Fabian J. Theis

250 papers A* 11A 1B 19C 4Misc 2Journal 130Unranked 75

Year	Rank	Type	Title / Venue / Authors
2026	J	`jnl`	Flow-Based Density Ratio Estimation for Intractable Distributions with Applications in Genomics. CoRR Egor Antipov, Alessandro Palma, Lorenzo Consoli, Stephan Günnemann, Andrea Dittadi, Fabian J. Theis
2025	J	`jnl`	A Foundation Model for Spatial Proteomics. CoRR Muhammad Shaban, Yuzhou Chang, Huaying Qiu, Yao Yu Yeo, Andrew H. Song, Guillaume Jaume, Yuchen Wang, Luca L. Weishaupt, Tong Ding, Anurag Vaidya, Abdallah Lamane, Daniel Shao, Mohammed Zidane, Yunhao Bai, Paige McCallum, Shuli Luo, Wenrui Wu, Yang Wang, Precious Cramer, Chi Ngai Chan, Pierre Stéphan, Johanna Schaffenrath, Jia Le Lee, Hendrik A. Michel, Caiwei Tian, Cristina Almagro-Pérez, Sophia J. Wagner, Sharifa Sahai, Ming Y. Lu, Richard J. Chen, Andrew Zhang, Mark Edward M. Gonzales, Ahmad Makky, Jia-Ying Joey Lee, Hao Cheng, Nourhan El Ahmar, Sayed Matar, Maximilian Haist, Darci Phillips, Yuqi Tan, Garry P. Nolan, W. Richard Burack, Jacob D. Estes, Jonathan T. C. Liu, Toni K. Choueiri, Neeraj Agarwal, Marc Barry, Scott J. Rodig, Long Phi Le, Georg Gerber, Christian M. Schürch, Fabian J. Theis, Youn H. Kim, Joe Yeong, Sabina Signoretti, Brooke E. Howitt, Lit-Hsin Loo, Qin Ma, Sizun Jiang, Faisal Mahmood
2025	—	`conf`	A Large-Scale Benchmark of Cross-Modal Learning for Histology and Gene Expression in Spatial Transcriptomics. ICCVW Rushin H. Gindra, Giovanni Palla, Mathias Nguyen, Sophia J. Wagner, Manuel Tran, Fabian J. Theis, Dieter Saur, Lorin Crawford, Tingying Peng
2025	J	`jnl`	A foundation model to predict and capture human cognition. Nat. Marcel Binz, Elif Akata, Matthias Bethge, Franziska Brändle, Fred Callaway, Julian Coda-Forno, Peter Dayan, Can Demircan, Maria K. Eckstein, Noémi Élteto, Thomas L. Griffiths, Susanne Haridi, Akshay K. Jagadish, Ji-An Li, Alexander Kipnis, Sreejan Kumar, Tobias Ludwig, Marvin Mathony, Marcelo G. Mattar, Alireza Modirshanechi, Surabhi S. Nath, Joshua C. Peterson, Milena Rmus, Evan M. Russek, Tankred Saanum, Johannes A. Schubert, Luca M. Schulze Buschoff, Nishad Singhi, Xin Sui, Mirko Thalmann, Fabian J. Theis, Vuong Truong, Vishaal Udandarao, Konstantinos Voudouris, Robert C. Wilson, Kristin Witte, Shuchen Wu, Dirk U. Wulff, Huadong Xiong, Eric Schulz
2025	J	`jnl`	A scalable gene network model of regulatory dynamics in single cells. CoRR Paul Bertin, Joseph D. Viviano, Alejandro Tejada-Lapuerta, Weixu Wang, Stefan Bauer, Fabian J. Theis, Yoshua Bengio
2025	J	`jnl`	CellForge: Agentic Design of Virtual Cell Models. CoRR Xiangru Tang, Zhuoyun Yu, Jiapeng Chen, Yan Cui, Daniel Shao, Weixu Wang, Fang Wu, Yuchen Zhuang, Wenqi Shi, Zhi Huang, Arman Cohan, Xihong Lin, Fabian J. Theis, Smita Krishnaswamy, Mark Gerstein
2025	J	`jnl`	Delineating the effective use of self-supervised learning in single-cell genomics. Nat. Mac. Intell. Till Richter, Mojtaba Bahrami, Yufan Xia, David S. Fischer, Fabian J. Theis
2025	A*	`conf`	Disentangled Representation Learning with the Gromov-Monge Gap. ICLR Théo Uscidda, Luca Eyring, Karsten Roth, Fabian J. Theis, Zeynep Akata, Marco Cuturi
2025	J	`jnl`	Embedding computational neurorehabilitation in clinical practice using a modular intelligent health system. CoRR Thomas Weikert, Eljas Roellin, Monica Pérez-Serrano, Elisa Du, Lukas Heumos, Fabian J. Theis, Diego Paez-Granados, Christopher Awai Easthope
2025	A*	`conf`	Enforcing Latent Euclidean Geometry in Single-Cell VAEs for Manifold Interpolation. ICML Alessandro Palma, Sergei Rybakov, Leon Hetzel, Stephan Günnemann, Fabian J. Theis
2025	J	`jnl`	Enforcing Latent Euclidean Geometry in Single-Cell VAEs for Manifold Interpolation. CoRR Alessandro Palma, Sergei Rybakov, Leon Hetzel, Stephan Günnemann, Fabian J. Theis
2025	B	`conf`	Integration and Querying of Multimodal Single-Cell Data with PoE-VAE. RECOMB Anastasia Litinetskaya, Maiia Schulman, Fabiola Curion, Artur Szalata, Alireza Omidi, Mohammad Lotfollahi, Fabian J. Theis
