systems, 2020 (under review)	BibTeX
Carmen Juds, Johannes Schmidt, Michael Weller, Thorid Lange, Tim Conrad, Hans Boerner	Combining Phage Display and Next-generation Sequencing for Materials Sciences: A Case Study on Probing Polypropylene Surfaces	Journal of the American Chemical Society, 142(24), pp. 10624-10628, 2020	BibTeX DOI
Mona Rams, Tim Conrad	Dictionary Learning for transcriptomics data reveals type-specific gene modules in a multi-class setting	it - Information Technology, 62(3-4), 2020	BibTeX DOI
Kateryna Melnyk, Grègoire Montavon, Stefan Klus, Tim Conrad	Graph Kernel Koopman Embedding for Human Microbiome Analysis	Applied Network Science, 5(96), 2020	BibTeX DOI
2019
Maren Alchikh, Tim Conrad, Xiaolin Ma, Eeva K. Broberg, P. Penttinen, J. Reiche, Barbara Biere, Brunhilde Schweiger, Barbara Rath, Christian Hoppe	Are we missing respiratory viral infections in infants and children? Comparison of a hospital-based quality management system with standard of care	Clinical Microbiology and Infection, 25(3), pp. 380.e9-380.e16, 2019	BibTeX DOI
Mona Prendke	Comparison of 2D and 3D CNNs for Classification of Knee MRI	Bachelor's thesis, Freie Universität Berlin, Alexander Tack, Felix Ambellan (Advisors), 2019	PDF BibTeX URN
Sahar Iravani, Tim Conrad	Deep Learning for Proteomics Data for Feature Selection and Classification	Machine Learning and Knowledge Extraction. CD-MAKE 2019, A. Holzinger, P. Kieseberg, A. Tjoa, E. Weippl (Eds.), Vol.11713, Lecture Notes in Computer Science, 2019	BibTeX DOI
Borong Shao, Maria Bjaanaes, Aslaug Helland, Christof Schütte, Tim Conrad	EMT network-based feature selection improves prognosis prediction in lung adenocarcinoma	PLOS ONE, 14(1), 2019	BibTeX DOI
Wei Zhang, Stefan Klus, Tim Conrad, Christof Schütte	Learning chemical reaction networks from trajectory data	SIAM Journal on Applied Dynamical Systems (SIADS), 18(4), pp. 2000-2046, 2019	BibTeX arXiv DOI
2018
Maren Alchikh, Tim Conrad, Christian Hoppe, Xiaolin Ma, Eeva K. Broberg, P. Penttinen, J. Reiche, Barbara Biere, Brunhilde Schweiger, Barbara Rath	Are we missing respiratory viral infections in infants and children? Comparison of a hospital-based quality management system with standard of care. Clinical Microbiology and Infection	Clinical Microbiology and Infection, pp. 1-1, 2018 (accepted for publication)	BibTeX DOI
F. Kork, Tim Conrad, B. Weiss, T. Roenneberg, K.-D. Wernecke, Felix Balzer	Associations of postoperative mortality with the time of day, week and year	Anaesthesia, 73(6), pp. 711-718, 2018	BibTeX
F. Kork, Claudia Spies, Tim Conrad, B. Weiss, T. Roenneberg, K.-D. Wernecke, Felix Balzer	Associations of postoperative mortality with the time of day, week and year	Anaesthesia, 2018 (accepted for publication)	BibTeX
Xiaolin Ma, Tim Conrad, Maren Alchikh, J. Reiche, Brunhilde Schweiger, Barbara Rath	Can we distinguish respiratory viral infections based on clinical features? A prospective pediatric cohort compared to systematic literature review	Medical Virology, 28(5), pp. 1-12, 2018 (accepted for publication)	BibTeX DOI
Patrick Obermeier, A. Heim, Barbara Biere, E. Hage, Maren Alchikh, Tim Conrad, Brunhilde Schweiger, Barbara Rath	Clinical characteristics and disease severity associated with adenovirus infections in infants and children - discovery of a novel adenovirus, HAdV-D80	Clinical Infectious Diseases, 2018 (under review)	BibTeX
Forough Marzban, Tim Conrad, Pouria Marban, Sahar Sodoudi	Estimation of the Near-Surface Air Temperature during the Day and Nighttime from MODIS in Berlin, Germany	International Journal of Advanced Remote Sensing and GIS, 7(1), pp. 2478-2517, 2018	BibTeX DOI
Victor Mireles, Tim Conrad	Reusable building blocks in biological systems	Journal of the Royal Society Interface, 15(149), pp. 1-10, 2018 (accepted for publication)	BibTeX DOI
2017
Fahrnaz Jayrannejad, Tim Conrad	Better Interpretable Models for Proteomics Data Analysis Using rule-based Mining	Springer Lecture Notes in Artificial Intelligence, 2017 (in press)	BibTeX
