@article{LiThielemannReuningetal.2005, author = {Li, Jing and Thielemann, Christiane and Reuning, Ute and Johannsmann, Diethelm}, title = {Monitoring of Integrin-Mediated Adhesion of Human Ovarian Cancer Cells to Model Protein surfaces by Quartz crystal Resonators: Evaluation in the Impedance Analysis Mode}, series = {Biosensors and Bioelectronics}, volume = {20}, journal = {Biosensors and Bioelectronics}, doi = {10.1016/j.bios.2004.05.004}, pages = {1333 -- 1334}, year = {2005}, subject = {Adh{\"a}sion}, language = {en} } @inproceedings{GoldhammerDausThielemannetal.2009, author = {Goldhammer, Michael and Daus, Andreas and Thielemann, Christiane and Bochtler, Ulrich}, title = {Flexible measurement setup for electromagnetic exposition of biological samples}, series = {BioEM 2009, Davos, Switzerland}, booktitle = {BioEM 2009, Davos, Switzerland}, year = {2009}, subject = {Elektromagnetische Strahlung}, language = {en} } @article{DausLayerThielemann2012, author = {Daus, Andreas and Layer, Paul and Thielemann, Christiane}, title = {A spheroid-based biosensor for the label-free detection of drug-induced field potential alterations}, series = {Sensors and actuators B: Chemical}, volume = {165}, journal = {Sensors and actuators B: Chemical}, number = {1}, doi = {10.1016/j.snb.2012.02.011}, pages = {53 -- 58}, year = {2012}, subject = {Biosensor}, language = {en} } @article{JungblutKnollThielemannetal.2009, author = {Jungblut, Melanie and Knoll, Wolfgang and Thielemann, Christiane and Pottek, Mark}, title = {Triangular neuronal networks on microelectrode arrays: an approach to improve the properties of low-density networks for extracellular recording}, series = {Biomed Microdevices, 2009}, volume = {11}, journal = {Biomed Microdevices, 2009}, number = {6}, pages = {1269 -- 1278}, year = {2009}, subject = {Mikroelektrode}, language = {en} } @inproceedings{DausGoldhammerBochtleretal.2009, author = {Daus, Andreas and Goldhammer, Michael and Bochtler, Ulrich and Thielemann, Christiane}, title = {Electromagnetic exposition of neuronal networks in vitro}, series = {Radiofrequency fields and health}, booktitle = {Radiofrequency fields and health}, organization = {Forschungsgemeinschaft Funk, Stuttgart}, year = {2009}, subject = {Neuronales Netz}, language = {en} } @article{PaxRiegerThielemannetal.2005, author = {Pax, Markus and Rieger, Janosch and Thielemann, Christiane and Johannsmann, Diethelm}, title = {Cell-Based Biosensors for Drug Screening: Detection of the Beating Rate of Cardiac Myocytes with a Quartz crystal Resonator}, series = {Analyst}, volume = {130}, journal = {Analyst}, pages = {1451 -- 1458}, year = {2005}, subject = {Biosensor}, language = {en} } @article{PottekSoerensenKnolletal.2006, author = {Pottek, Mark and Soerensen, Soren and Knoll, Wolfgang and Howitz, Steffen and Thielemann, Christiane}, title = {Cell-based Microfluidic System for Drug Screening Applications}, series = {MST news, 2006}, journal = {MST news, 2006}, number = {1}, pages = {38 -- 39}, year = {2006}, subject = {Mikrofluidik}, language = {en} } @inproceedings{DausHasenkopfThielemann2009, author = {Daus, Andreas and Hasenkopf, Matthias and Thielemann, Christiane}, title = {Novel 3D cell culture systems for electromagnetic exposure studies}, series = {BioEM 2009, Davos, Switzerland}, booktitle = {BioEM 2009, Davos, Switzerland}, year = {2009}, subject = {Zellkultur}, language = {en} } @inproceedings{StegerFriessDausetal.2012, author = {Steger, Frederik and Frieß, Johannes and Daus, Andreas and Ritter, Sylvia and Thielemann, Christiane}, title = {Analysis of electrophysiological characteristics of cardiomyocytes following radiation exposure}, series = {8th International Meeting on Substrate-Integrated Microelectrode Arrays}, booktitle = {8th International Meeting on Substrate-Integrated Microelectrode Arrays}, issn = {2194-5519}, doi = {10.13140/RG.2.1.4153.0400}, pages = {153}, year = {2012}, subject = {Herzmuskelzelle}, language = {en} } @inproceedings{NickJoshiSchlaaketal.2011, author = {Nick, Christoph and Joshi, Ravi and Schlaak, Helmut and Schneider, J{\"o}rg and Thielemann, Christiane}, title = {Multi electrode array with carbon nanotube electrodes for the extra-cellular detection of action potentials}, series = {MikroSystemTechnik Kongress 2011, Darmstadt}, booktitle = {MikroSystemTechnik Kongress 2011, Darmstadt}, year = {2011}, subject = {Mehrfachelektrode}, language = {en} } @inproceedings{DausGoldhammerThielemann2010, author = {Daus, Andreas and Goldhammer, Michael and Thielemann, Christiane}, title = {Using three-dimensional cell culture systems on Microelectrode arrays for biosensing applications}, series = {7th international Meeting on subtrate-intergrated microelectrode arrays, Reutlingen}, booktitle = {7th international Meeting on subtrate-intergrated microelectrode arrays, Reutlingen}, isbn = {978-3-938345-08-5}, pages = {314 -- 315}, year = {2010}, subject = {Array}, language = {en} } @article{DausGoldhammerLayeretal.2011, author = {Daus, Andreas and Goldhammer, Michael and Layer, Paul and Thielemann, Christiane}, title = {Electromagnetic exposure of scaffold-free three-dimensional cell culture systems}, series = {Bioelectromagnetics}, volume = {32}, journal = {Bioelectromagnetics}, number = {5}, issn = {1521-186X}, doi = {10.1002/bem.20649}, pages = {351 -- 359}, year = {2011}, subject = {Zellkultur}, language = {en} } @inproceedings{ThielemannRitterLayeretal.2011, author = {Thielemann, Christiane and Ritter, Sylvia and Layer, Paul and Frieß, Johannes and Daus, Andreas and Steger, Frederik and Heselich, Anja}, title = {Cellular effects of space radiation with relevance to cardiovascular diseases}, series = {Life in Space for Life on Earth}, booktitle = {Life in Space for Life on Earth}, pages = {560}, year = {2011}, subject = {Kardiovaskul{\"a}re Krankheit}, language = {en} } @inproceedings{DausBestelThielemann2011, author = {Daus, Andreas and Bestel, Robert and Thielemann, Christiane}, title = {Spike Detection, Refinement And Interpretation Of Recordings In Three-Dimensional In Vitro Systems}, series = {World Congress of Regenerative Medicine \& Stem Cells 2011, Beijing, China}, booktitle = {World Congress of Regenerative Medicine \& Stem Cells 2011, Beijing, China}, year = {2011}, subject = {Neuronales Netz}, language = {en} } @inproceedings{DausGoldhammerBochtleretal.2010, author = {Daus, Andreas and Goldhammer, Michael and Bochtler, Ulrich and Thielemann, Christiane}, title = {A new approach for the investigation of long-term effects of RF radiation on cells}, series = {28th Progress In Electromagnetics Research Symposium 2010, Cambridge}, booktitle = {28th Progress In Electromagnetics Research Symposium 2010, Cambridge}, year = {2010}, subject = {Hochfrequenz}, language = {en} } @article{DausThielemann2010, author = {Daus, Andreas and Thielemann, Christiane}, title = {Spheroids on microelectrode arrays: A highly sensitive system for biosensing applications}, series = {European Journal of cell biology}, journal = {European Journal of cell biology}, number = {89 Sonderheft 1}, pages = {67 -- 68}, year = {2010}, subject = {Array}, language = {en} } @inproceedings{DausBestelThielemann2014, author = {Daus, Andreas and Bestel, Robert and Thielemann, Christiane}, title = {A multivariate spike-detection algorithm to assess activity patterns of three-dimensional in vitro models}, series = {MEA Meeting 2014, Reutlingen, Germany}, volume = {2014}, booktitle = {MEA Meeting 2014, Reutlingen, Germany}, issn = {2199-1596}, pages = {194 -- 195}, year = {2014}, subject = {Mikroelektrode}, language = {en} } @techreport{HelmFrankFriessetal.2013, author = {Helm, Alexander and Frank, Simon and Frieß, Johannes and Thielemann, Christiane and Durante, Marco and Ritter, Sylvia}, title = {Purified cultures of mouse embryonic stem cell-derived cardiomyocytes of electrophysiological studies with ionizing radiation}, organization = {GSI Helmholtzzentrum f{\"u}r Schwerionenforschung}, year = {2013}, subject = {Herzmuskelzelle}, language = {en} } @article{FriessHeselichRitteretal.2015, author = {Frieß, Johannes and Heselich, Anja and Ritter, Sylvia and Haber, Angelina and Kaiser, Nicole and Layer, Paul and Thielemann, Christiane}, title = {Electrophysiologic and cellular characteristics of cardiomyocytes after X-ray irradiation}, series = {Mutation Research/Fundamental and Molecular Mechanisms of Mutagenesis}, volume = {2015}, journal = {Mutation Research/Fundamental and Molecular Mechanisms of Mutagenesis}, number = {777}, pages = {1 -- 10}, year = {2015}, subject = {Herzmuskelzelle}, language = {en} } @inproceedings{NickQuednauSarwaretal.2013, author = {Nick, Christoph and Quednau, Sebastian and Sarwar, Reza and Thielemann, Christiane and Schlaak, Helmut}, title = {Fabrication of high aspect ratio gold nanopillars on microelectrodes for the interface with electrogenic cells}, series = {HARMNST - 10th international workshop on high aspect ratio micro and nano system technologies, Berlin}, booktitle = {HARMNST - 10th international workshop on high aspect ratio micro and nano system technologies, Berlin}, pages = {212 -- 213}, year = {2013}, subject = {Mikroelektrode}, language = {de} } @article{NickYadavJoshietal.2014, author = {Nick, Christoph and Yadav, Sandeep and Joshi, Ravi and Schneider, J{\"o}rg and Thielemann, Christiane}, title = {Growth of Cortical Neurons Grown on Randomly Oriented and Vertically Aligned Dense Carbon Nanotube Networks}, series = {Beilstein Journal of Nanotechnology}, volume = {5}, journal = {Beilstein Journal of Nanotechnology}, pages = {1575 -- 1579}, year = {2014}, subject = {Nervenzelle}, language = {en} } @inproceedings{KoerbitzerKraussNicketal.2015, author = {K{\"o}rbitzer, Berit Silke and Krauß, Peter and Nick, Christoph and Schneider, J{\"o}rg and Thielemann, Christiane}, title = {Graphene electrodes for recording and stimulation of neural cells}, series = {ICREA Workshop on Graphene Nanobiosensors}, booktitle = {ICREA Workshop on Graphene Nanobiosensors}, address = {Barcelona, Spanien}, year = {2015}, subject = {Nervenzelle}, language = {en} } @techreport{FriessHeselichRitteretal.2013, author = {Frieß, Johannes and Heselich, Anja and Ritter, Sylvia and Layer, Paul and Thielemann, Christiane}, title = {Effect of X-rays and titanium ions on cardiomyocyte cultures}, organization = {GSI Helmholtzzentrum f{\"u}r Schwerionenforschung}, year = {2013}, subject = {Herzmuskelzelle}, language = {en} } @techreport{MayerRitterThielemann2013, author = {Mayer, Margot and Ritter, Sylvia and Thielemann, Christiane}, title = {Electrophysiological Effects of Ionising Radiation on Cortical Rat Neurons in vitro}, organization = {GSI Helmholtzzentrum f{\"u}r Schwerionenforschung}, year = {2013}, subject = {Nervenzelle}, language = {en} } @inproceedings{NickLippertQuednauetal.2014, author = {Nick, Christoph and Lippert, Paul and Quednau, Sebastian and Schlaak, Helmut and Thielemann, Christiane}, title = {Gold Nanopillar Microelectrodes on Low Temperature Curing Polyimide for the Interface with Electrogenic Cells}, series = {Middle East Conference on Biomedical Engineering}, volume = {2014}, booktitle = {Middle East Conference on Biomedical Engineering}, address = {Doha, Qatar}, isbn = {978-1-4799-4799-7}, pages = {55 -- 58}, year = {2014}, subject = {Mikroelektrode}, language = {en} } @inproceedings{NickQuednauSarwaretal.2013, author = {Nick, Christoph and Quednau, Sebastian and Sarwar, Reza and Thielemann, Christiane and Schlaak, Helmut}, title = {Gold-Nanodr{\"a}hte auf Mikroelektroden zur extrazellul{\"a}ren Ableitung elektrogener Zellen}, series = {Mikrosystemtechnik Kongress}, booktitle = {Mikrosystemtechnik Kongress}, publisher = {VDE Verlag}, address = {Aachen, Deutschland}, year = {2013}, subject = {Mikroelektrode}, language = {de} } @inproceedings{EmmerichThielemann2014, author = {Emmerich, Florian and Thielemann, Christiane}, title = {Direct Visualisation of Stored Charges in PECVD ONO-Layers by Kelvin-Probe-Force-Microscopy}, series = {15th International Symposium on Electrets ISE}, volume = {2014}, booktitle = {15th International Symposium on Electrets ISE}, address = {Baltimore, USA}, year = {2014}, subject = {Kelvin-Sonde}, language = {en} } @techreport{FriessHeselichRitteretal.2012, author = {Frieß, Johannes and Heselich, Anja and Ritter, Sylvia and Daus, Andreas and Layer, Paul and Thielemann, Christiane}, title = {Electrophysiological Effects of Heavy Ion Irradiation on Cardiomyocytes}, organization = {GSI Helmholtzzentrum f{\"u}r Schwerionenforschung}, year = {2012}, subject = {Herzmuskelzelle}, language = {en} } @inproceedings{SternNickThielemann2014, author = {Stern, Maike and Nick, Christoph and Thielemann, Christiane}, title = {A Novel LabVIEW based Multi-Channel Closed-Loop Stimulator}, series = {9th International Meeting on Substrate-Integrated Micro-electrode Arrays}, volume = {2014}, booktitle = {9th International Meeting on Substrate-Integrated Micro-electrode Arrays}, address = {Reutlingen, Germany}, year = {2014}, subject = {LabVIEW}, language = {en} } @inproceedings{NickSchlaakThielemann2014, author = {Nick, Christoph and