2025	A*	`conf`	MAGNet: Motif-Agnostic Generation of Molecules from Scaffolds. ICLR Leon Hetzel, Johanna Sommer, Bastian Rieck, Fabian J. Theis, Stephan Günnemann
2025	J	`jnl`	Modeling Microenvironment Trajectories on Spatial Transcriptomics with NicheFlow. CoRR Kristiyan Sakalyan, Alessandro Palma, Filippo Guerranti, Fabian J. Theis, Stephan Günnemann
2025	A*	`conf`	Multi-Modal and Multi-Attribute Generation of Single Cells with CFGen. ICLR Alessandro Palma, Till Richter, Hanyi Zhang, Manuel Lubetzki, Alexander Tong, Andrea Dittadi, Fabian J. Theis
2025	J	`jnl`	QuiCAT: a scalable and flexible framework for mapping synthetic sequences. Bioinform. Daniele Lucarelli, Tina Kos, Caylie Shull, Sara Jiménez, Rupert Öllinger, Roland Rad, Dieter Saur, Fabian J. Theis
2025	J	`jnl`	Spatial transcriptomics deconvolution methods generalize well to spatial chromatin accessibility data. Bioinform. Sarah Ouologuem, Laura D. Martens, Anna C. Schaar, Maiia Shulman, Julien Gagneur, Fabian J. Theis
2025	B	`conf`	TarDis: Achieving Robust and Structured Disentanglement of Multiple Covariates. RECOMB Kemal Inecik, Aleyna Kara, Antony Rose, Muzlifah Haniffa, Fabian J. Theis
2025	J	`jnl`	Targeted AMP generation through controlled diffusion with efficient embeddings. CoRR Diogo Soares, Leon Hetzel, Paulina Szymczak, Fabian J. Theis, Stephan Günnemann, Ewa Szczurek
2025	J	`jnl`	Transformers and genome language models. Nat. Mac. Intell. Micaela E. Consens, Cameron Dufault, Michael Wainberg, Duncan Forster, Mehran Karimzadeh, Hani Goodarzi, Fabian J. Theis, Alan M. Moses, Bo Wang
2025	J	`jnl`	Unified Guidance for Geometry-Conditioned Molecular Generation. CoRR Sirine Ayadi, Leon Hetzel, Johanna Sommer, Fabian J. Theis, Stephan Günnemann
2025	J	`jnl`	cp_measure: API-first feature extraction for image-based profiling workflows. CoRR Alán F. Muñoz, Tim Treis, Alexandr A. Kalinin, Shatavisha Dasgupta, Fabian J. Theis, Anne E. Carpenter, Shantanu Singh
2024	A*	`conf`	A benchmark for prediction of transcriptomic responses to chemical perturbations across cell types. NeurIPS Artur Szalata, Andrew Benz, Robrecht Cannoodt, Mauricio Cortes, Jason Fong, Sunil Kuppasani, Richard Lieberman, Tianyu Liu, Javier Mas-Rosario, Rico Meinl, Jalil Nourisa, Jared Tumiel, Tin M. Tunjic, Mengbo Wang, Noah Weber, Hongyu Zhao, Benedict Anchang, Fabian J. Theis, Malte Luecken, Daniel Burkhardt
2024	J	`jnl`	B-Cos Aligned Transformers Learn Human-Interpretable Features. CoRR Manuel Tran, Amal Lahiani, Yashin Dicente Cid, Melanie Boxberg, Peter Lienemann, Christian Matek, Sophia J. Wagner, Fabian J. Theis, Eldad Klaiman, Tingying Peng
2024	J	`jnl`	Centaur: a foundation model of human cognition. CoRR Marcel Binz, Elif Akata, Matthias Bethge, Franziska Brändle, Fred Callaway, Julian Coda-Forno, Peter Dayan, Can Demircan, Maria K. Eckstein, Noémi Élteto, Thomas L. Griffiths, Susanne Haridi, Akshay K. Jagadish, Ji-An Li, Alexander Kipnis, Sreejan Kumar, Tobias Ludwig, Marvin Mathony, Marcelo G. Mattar, Alireza Modirshanechi, Surabhi S. Nath, Joshua C. Peterson, Milena Rmus, Evan M. Russek, Tankred Saanum, Natalia Scharfenberg, Johannes A. Schubert, Luca M. Schulze Buschoff, Nishad Singhi, Xin Sui, Mirko Thalmann, Fabian J. Theis, Vuong Truong, Vishaal Udandarao, Konstantinos Voudouris, Robert C. Wilson, Kristin Witte, Shuchen Wu, Dirk U. Wulff, Huadong Xiong, Eric Schulz
2024	J	`jnl`	Disentangled Representation Learning through Geometry Preservation with the Gromov-Monge Gap. CoRR Théo Uscidda, Luca Eyring, Karsten Roth, Fabian J. Theis, Zeynep Akata, Marco Cuturi
2024	A*	`conf`	GENOT: Entropic (Gromov) Wasserstein Flow Matching with Applications to Single-Cell Genomics. NeurIPS Dominik Klein, Théo Uscidda, Fabian J. Theis, Marco Cuturi