Fahrnaz Jayrannejad, Tim Conrad	Better Interpretable Models for Proteomics Data Analysis Using rule-based Mining	Springer Lecture Notes in Artificial Intelligence, p. studi, 2017 (accepted for publication)	BibTeX
L. Seeber, Tim Conrad, Christian Hoppe, Patrick Obermeier, X. Chen, K. Karsch, S. Muehlhans, Franziska Tief, Sindy Boettcher, S. Diedrich, Brunhilde Schweiger, Barbara Rath	Educating parents about the vaccination status of their children: A user-centered mobile application	Preventive Medicine Reports, Vol.5, pp. 241-250, 2017 (accepted for publication)	BibTeX DOI
Borong Shao, Carlo Vittorio Cannistraci, Tim Conrad	Epithelial Mesenchymal Transition Network-Based Feature Engineering in Lung Adenocarcinoma Prognosis Prediction Using Multiple Omic Data	Genomics and Computational Biology, 3(3), p. e57, 2017	BibTeX DOI
Shao Borong, Carlo Cannistraci, Tim Conrad	Epithelial Mesenchymal Transition Network-based Feature Engineering in Lung Adenocarcinoma Prognosis Prediction Using Multiple Omic Data	Genomics and Computational Biology, 3(3), pp. 1-13, 2017 (accepted for publication)	BibTeX DOI
Barbara Rath, Tim Conrad, Puja Myles, Maren Alchikh, Xiaolin Ma, Christian Hoppe, Franziska Tief, Xi Chen, Patrick Obermeier, Bron Kisler, Brunhilde Schweiger	Influenza and other respiratory viruses: standardizing disease severity in surveillance and clinical trials	Expert Review of Anti-infective Therapy, 15(6), pp. 545-568, 2017	BibTeX DOI
Tim Conrad, Martin Genzel, Nada Cvetkovic, Niklas Wulkow, Alexander Benedikt Leichtle, Jan Vybiral, Gitta Kytyniok, Christof Schütte	Sparse Proteomics Analysis – a compressed sensing-based approach for feature selection and classification of high-dimensional proteomics mass spectrometry data	BMC Bioinfomatics, 18(160), 2017	BibTeX DOI
Tim Conrad, Martin Genzel, Nada Cvetkovic, Niklas Wulkow, Jan Vybiral, Gitta Kutyniok, Christof Schütte	Sparse Proteomics Analysis – a compressed sensing-based approach for feature selection and classification of high-dimensional proteomics mass spectrometry data	BMC Bioinformatics, 18(160), pp. 1-20, 2017	BibTeX DOI
2016
Tim Conrad, Xintian You	Acfs: accurate circRNA identification and quantification from NGS data	Nature Scientific Reports, Vol.6, 2016	BibTeX DOI
Franziska Tief, Christian Hoppe, L. Seeber, Patrick Obermeier, X. Chen, K. Karsch, S. Muehlhans, E. Adamou, Tim Conrad, Brunhilde Schweiger, T. Adam, Barbara Rath	An inception cohort study assessing the role of bacterial co-infections in children with influenza and ILI and a clinical decision model for stringent antibiotic use	Antiviral Therapy, Vol.21, pp. 413-424, 2016	BibTeX DOI
Victor Mireles, Tim Conrad	Decomposing biological systems into reusable modules reveals characteristic module size distributions	2016 (under review)	BibTeX
Patrick Obermeier, S. Muehlhans, Christian Hoppe, K. Karsch, Franziska Tief, L. Seeber, X. Chen, Tim Conrad, Sindy Boettcher, S. Diedrich, Barbara Rath	Enabling Precision Medicine With Digital Case Classification at the Point-of-Care	EBioMedicine, Vol.4, pp. 191-196, 2016	BibTeX DOI
Borong Shao, Tim Conrad	Epithelial Mesenchymal Transition Regulatory Network-based Feature Selection in Lung Cancer Prognosis Prediction	Lecture Notes in Computer Science (LNCS), pp. 1235-146, Vol.9656, 2016	BibTeX DOI
Iliusi Vega, Christof Schütte, Tim Conrad	Finding metastable states in real-world time series with recurrence networks	Physica A: Statistical Mechanics and its Applications, Vol.445, pp. 1-17, 2016	BibTeX DOI
Christian Hoppe, Patrick Obermeier, S. Mehlhans, Maren Alchikh, L. Seeber, Franziska Tief, K. Karsch, X. Chen, Sindy Boettcher, S. Diedrich, Tim Conrad	Innovative Digital Tools and Surveillance Systems for the Timely Detection of Adverse Events at the Point of Care: A Proof-of-Concept Study	Drug Safety, 39(10), pp. 977-988, 2016	BibTeX DOI
2015