Schlaak, Helmut and Thielemann, Christiane}, title = {PEDOT:PSS coated Gold Nanopillar Micro-electrodes for Neural Interfaces}, series = {4th International Conference on Manipulation, Manufacturing and Measurement on the Nanoscale}, volume = {2014}, booktitle = {4th International Conference on Manipulation, Manufacturing and Measurement on the Nanoscale}, address = {Taipeh, Taiwan}, year = {2014}, subject = {Mikroelektrode}, language = {en} } @inproceedings{FriessHeselichRitteretal.2013, author = {Frieß, Johannes and Heselich, Anja and Ritter, Sylvia and Thielemann, Christiane}, title = {Electrophysiological characteristics of cardiomyocytes after heavy ion exposure}, series = {Jahrestagung der Gesellschaft f{\"u}r biologische Strahlenforschung}, booktitle = {Jahrestagung der Gesellschaft f{\"u}r biologische Strahlenforschung}, address = {Darmstadt, Deutschland}, year = {2013}, subject = {Herzmuskelzelle}, language = {de} } @article{NickThielemann2014, author = {Nick, Christoph and Thielemann, Christiane}, title = {Are Carbon Nanotube Microelectrodes Manufactured from Dispersion Stable Enough for Neural Interfaces?}, series = {BioNanoScience}, volume = {2014}, journal = {BioNanoScience}, number = {4 / 3}, pages = {216 -- 225}, year = {2014}, subject = {Mikroelektrode}, language = {en} } @inproceedings{KoerbitzerKraussSchneideretal.2016, author = {K{\"o}rbitzer, Berit Silke and Krauß, Peter and Schneider, J{\"o}rg and Thielemann, Christiane}, title = {Characterization Of Graphene-Coated Microelectrode Arrays For Recording And Stimulation Of Neuronal Cells}, series = {Frontiers}, volume = {2016}, booktitle = {Frontiers}, number = {MEA Meeting 2016}, doi = {10.3389/conf.fnins.2016.93.00013}, year = {2016}, subject = {Mikroelektrode}, language = {en} } @inproceedings{ThielemannRitterLayeretal.2012, author = {Thielemann, Christiane and Ritter, Sylvia and Layer, Paul and Frieß, Johannes and Daus, Andreas and Steger, Frederik and Heselich, Anja}, title = {IBER10 - Cellular effects of space radiation with relevance to cardiovascular diseases}, series = {European Space Agency - Life in Space for Life on Earth}, booktitle = {European Space Agency - Life in Space for Life on Earth}, address = {Aberdeen, Schottland, UK}, year = {2012}, subject = {Kosmische Strahlung}, language = {en} } @inproceedings{CibaBahmerThielemann2017, author = {Ciba, Manuel and Bahmer, Andreas and Thielemann, Christiane}, title = {Application of spike train synchrony measure Spike‑contrast to quantify the effect of bicuculline on cortical networks grown on microelectrode arrays}, series = {BMC Neuroscience}, volume = {2017}, booktitle = {BMC Neuroscience}, number = {18}, doi = {10.1186/s12868-017-0372-1}, pages = {269}, year = {2017}, subject = {Mikroelektrode}, language = {en} } @techreport{StegerRitterDausetal.2011, author = {Steger, Frederik and Ritter, Sylvia and Daus, Andreas and Frieß, Johannes and Thielemann, Christiane}, title = {Analysis of electrophysiological characteristics of cardiomyocytes following radiation exposure}, organization = {GSI Helmholtzzentrum f{\"u}r Schwerionenforschung}, year = {2011}, subject = {Herzmuskelzelle}, language = {en} } @inproceedings{NickHeinleinSchneideretal.2012, author = {Nick, Christoph and Heinlein, Thorsten and Schneider, J{\"o}rg and Thielemann, Christiane}, title = {3D Carbon Nanotube Electrodes for Sensing of Neural Activity}, series = {Elsevier World Congress on Biosensors}, booktitle = {Elsevier World Congress on Biosensors}, address = {Cancun, Mexiko}, year = {2012}, subject = {Kohlenstoff-Nanor{\"o}hre}, language = {en} } @inproceedings{KoehlerWoelfelBochtleretal.2016, author = {K{\"o}hler, Tim and W{\"o}lfel, Maximilian and Bochtler, Ulrich and Thielemann, Christiane}, title = {TETRA specific long-term exposure of neuronal in vitro networks}, series = {BioEM2016}, booktitle = {BioEM2016}, year = {2016}, subject = {Neuronales Netz}, language = {en} } @article{ThielemannKrstićJuettneretal.2023, author = {Thielemann, Christiane and Krstić, Nenad and J{\"u}ttner, Jens and Giegerich, Lars and Mayer, Margot and Knuth, Monika and M{\"u}ller, Achim}, title = {3D printed biosensor for continuous glucose measurement in cell cultures}, series = {Annals of 3D Printed Medicine}, volume = {2023}, journal = {Annals of 3D Printed Medicine}, number = {-}, doi = {https://doi.org/10.1016/j.stlm.2023.100111}, pages = {- -- -}, year = {2023}, abstract = {A novel 3D-printed glucose sensor is presented for cell culture application. Glucose sensing was performed using a fluorescence resonance energy transfer (FRET)-based assay principle based on ConA and dextran. Both molecules are encapsulated in alginate microspheres and embedded in the UV-curable, stable hydrogel polyvinyl alcohol (PVA). The rheology of the formulation was adapted to obtain good properties for an extrusion-based printing process. The printed sensor structures were tested for their ability to detect glucose in vitro. A proportional increase in fluorescence intensity was observed in a concentration range of 0 - 2 g/L glucose. Tests with HEK cell cultures also showed good cell compatibility and excellent adhesion properties on plasma-treated Petri dishes. The printed sensors were able to detect the glucose decay associated with the metabolic activities of the fast-growing HEK cells in the cell culture medium over ten days. The proof-of-principle study shows that metabolic processes in cell cultures can be monitored with the new printed sensor using a standard fluorescence wide-field microscope.}, subject = {Biosensor}, language = {en} } @techreport{HelmFrankFriessetal.2014, author = {Helm, Alexander and Frank, Simon and Frieß, Johannes and Thielemann, Christiane and Durante, Marco and Ritter, Sylvia}, title = {Electrophysiological response of mouse embryonic stem cell-derived cardiomyocytes after X-ray and C-ion exposure}, series = {GSI SCIENTIFIC REPORT 2014}, journal = {GSI SCIENTIFIC REPORT 2014}, doi = {10.15120/GR-2015-1-APPA-HEALTH-21}, year = {2014}, subject = {Embryonale Stammzelle}, language = {en} } @techreport{FriessHeselichRitteretal.2014, author = {Frieß, Johannes and Heselich, Anja and Ritter, Sylvia and Layer, Paul and Thielemann, Christiane}, title = {Combined effects of ionizing radiation and cardio-active drugs on human iPSC-derived cardiomyocytes}, series = {GSI SCIENTIFIC REPORT 2014}, journal = {GSI SCIENTIFIC REPORT 2014}, doi = {10.15120/GR-2015-1-APPA-HEALTH-37}, year = {2014}, subject = {Herzmuskelzelle}, language = {en} } @techreport{MayerArrizabalagaRitteretal.2015, author = {Mayer, Margot and Arrizabalaga, Onetsine and Ritter, Sylvia and Thielemann, Christiane}, title = {Human embryonic stem cell derived neurospheres form functional networks on microelectrode arrays}, series = {GSI Scientific Report 2015}, volume = {2015}, journal = {GSI Scientific Report 2015}, number = {GSI Report 2016-1}, doi = {10.15120/GR-2016-1}, pages = {205 -- 205}, year = {2015}, subject = {Embryonale Stammzelle}, language = {en} } @article{CibaPetzoldAlvesetal.2025, author = {Ciba, Manuel and Petzold, Marc and Alves, Caroline L. and Rodrigues, Francisco A. and Jimbo, Yasuhiko and Thielemann, Christiane}, title = {Machine learning and complex network analysis of drug effects on neuronal microelectrode biosensor data}, series = {Scientific Reports}, volume = {15}, journal = {Scientific Reports}, number = {1}, publisher = {Springer Science and Business Media LLC}, issn = {2045-2322}, doi = {https://doi.org/10.1038/s41598-025-99479-7}, year = {2025}, abstract = {Biosensors, such as microelectrode arrays that record in vitro neuronal activity, provide powerful platforms for studying neuroactive substances. This study presents a machine learning workflow to analyze drug-induced changes in neuronal biosensor data using complex network measures from graph theory. Microelectrode array recordings of neuronal networks exposed to bicuculline, a GABA \$\$_A\$\$ receptor antagonist known to induce hypersynchrony, demonstrated the workflow's ability to detect and characterize pharmacological effects. The workflow integrates network-based features with synchrony, optimizing preprocessing parameters, including spike train bin sizes, segmentation window sizes, and correlation methods. It achieved high classification accuracy (AUC up to 90\%) and used Shapley Additive Explanations to interpret feature importance rankings. Significant reductions in network complexity and segregation, hallmarks of epileptiform activity induced by bicuculline, were revealed. While bicuculline's effects are well established, this framework is designed to be broadly applicable for detecting both strong and subtle network alterations induced by neuroactive compounds. The results demonstrate the potential of this methodology for advancing biosensor applications in neuropharmacology and drug discovery.