2024	J	`jnl`	Generating Multi-Modal and Multi-Attribute Single-Cell Counts with CFGen. CoRR Alessandro Palma, Till Richter, Hanyi Zhang, Manuel Lubetzki, Alexander Tong, Andrea Dittadi, Fabian J. Theis
2024	J	`jnl`	GraphCompass: spatial metrics for differential analyses of cell organization across conditions. Bioinform. Mayar Ali, Merel Kuijs, Soroor Hediyeh-Zadeh, Tim Treis, Karin Hrovatin, Giovanni Palla, Anna C. Schaar, Fabian J. Theis
2024	J	`jnl`	How to Build the Virtual Cell with Artificial Intelligence: Priorities and Opportunities. CoRR Charlotte Bunne, Yusuf H. Roohani, Yanay Rosen, Ankit Gupta, Xikun Zhang, Marcel Roed, Theo Alexandrov, Mohammed AlQuraishi, Patricia Brennan, Daniel B. Burkhardt, Andrea Califano, Jonah Cool, Abby F. Dernburg, Kirsty Ewing, Emily B. Fox, Matthias Haury, Amy E. Herr, Eric Horvitz, Patrick D. Hsu, Viren Jain, Gregory R. Johnson, Thomas Kalil, David R. Kelley, Shana O. Kelley, Anna Kreshuk, Tim Mitchison, Stephani Otte, Jay Shendure, Nicolas J. Sofroniew, Fabian J. Theis, Christina V. Theodoris, Srigokul Upadhyayula, Marc Valer, Bo Wang, Eric Xing, Serena Yeung-Levy, Marinka Zitnik, Theofanis Karaletsos, Aviv Regev, Emma Lundberg, Jure Leskovec, Stephen R. Quake
2024	J	`jnl`	MISATO: machine learning dataset of protein-ligand complexes for structure-based drug discovery. Nat. Comput. Sci. Till Siebenmorgen, Filipe Menezes, Sabrina Benassou, Erinc Merdivan, Kieran Didi, André Santos Dias Mourão, Radoslaw Kitel, Pietro Liò, Stefan Kesselheim, Marie Piraud, Fabian J. Theis, Michael Sattler, Grzegorz M. Popowicz
2024	A	`conf`	Mixed Models with Multiple Instance Learning. AISTATS Jan P. Engelmann, Alessandro Palma, Jakub M. Tomczak, Fabian J. Theis, Francesco Paolo Casale
2024	A*	`conf`	Unbalancedness in Neural Monge Maps Improves Unpaired Domain Translation. ICLR Luca Eyring, Dominik Klein, Théo Uscidda, Giovanni Palla, Niki Kilbertus, Zeynep Akata, Fabian J. Theis
2024	A*	`conf`	Unified Guidance for Geometry-Conditioned Molecular Generation. NeurIPS Sirine Ayadi, Leon Hetzel, Johanna Sommer, Fabian J. Theis, Stephan Günnemann
2024	J	`jnl`	anndata: Access and store annotated data matrices. J. Open Source Softw. Isaac Virshup, Sergei Rybakov, Fabian J. Theis, Philipp Angerer, F. Alexander Wolf
2024	J	`jnl`	longmixr: a tool for robust clustering of high-dimensional cross-sectional and longitudinal variables of mixed data types. Bioinform. Jonas Hagenberg, Monika Budde, Teodora Pandeva, Ivan Kondofersky, Sabrina K. Schaupp, Fabian J. Theis, Thomas G. Schulze, Nikola S. Müller, Urs Heilbronner, Richa Batra, Janine Knauer-Arloth
2023	J	`jnl`	Attention-based Multi-instance Mixed Models. CoRR Jan P. Engelmann, Alessandro Palma, Jakub M. Tomczak, Fabian J. Theis, Francesco Paolo Casale
2023	—	`conf`	B-Cos Aligned Transformers Learn Human-Interpretable Features. MICCAI (8) Manuel Tran, Amal Lahiani, Yashin Dicente Cid, Melanie Boxberg, Peter Lienemann, Christian Matek, Sophia J. Wagner, Fabian J. Theis, Eldad Klaiman, Tingying Peng
2023	J	`jnl`	Causal machine learning for single-cell genomics. CoRR Alejandro Tejada-Lapuerta, Paul Bertin, Stefan Bauer, Hananeh Aliee, Yoshua Bengio, Fabian J. Theis
2023	J	`jnl`	Conditionally Invariant Representation Learning for Disentangling Cellular Heterogeneity. CoRR Hananeh Aliee, Ferdinand Kapl, Soroor Hediyeh-Zadeh, Fabian J. Theis
2023	J	`jnl`	Generative Entropic Neural Optimal Transport To Map Within and Across Spaces. CoRR Dominik Klein, Théo Uscidda, Fabian J. Theis, Marco Cuturi
2023	J	`jnl`	MAGNet: Motif-Agnostic Generation of Molecules from Shapes. CoRR Leon Hetzel, Johanna Sommer, Bastian Rieck, Fabian J. Theis, Stephan Günnemann
2023	J	`jnl`	Multi-omics regulatory network inference in the presence of missing data. Briefings Bioinform. Juan D. Henao, Michael Lauber, Manuel Azevedo, Anastasiia Grekova, Fabian J. Theis, Markus List, Christoph Ogris, Benjamin Schubert