Tim Conrad, Leonie Wallmeyer, Mona Rams, Stefan Börno, Bernd Timmermann, Sarah Hedtrich	Analyzing the Influence of Filaggrin on Other Skin Associated Genes in a Filaggrin Deficient Skin Model Using the Core Network Approach	Technical Report, 2015	BibTeX
Tim Conrad, Borong Shao	Are NoSQL data stores useful for bioinformatics researchers?	International Journal on Recent and Innovation Trends in Computing and Communication (IJRITCC), 3(3), pp. 1704-1708, 2015	BibTeX DOI
Tim Conrad, K. Karsch, Patrick Obermeier, L. Seeber, X. Chen, Franziska Tief, S. Muehlhans, Christian Hoppe, Sindy Boettcher, S. Diedrich, Barbara Rath	Human Parechovirus Infections Associated with Seizures and Rash: A Syndromic Surveillance Study in Children	The Pediatric Infectious Disease Journal, 34(10), 2015	BibTeX
Tim Conrad, Victor Mireles	Minimum-overlap clusterings and the sparsity of overcomplete decompositions of binary matrics	Procedia Computer Science, Vol.51, pp. 2967-2971, 2015	BibTeX DOI
Tim Conrad, Matthias Lenga	Non-convex regularization for supervised learning	Technical Report, 2015	PDF BibTeX
2014
Marco Sarich, Natasa Djurdjevac Conrad, Sharon Bruckner, Tim Conrad, Christof Schütte	Modularity revisited: A novel dynamics-based concept for decomposing complex networks	Journal of Computational Dynamics, 1(1), pp. 191-212, 2014	PDF BibTeX DOI
Iliusi Vega, Christof Schütte, Tim Conrad	SAIMeR: Self-adapted method for the identification of metastable states in real-world time series	ZIB-Report 14-16	PDF BibTeX URN
Christof Schütte, Tim Conrad	Showcase 3: Information-based medicine	MATHEON-Mathematics for Key Technologies, Vol.1, pp. 66-67, Peter Deuflhard, Martin Grötschel, Dietmar Hömberg, Ulrich Horst, Jürg Kramer, Volker Mehrmann, Konrad Polthier, Frank Schmidt, Martin Skutella, Jürgen Sprekels (Eds.), European Mathematical Society, 2014	BibTeX
2013
Pooja Gupta, Norbert Reinsch, Andreas Spötter, Tim Conrad, Kaspar Bienefeld	Accuracy of the unified approach in maternally influenced traits - illustrated by a simulation study in the honey bee (Apis mellifera)	BMC Genetics, 14(36), 2013	BibTeX DOI
Tim Conrad, Sharon Bruckner, Bastian Kayser	Finding Modules in Networks with Non-modular Regions	Lecture Notes in Computer Science (Proceedings of SEA 2013), Vol.7933, pp. 188-199, 2013	BibTeX DOI
Tim Conrad, Alexander Benedikt Leichtle, Uta Ceglarek, P. Weinert, C.T. Nakas, Jean-Marc Nuoffer, Julia Kase, Helmut Witzigmann, Joachim Thiery, Georg Martin Fiedler	Pancreatic carcinoma, pancreatitis, and healthy controls - metabolite models in a three-class diagnostic dilemma	Metabolomics, 9(3), pp. 677-687, 2013	BibTeX DOI
Tim Conrad, Barbara Rath, Franziska Tief, K. Karsch, S. Muehlhans, Patrick Obermeier, E. Adamou, X. Chen, L. Seeber, Ch. Peiser, Christian Hoppe, Max von Kleist, Brunhilde Schweiger	Towards a personalized approach to managing of influenza infections in infants and children - food for thought and a note on oseltamivir	Infectious Disorders - Drug Targets, 13(1), pp. 25-33, 2013	BibTeX
2012
Natasa Djurdjevac Conrad, Stefanie Bruckner, Tim Conrad, Christof Schütte	Random Walks on Complex Modular Networks	Journal of Numerical Analysis, Industrial and Applied Mathematics, 6(1-2), pp. 29-50, 2012	BibTeX
Tim Conrad, Alexander Benedikt Leichtle, Jean-Marc Nuoffer, Uta Ceglarek, Julia Kase, Helmut Witzigmann, Joachim Thiery, Georg Martin Fiedler	Serum amino acid profiles and their alterations in colorectal cancer	Metabolomics, 2012	BibTeX DOI
Pooja Gupta, Tim Conrad, Andreas Spötter, Norbert Reinsch, Kaspar Bienefeld	Simulating a base population in honey bee for molecular genetic studies	Genetics Selection Evolution, 2012	BibTeX DOI
2004
Tim Conrad	Metabolic Pathways	Doctoral thesis, Monash University Melbourne, unknown (Advisor), 2004	BibTeX
Tim Conrad	New Appraches for Visualizing and Analyzing Metabolic Pathways	Proceedings of the Second Australian Undergraduate Students? Computing Conference, 2004	BibTeX