}, subject = {Maschinelles Lernen}, language = {en} } @article{SallumAlvesdeOToutainetal.2025, author = {Sallum, Loriz Francisco and Alves, Caroline L. and de O Toutain, Thaise Graziele L and Porto, Joel Augusto Moura and Thielemann, Christiane and Rodrigues, Francisco A.}, title = {Revealing patterns in major depressive disorder with machine learning and networks}, series = {Chaos, Solitons \& Fractals}, volume = {194}, journal = {Chaos, Solitons \& Fractals}, publisher = {Elsevier BV}, issn = {0960-0779}, doi = {https://doi.org/10.1016/j.chaos.2025.116163}, year = {2025}, abstract = {Major depressive disorder (MDD) is a multifaceted condition that affects millions of people worldwide and is a leading cause of disability. There is an urgent need for an automated and objective method to detect MDD due to the limitations of traditional diagnostic approaches. In this paper, we propose a methodology based on machine and deep learning to classify patients with MDD and identify altered functional connectivity patterns from EEG data. We compare several connectivity metrics and machine learning algorithms. Complex network measures are used to identify structural brain abnormalities in MDD. Using Spearman correlation for network construction and the SVM classifier, we verify that it is possible to identify MDD patients with high accuracy, exceeding literature results. The SHAP (SHAPley Additive Explanations) summary plot highlights the importance of C4-F8 connections and also reveals dysfunction in certain brain areas and hyperconnectivity in others. Despite the lower performance of the complex network measures for the classification problem, assortativity was found to be a promising biomarker. Our findings suggest that understanding and diagnosing MDD may be aided by the use of machine learning methods and complex networks.}, subject = {Depression}, language = {en} } @article{AlvesCibadeOToutainetal.2024, author = {Alves, Caroline L. and Ciba, Manuel and de O Toutain, Thaise Graziele L and Moura Porto, Joel Augusto and de Sena, Eduardo Pond{\´e} and Thielemann, Christiane and Rodrigues, Francisco A.}, title = {On the advances in machine learning and complex network measures to an EEG dataset from DMT experiments}, series = {Journal of Physics: Complexity}, volume = {2024}, journal = {Journal of Physics: Complexity}, number = {1}, doi = {10.1088/2632-072X/ad1c68}, pages = {1 -- 2}, year = {2024}, abstract = {There is a growing interest in the medical use of psychedelic substances, as preliminary studies using them for psychiatric disorders have shown positive results. In particular, one of these substances is N, N-dimethyltryptamine (DMT), an agonist serotonergic psychedelic that can induce profound alterations in the state of consciousness. In this work, we use an exploratory tool to reveal DMT-induced changes in brain activity using EEG data and provide new insights into the mechanisms of action of this psychedelic substance. We used a two-class classification based on (A) the connectivity matrix or (B) complex network measures derived from it as input to a support vector machine. We found that both approaches could detect changes in the brain's automatic activity, with case (B) showing the highest AUC (89\%), indicating that complex network measurements best capture the brain changes that occur due to DMT use. In the second step, we ranked the features that contributed the most to this result. For case (A), we found that differences in the high alpha, low beta, and delta frequency bands were most important in distinguishing between the state before and after DMT inhalation, which is consistent with the results described in the literature. Further, the connection between the temporal (TP8) and central cortex (C3) and between the precentral gyrus (FC5) and the lateral occipital cortex (P8) contributed most to the classification result. The connection between regions TP8 and C3 has been found in the literature associated with finger movements that might have occurred during DMT consumption. However, the connection between cortical areas FC5 and P8 has not been found in the literature and is presumably related to the volunteers' emotional, visual, sensory, perceptual, and mystical experiences during DMT consumption. For case (B), closeness centrality was the most crucial complex network measure. Furthermore, we discovered larger communities and longer average path lengths when DMT was used and the converse when not, showing that the balance between functional segregation and integration had been disrupted. These findings support the idea that cortical brain activity becomes more entropic under psychedelics. Overall, a robust computational workflow has been developed here with interpretability of how DMT (or other psychedelics) modify brain networks and insights into their mechanism of action. Finally, the same methodology applied here may help interpret EEG time series from patients who consumed other psychedelic drugs.}, subject = {Neuronales Netz}, language = {en} } @article{AlvesRodriguesSallumetal.2024, author = {Alves, Caroline L. and Rodrigues, Francisco A. and Sallum, Loriz Francisco and Toutain, Thaise and Porto, Joel and Aguiar, Patricia and Thielemann, Christiane and M{\"o}ckel, Michael}, title = {Multiclass classification of Autism Spectrum Disorder, attention deficit hyperactivity disorder, and typically developed individuals using fMRI functional connectivity analysis}, series = {plos one}, volume = {2024}, journal = {plos one}, number = {19(10)}, doi = {https://doi.org/10.1371/journal.pone.0305630}, pages = {1 -- 35}, year = {2024}, abstract = {Neurodevelopmental conditions, such as Autism Spectrum Disorder (ASD) and Attention Deficit Hyperactivity Disorder (ADHD), present unique challenges due to overlapping symptoms, making an accurate diagnosis and targeted intervention difficult. Our study employs advanced machine learning techniques to analyze functional magnetic resonance imaging (fMRI) data from individuals with ASD, ADHD, and typically developed (TD) controls, totaling 120 subjects in the study. Leveraging multiclass classification (ML) algorithms, we achieve superior accuracy in distinguishing between ASD, ADHD, and TD groups, surpassing existing benchmarks with an area under the ROC curve near 98\%. Our analysis reveals distinct neural signatures associated with ASD and ADHD: individuals with ADHD exhibit altered connectivity patterns of regions involved in attention and impulse control, whereas those with ASD show disruptions in brain regions critical for social and cognitive functions. The observed connectivity patterns, on which the ML c}, subject = {Aufmerksamkeitsdefizit-Syndrom}, language = {en} } @unpublished{SchickelBenderKaysanetal.2025, author = {Schickel, Esther and Bender, Tamara and Kaysan, Leon and Hufgard, Simone and Mayer, Margot and Grosshans, David R. and Thielemann, Christiane and Schroeder, Insa S.}, title = {Human cerebral organoids model tumor infiltration and migration supported by astrocytes in an autologous setting}, series = {bioRxiv}, volume = {2025}, journal = {bioRxiv}, publisher = {Cold Spring Harbor Laboratory}, doi = {https://doi.org/10.1101/2025.01.29.635456}, pages = {43}, year = {2025}, abstract = {SummaryEfforts to achieve precise and efficient tumor targeting of highly malignant brain tumors are constrained by the dearth of appropriate models to study the effects and potential side effects of radiation, chemotherapy, and immunotherapy on the most complex human organ, the brain. We established a cerebral organoid model of brain tumorigenesis in an autologous setting by overexpressing c-MYC as one of the most common oncogenes in brain tumors. GFP+/c-MYChighcells were isolated from tumor organoids and used in two different culture approaches: assembloids comprising of a normal cerebral organoid with a GFP+/c-MYChightumor sphere and co-culture of cerebral organoid slices at air-liquid interface with GFP+/c-MYChighcells. GFP+/c-MYChighcells used in both approaches exhibited tumor-like properties, including overexpression of the c-MYC oncogene, high proliferative and invasive potential, and an immature phenotype as evidenced by increased expression of Ki-67, VIM, and CD133. Organoids and organoid slices served as suitable scaffolds for infiltrating tumor-like cells. Using our highly reproducible and powerful model system that allows long-term culture, we demonstrated that the migratory and infiltrative potential of tumor-like cells is shaped by the environment in which glia cells provide support to tumor-like cells.