2023	J	`jnl`	Reporting electricity consumption is essential for sustainable AI. Nat. Mac. Intell. Charlotte Debus, Marie Piraud, Achim Streit, Fabian J. Theis, Markus Götz
2023	J	`jnl`	The power of motifs as inductive bias for learning molecular distributions. CoRR Johanna Sommer, Leon Hetzel, David Lüdke, Fabian J. Theis, Stephan Günnemann
2023	J	`jnl`	To Transformers and Beyond: Large Language Models for the Genome. CoRR Micaela E. Consens, Cameron Dufault, Michael Wainberg, Duncan Forster, Mehran Karimzadeh, Hani Goodarzi, Fabian J. Theis, Alan M. Moses, Bo Wang
2023	A*	`conf`	Training Transitive and Commutative Multimodal Transformers with LoReTTa. NeurIPS Manuel Tran, Yashin Dicente Cid, Amal Lahiani, Fabian J. Theis, Tingying Peng, Eldad Klaiman
2023	J	`jnl`	Unbalancedness in Neural Monge Maps Improves Unpaired Domain Translation. CoRR Luca Eyring, Dominik Klein, Théo Uscidda, Giovanni Palla, Niki Kilbertus, Zeynep Akata, Fabian J. Theis
2022	J	`jnl`	FedNorm: Modality-Based Normalization in Federated Learning for Multi-Modal Liver Segmentation. CoRR Tobias Bernecker, Annette Peters, Christopher L. Schlett, Fabian Bamberg, Fabian J. Theis, Daniel Rueckert, Jakob Weiß, Shadi Albarqouni
2022	—	`conf`	Noise Transfer for Unsupervised Domain Adaptation of Retinal OCT Images. MICCAI (2) Valentin Koch, Olle G. Holmberg, Hannah Spitzer, Johannes Schiefelbein, Ben Asani, Michael Hafner, Fabian J. Theis
2022	J	`jnl`	Noise transfer for unsupervised domain adaptation of retinal OCT images. CoRR Valentin Koch, Olle G. Holmberg, Hannah Spitzer, Johannes Schiefelbein, Ben Asani, Michael Hafner, Fabian J. Theis
2022	A*	`conf`	Predicting Cellular Responses to Novel Drug Perturbations at a Single-Cell Resolution. NeurIPS Leon Hetzel, Simon Böhm, Niki Kilbertus, Stephan Günnemann, Mohammad Lotfollahi, Fabian J. Theis
2022	J	`jnl`	Predicting single-cell perturbation responses for unseen drugs. CoRR Leon Hetzel, Simon Böhm, Niki Kilbertus, Stephan Günnemann, Mohammad Lotfollahi, Fabian J. Theis
2022	A*	`conf`	Sparsity in Continuous-Depth Neural Networks. NeurIPS Hananeh Aliee, Till Richter, Mikhail Solonin, Ignacio Ibarra, Fabian J. Theis, Niki Kilbertus
2022	J	`jnl`	Sparsity in Continuous-Depth Neural Networks. CoRR Hananeh Aliee, Till Richter, Mikhail Solonin, Ignacio Ibarra, Fabian J. Theis, Niki Kilbertus
2022	J	`jnl`	SystemMatch: optimizing preclinical drug models to human clinical outcomes via generative latent-space matching. CoRR Scott Gigante, Varsha G. Raghavan, Amanda M. Robinson, Robert A. Barton, Adeeb H. Rahman, Drausin F. Wulsin, Jacques Banchereau, Noam Solomon, Luis F. Voloch, Fabian J. Theis
2022	J	`jnl`	Uncertainty Quantification for Atlas-Level Cell Type Transfer. CoRR Jan P. Engelmann, Leon Hetzel, Giovanni Palla, Lisa Sikkema, Malte Lücken, Fabian J. Theis
2021	J	`jnl`	A field guide to cultivating computational biology. CoRR Anne E. Carpenter, Casey S. Greene, Piero Carnici, Benilton S. Carvalho, Michiel de Hoon, Stacey D. Finley, Kim-Anh Lê Cao, Jerry S. H. Lee, Luigi Marchionni, Suzanne Sindi, Fabian J. Theis, Gregory P. Way, Jean Y. H. Yang, Elana J. Fertig
2021	—	`conf`	A sandbox for prediction and integration of DNA, RNA, and proteins in single cells. NeurIPS Datasets and Benchmarks Malte Lücken, Daniel Burkhardt, Robrecht Cannoodt, Christopher Lance, Aditi Agrawal, Hananeh Aliee, Ann Chen, Louise Deconinck, Angela Detweiler, Alejandro Granados, Shelly Huynh, Laura Isacco, Yang Kim, Dominik Klein, Bony de Kumar, Sunil Kuppasani, Heiko Lickert, Aaron McGeever, Joaquin Melgarejo, Honey Mekonen, Maurizio Morri, Michaela Müller, Norma Neff, Sheryl Paul, Bastian Rieck, Kaylie Schneider, Scott Steelman, Michael Sterr, Daniel Treacy, Alexander Tong, Alexandra-Chloé Villani, Guilin Wang, Jia Yan, Ce Zhang, Angela Pisco, Smita Krishnaswamy, Fabian J. Theis, Jonathan M. Bloom
2021	J	`jnl`	Beyond Predictions in Neural ODEs: Identification and Interventions. CoRR Hananeh Aliee, Fabian J. Theis, Niki Kilbertus
2021	—	`conf`	Multimodal single cell data integration challenge: Results and lessons learned. NeurIPS (Competition and Demos) Christopher Lance, Malte D. Lücken, Daniel B. Burkhardt, Robrecht Cannoodt, Pia Rautenstrauch, Anna Laddach, Aidyn Ubingazhibov, Zhi-Jie Cao, Kaiwen Deng, Sumeer Khan, Qiao Liu, Nikolay Russkikh, Gleb Ryazantsev, Uwe Ohler, Angela Oliveira Pisco, Jonathan Bloom, Smita Krishnaswamy, Fabian J. Theis
2020	J	`jnl`	Automatic identification of relevant genes from low-dimensional embeddings of single-cell RNA-seq data. Bioinform. Philipp Angerer, David S. Fischer, Fabian J. Theis, Antonio Scialdone, Carsten Marr
2020	J	`jnl`	Conditional out-of-distribution generation for unpaired data using transfer VAE. Bioinform. Mohammad Lotfollahi, Mohsen Naghipourfar, Fabian J. Theis, F. Alexander Wolf
2020	J	`jnl`	Copy number aberrations from Affymetrix SNP 6.0 genotyping data - how accurate are commonly used prediction approaches? Briefings Bioinform. Adriana Pitea, Ivan Kondofersky, Steffen Sass, Fabian J. Theis, Nikola S. Müller, Kristian Unger
2020	J	`jnl`	DeepWAS: Multivariate genotype-phenotype associations by directly integrating regulatory information using deep learning. PLoS Comput. Biol. Janine Arloth, Gökcen Eraslan, Till F. M. Andlauer, Jade Martins, Stella Iurato, Brigitte Kühnel, Melanie Waldenberger, Josef Frank, Ralf Gold, Bernhard Hemmer, Felix Luessi, Sandra Nischwitz, Friedemann Paul, Heinz Wiendl, Christian Gieger, Stefanie Heilmann-Heimbach, Tim Kacprowski, Matthias Laudes, Thomas Meitinger, Annette Peters, Rajesh Rawal, Konstantin Strauch, Susanne Lucae, Bertram Müller-Myhsok, Marcella Rietschel, Fabian J. Theis, Elisabeth B. Binder, Nikola S. Müller
2020	—	`conf`	Learning Tn5 Sequence Bias from ATAC-seq on Naked Chromatin. ICANN (1) Meshal Ansari, David S. Fischer, Fabian J. Theis
2020	J	`jnl`	Model-based analysis of response and resistance factors of cetuximab treatment in gastric cancer cell lines. PLoS Comput. Biol. Elba Raimúndez-Álvarez, Simone Keller, Gwen Zwingenberger, Karolin Ebert, Sabine Hug, Fabian J. Theis, Dieter Maier, Birgit Luber, Jan Hasenauer
2020	J	`jnl`	Munich School for Data Science (MUDS) - Eine Graduiertenschule für Data Science in München. Inform. Spektrum Fabian J. Theis, Thomas Ludwig
2020	J	`jnl`	Self-supervised retinal thickness prediction enables deep learning from unlabelled data to boost classification of diabetic retinopathy. Nat. Mach. Intell. Olle G. Holmberg, Niklas D. Köhler, Thiago Martins, Jakob Siedlecki, Tina Herold, Leonie Keidel, Ben Asani, Johannes Schiefelbein, Siegfried Priglinger, Karsten U. Kortuem, Fabian J. Theis
2019	J	`jnl`	12 Grand Challenges in Single-Cell Data Science. PeerJ Prepr. David Laehnemann, Johannes Köster, Ewa Szczurek, Davis J. McCarthy, Stephanie C. Hicks, Mark D. Robinson, Catalina A. Vallejos, Niko Beerenwinkel, Kieran R. Campbell, Ahmed Mahfouz, Luca Pinello, Pavel Skums, Alexandros Stamatakis, Camille Stephan-Otto Attolini, Samuel Aparicio, Jasmijn A. Baaijens, Marleen Balvert, Buys de Barbanson, Antonio Cappuccio, Giacomo Corleone, Bas E. Dutilh, Maria Florescu, Victor Guryev, Rens Holmer, Katharina Jahn, Thamar Jessurun Lobo, Emma M. Keizer, Indu Khatri, Szymon M. Kielbasa, Jan O. Korbel, Alexey M. Kozlov, Tzu-Hao Kuo, Boudewijn P. F. Lelieveldt, Ion I. Mandoiu, John C. Marioni, Tobias Marschall, Felix Mölder, Amir Niknejad, Lukasz Raczkowski, Marcel J. T. Reinders, Jeroen de Ridder, Antoine-Emmanuel Saliba, Antonios Somarakis, Oliver Stegle, Fabian J. Theis, Huan Yang, Alex Zelikovsky, Alice C. McHardy, Benjamin J. Raphael, Sohrab P. Shah, Alexander Schönhuth
2019	—	`ed.`	Artificial Neural Networks and Machine Learning - ICANN 2019 - 28th International Conference on Artificial Neural Networks, Munich, Germany, September 17-19, 2019, Proceedings - Workshop and Special Sessions ICANN (Workshop) Igor V. Tetko, Vera Kurková, Pavel Karpov, Fabian J. Theis