}, subject = {Hirntumor}, language = {en} } @article{SchickelBenderKaysanetal.2025, author = {Schickel, Esther and Bender, Tamara and Kaysan, Leon and Hufgard, Simone and Mayer, Margot and Grosshans, David R. and Thielemann, Christiane and Schroeder, Insa S.}, title = {Human cerebral organoids model tumor initiation and infiltration in an autologous astrocyte-supported setting}, series = {iScience}, journal = {iScience}, publisher = {Elsevier BV}, issn = {2589-0042}, doi = {https://doi.org/10.1016/j.isci.2025.113334}, year = {2025}, abstract = {Efforts to efficiently target brain tumors are constrained by the dearth of appropriate models to study tumor behavior towards treatment approaches as well as potential side effects to the surrounding normal tissue. We established a reproducible cerebral organoid model of brain tumorigenesis in an autologous setting by overexpressing c-MYC, a common oncogene in brain tumors. GFP+/c-MYChigh cells were isolated from tumor organoids and used in two different approaches: GFP+/c-MYChigh cells co-cultured with cerebral organoid slices or fused as spheres to whole organoids. GFP+/c-MYChigh cells used in both approaches exhibited tumor-like properties, including an immature phenotype and a highly proliferative and invasive potential. We demonstrate that the latter is influenced by astrocytes supporting the GFP+/c-MYChigh cells while X-ray irradiation significantly kills and impairs tissue infiltration of GFP+/c-MYChigh cells. In summary, the model represents major features of tumorous and adjacent normal tissue and may be used to evaluate appropriate cancer treatments.}, subject = {Hirntumor}, language = {en} } @inproceedings{HufgardMayerSchroederetal.2025, author = {Hufgard, Simone and Mayer, Margot and Schroeder, Insa S. and Thielemann, Christiane}, title = {3D compartmentilisation for analyzing functional long-range connectivity between brain regions}, series = {4th Microphysiological Systems World Summit, Brussels, Belgium}, booktitle = {4th Microphysiological Systems World Summit, Brussels, Belgium}, number = {June 2025}, year = {2025}, subject = {Hirnareal}, language = {en} } @unpublished{AlvesPaulodeFariaetal.2025, author = {Alves, Caroline and Paulo, Artur Jos{\´e} Marques and de Faria, Danilo Donizete and Sato, Jo{\~a}o Ricardo and Borges, Vanderci and Silva, Sonia de Azevedo and Ferraz, Henrique Ballalai and Rodrigues, Francisco A. and Thielemann, Christiane and Moeckel, Michael and Aguiar, Patricia de Carvalho}, title = {Decoding Dystonia: unveiling neural patterns with interpretable EEG-Based Machine Learning}, publisher = {Springer Science and Business Media LLC}, doi = {https://doi.org/10.21203/rs.3.rs-7483388/v1}, year = {2025}, abstract = {Dystonia has a multifaceted and complex pathogenesis. Current diagnostic proce-dures, which focus primarily on clinical signs, may lack accuracy due to the variable presentationsof different dystonia types. There is a need for objective, interpretable, and non-invasive diagnostictools. This study aims to develop an interpretable electroencephalography (EEG)-basedmachine learning (ML) and deep learning (DL) approach to distinguish between focal upper limbdystonia (ULD), cervical dystonia (CD), and healthy controls (HC). EEG data were recorded during resting-state, writing-from-memory, and finger-tapping tasks. The EEG signals were segmented into windows to generate connectivity matricesusing various pairwise correlation metrics. Machine learning models were trained to classify thegroups, with performance evaluated using accuracy and area under the curve (AUC) metrics. Our approach achieved accuracy and AUC scores close to 100\%. Transfer entropyemerged as the most effective connectivity metric, revealing altered brain connections in dystonia.Complex network measures outperformed traditional EEG features, highlighting the relevance offunctional connectivity. Resting-state EEG showed the highest classification performance for ULD,suggesting strong diagnostic potential. Conclusions: This study provides the first machine learning-based comparison between differenttypes of dystonia, introduces novel cervical dystonia EEG data, and yields medically interpretableinsights into altered brain connectivity. The findings enhance our understanding of dystonia and support using EEG as alow-cost, interpretable tool for diagnosing and developing brain-machine interfaces.}, subject = {Dystonie}, language = {en} }