2019	—	`ed.`	Artificial Neural Networks and Machine Learning - ICANN 2019: Deep Learning - 28th International Conference on Artificial Neural Networks, Munich, Germany, September 17-19, 2019, Proceedings, Part II ICANN (2) Igor V. Tetko, Vera Kurková, Pavel Karpov, Fabian J. Theis
2019	—	`ed.`	Artificial Neural Networks and Machine Learning - ICANN 2019: Image Processing - 28th International Conference on Artificial Neural Networks, Munich, Germany, September 17-19, 2019, Proceedings, Part III ICANN (3) Igor V. Tetko, Vera Kurková, Pavel Karpov, Fabian J. Theis
2019	—	`ed.`	Artificial Neural Networks and Machine Learning - ICANN 2019: Text and Time Series - 28th International Conference on Artificial Neural Networks, Munich, Germany, September 17-19, 2019, Proceedings, Part IV ICANN (4) Igor V. Tetko, Vera Kurková, Pavel Karpov, Fabian J. Theis
2019	—	`ed.`	Artificial Neural Networks and Machine Learning - ICANN 2019: Theoretical Neural Computation - 28th International Conference on Artificial Neural Networks, Munich, Germany, September 17-19, 2019, Proceedings, Part I ICANN (1) Igor V. Tetko, Vera Kurková, Pavel Karpov, Fabian J. Theis
2019	J	`jnl`	Conditional out-of-sample generation for unpaired data using trVAE. CoRR Mohammad Lotfollahi, Mohsen Naghipourfar, Fabian J. Theis, F. Alexander Wolf
2018	J	`jnl`	Bayesian parameter estimation for biochemical reaction networks using region-based adaptive parallel tempering. Bioinform. Benjamin Ballnus, Steffen Schaper, Fabian J. Theis, Jan Hasenauer
2018	—	`conf`	LNA++: Linear Noise Approximation with First and Second Order Sensitivities. CMSB Justin Feigelman, Daniel Weindl, Fabian J. Theis, Carsten Marr, Jan Hasenauer
2018	J	`jnl`	netReg: network-regularized linear models for biological association studies. Bioinform. Simon Dirmeier, Christiane Fuchs, Nikola S. Müller, Fabian J. Theis
2017	J	`jnl`	A scalable moment-closure approximation for large-scale biochemical reaction networks. Bioinform. Atefeh Kazeroonian, Fabian J. Theis, Jan Hasenauer
2017	J	`jnl`	Comprehensive benchmarking of Markov chain Monte Carlo methods for dynamical systems. BMC Syst. Biol. Benjamin Ballnus, Sabine Hug, Kathrin Hatz, Linus Görlitz, Jan Hasenauer, Fabian J. Theis
2017	J	`jnl`	Correcting Classifiers for Sample Selection Bias in Two-Phase Case-Control Studies. Comput. Math. Methods Medicine Norbert Krautenbacher, Fabian J. Theis, Christiane Fuchs
2017	J	`jnl`	Model-based branching point detection in single-cell data by K-branches clustering. Bioinform. Nikolaos-Kosmas Chlis, F. Alexander Wolf, Fabian J. Theis
2017	J	`jnl`	Parameter estimation for dynamical systems with discrete events and logical operations. Bioinform. Fabian Fröhlich, Fabian J. Theis, Joachim O. Rädler, Jan Hasenauer
2017	J	`jnl`	Scalable Parameter Estimation for Genome-Scale Biochemical Reaction Networks. PLoS Comput. Biol. Fabian Fröhlich, Barbara Kaltenbacher, Fabian J. Theis, Jan Hasenauer
2017	J	`jnl`	fastER: a user-friendly tool for ultrafast and robust cell segmentation in large-scale microscopy. Bioinform. Oliver Hilsenbeck, Michael Schwarzfischer, Dirk Loeffler, Sotiris Dimopoulos, Simon Hastreiter, Carsten Marr, Fabian J. Theis, Timm Schroeder
2017	J	`jnl`	pulver: an R package for parallel ultra-rapid p-value computation for linear regression interaction terms. BMC Bioinform. Sophie Molnos, Clemens Baumbach, Simone Wahl, Martina Müller-Nurasyid, Konstantin Strauch, Rui Wang-Sattler, Melanie Waldenberger, Thomas Meitinger, Jerzy Adamski, Gabi Kastenmüller, Karsten Suhre, Annette Peters, Harald Grallert, Fabian J. Theis, Christian Gieger
2016	J	`jnl`	An adaptive scheduling scheme for calculating Bayes factors with thermodynamic integration using Simpson's rule. Stat. Comput. Sabine Hug, Michael Schwarzfischer, Jan Hasenauer, Carsten Marr, Fabian J. Theis
2016	J	`jnl`	Inference for Stochastic Chemical Kinetics Using Moment Equations and System Size Expansion. PLoS Comput. Biol. Fabian Fröhlich, Philipp Thomas, Atefeh Kazeroonian, Fabian J. Theis, Ramon Grima, Jan Hasenauer
2016	J	`jnl`	MEMO: multi-experiment mixture model analysis of censored data. Bioinform. Eva-Maria Geissen, Jan Hasenauer, Stephanie Heinrich, Silke Hauf, Fabian J. Theis, Nicole Radde
2016	—	`conf`	Mitosis Detection in Intestinal Crypt Images with Hough Forest and Conditional Random Fields. MLMI@MICCAI Gerda Bortsova, Michael Sterr, Lichao Wang, Fausto Milletari, Nassir Navab, Anika Böttcher, Heiko Lickert, Fabian J. Theis, Tingying Peng
2016	J	`jnl`	Mitosis Detection in Intestinal Crypt Images with Hough Forest and Conditional Random Fields. CoRR Gerda Bortsova, Michael Sterr, Lichao Wang, Fausto Milletari, Nassir Navab, Anika Böttcher, Heiko Lickert, Fabian J. Theis, Tingying Peng
2016	J	`jnl`	Tailored parameter optimization methods for ordinary differential equation models with steady-state constraints. BMC Syst. Biol. Anna Fiedler, Sebastian Raeth, Fabian J. Theis, Angelika Hausser, Jan Hasenauer
2016	J	`jnl`	Unbiased Prediction and Feature Selection in High-Dimensional Survival Regression. J. Comput. Biol. Michael Laimighofer, Jan Krumsiek, Florian A. Büttner, Fabian J. Theis
2015	—	`conf`	An Affine Equivariant Robust Second-Order BSS Method. LVA/ICA Pauliina Ilmonen, Klaus Nordhausen, Hannu Oja, Fabian J. Theis
2015	—	`conf`	Anatomic-landmark detection using graphical context modelling. ISBI Lichao Wang, Vasileios Belagiannis, Carsten Marr, Fabian J. Theis, Guang-Zhong Yang, Nassir Navab
2015	—	`conf`	Approximate Bayesian Computation for Stochastic Single-Cell Time-Lapse Data Using Multivariate Test Statistics. CMSB Carolin Loos, Carsten Marr, Fabian J. Theis, Jan Hasenauer
2015	J	`jnl`	Data2Dynamics: a modeling environment tailored to parameter estimation in dynamical systems. Bioinform. Andreas Raue, Bernhard Steiert, Max Schelker, Clemens Kreutz, Tim Maiwald, Helge Hass, Joep Vanlier, Christian Tönsing, Lorenz Adlung, Raphael Engesser, Wolfgang Mader, Tim Heinemann, Jan Hasenauer, Marcel Schilling, Thomas Höfer, Edda Klipp, Fabian J. Theis, Ursula Klingmüller, Birgit Schoeberl, Jens Timmer
2015	J	`jnl`	Diffusion maps for high-dimensional single-cell analysis of differentiation data. Bioinform. Laleh Haghverdi, Florian Buettner, Fabian J. Theis
2015	J	`jnl`	Inference of spatiotemporal effects on cellular state transitions from time-lapse microscopy. BMC Syst. Biol. Michael K. Strasser, Justin Feigelman, Fabian J. Theis, Carsten Marr
2015	J	`jnl`	Model selection using limiting distributions of second-order blind source separation algorithms. Signal Process. Katrin Illner, Jari Miettinen, Christiane Fuchs, Sara Taskinen, Klaus Nordhausen, Hannu Oja, Fabian J. Theis
2015	J	`jnl`	RAMONA: a Web application for gene set analysis on multilevel omics data. Bioinform. Steffen Sass, Florian Buettner, Nikola S. Müller, Fabian J. Theis
2015	J	`jnl`	Reconstructing gene regulatory dynamics from high-dimensional single-cell snapshot data. Bioinform. Andrea Ocone, Laleh Haghverdi, Nikola S. Müller, Fabian J. Theis
2014	J	`jnl`	Bayesian Blind Source Separation for Data with Network Structure. J. Comput. Biol. Katrin Illner, Christiane Fuchs, Fabian J. Theis
2014	—	`conf`	Centroid Clustering of Cellular Lineage Trees. ITBAM Valeriy Khakhutskyy, Michael Schwarzfischer, Nina C. Hubig, Claudia Plant, Carsten Marr, Michael A. Rieger, Timm Schroeder, Fabian J. Theis
2014	J	`jnl`	MCA: Multiresolution Correlation Analysis, a graphical tool for subpopulation identification in single-cell gene expression data. BMC Bioinform. Justin Feigelman, Fabian J. Theis, Carsten Marr
2014	J	`jnl`	MCA: Multiresolution Correlation Analysis, a graphical tool for subpopulation identification in single-cell gene expression data. CoRR Justin Feigelman, Fabian J. Theis, Carsten Marr
2014	J	`jnl`	Mouse IDGenes: a reference database for genetic interactions in the developing mouse brain. Database J. Biol. Databases Curation Michaela Matthes, Martin Preusse, Jingzhong Zhang, Julia Schechter, Daniela Mayer, Bernd Lentes, Fabian J. Theis, Nilima Prakash, Wolfgang Wurst, Dietrich Trümbach
2014	J	`jnl`	ODE Constrained Mixture Modelling: A Method for Unraveling Subpopulation Structures and Dynamics. PLoS Comput. Biol. Jan Hasenauer, Christine Hasenauer, Tim Hucho, Fabian J. Theis
2014	J	`jnl`	Probabilistic PCA of censored data: accounting for uncertainties in the visualization of high-throughput single-cell qPCR data. Bioinform. Florian Buettner, Victoria Moignard, Berthold Göttgens, Fabian J. Theis
2014	—	`conf`	Radial Basis Function Approximations of Bayesian Parameter Posterior Densities for Uncertainty Analysis. CMSB Fabian Fröhlich, Sabrina Hross, Fabian J. Theis, Jan Hasenauer
2014	—	`conf`	Uncertainty Analysis for Non-identifiable Dynamical Systems: Profile Likelihoods, Bootstrapping and More. CMSB Fabian Fröhlich, Fabian J. Theis, Jan Hasenauer
2013	J	`jnl`	An automatic method for robust and fast cell detection in bright field images from high-throughput microscopy. BMC Bioinform. Felix Buggenthin, Carsten Marr, Michael Schwarzfischer, Philipp S. Hoppe, Oliver Hilsenbeck, Timm Schroeder, Fabian J. Theis
2013	J	`jnl`	Dependent component analysis. EURASIP J. Adv. Signal Process. Ercan E. Kuruoglu, Fabian J. Theis
2013	J	`jnl`	Modeling of 2D diffusion processes based on microscopy data: parameter estimation and practical identifiability analysis. BMC Bioinform. Sabrina Hock, Jan Hasenauer, Fabian J. Theis
2013	J	`jnl`	Sharpening of expression domains induced by transcription and microRNA regulation within a spatio-temporal model of mid-hindbrain boundary formation. BMC Syst. Biol. Sabrina Hock, Yen-Kar Ng, Jan Hasenauer, Dominik M. Wittmann, Dominik Lutter, Dietrich Trümbach, Wolfgang Wurst, Nilima Prakash, Fabian J. Theis
2013	J	`jnl`	Truth-Content and Phase Transitions of Random Boolean Networks with Generic Logics. SIAM J. Appl. Dyn. Syst. Dominik M. Wittmann, Sabrina Hock, Fabian J. Theis
2013	B	`conf`	Visualizing edge-edge relations in graphs. PacificVis Corinna Vehlow, Jan Hasenauer, Fabian J. Theis, Daniel Weiskopf
2013	J	`jnl`	iVUN: interactive Visualization of Uncertain biochemical reaction Networks. BMC Bioinform. Corinna Vehlow, Jan Hasenauer, Andrei Kramer, Andreas Raue, Sabine Hug, Jens Timmer, Nicole Radde, Fabian J. Theis, Daniel Weiskopf
2012	J	`jnl`	A novel approach for resolving differences in single-cell gene expression patterns from zygote to blastocyst. Bioinform. Florian Buettner, Fabian J. Theis
2012	—	`conf`	Bayesian Fuzzy Clustering of Colored Graphs. LVA/ICA Fabian J. Theis
2012	—	`conf`	Bayesian Inference of Latent Causes in Gene Regulatory Dynamics. LVA/ICA Sabine Hug, Fabian J. Theis
2012	J	`jnl`	Bayesian model selection validates a biokinetic model for zirconium processing in humans. BMC Syst. Biol. Daniel Schmidl, Sabine Hug, Wei Li, Matthias B. Greiter, Fabian J. Theis
2012	J	`jnl`	ICA over finite fields - Separability and algorithms. Signal Process. Harold W. Gutch, Peter Gruber, Arie Yeredor, Fabian J. Theis
2012	—	`conf`	Joint Diagonalization of Several Scatter Matrices for ICA. LVA/ICA Klaus Nordhausen, Harold W. Gutch, Hannu Oja, Fabian J. Theis
2012	—	`ed.`	Latent Variable Analysis and Signal Separation - 10th International Conference, LVA/ICA 2012, Tel Aviv, Israel, March 12-15, 2012. Proceedings LVA/ICA Fabian J. Theis, Andrzej Cichocki, Arie Yeredor, Michael Zibulevsky
2012	J	`jnl`	Measuring Non-Gaussianity by Phi-Transformed and Fuzzy Histograms. Adv. Artif. Neural Syst. Claudia Plant, Son Thai Mai, Junming Shao, Fabian J. Theis, Anke Meyer-Baese, Christian Böhm
2012	J	`jnl`	On the hypothesis-free testing of metabolite ratios in genome-wide and metabolome-wide association studies. BMC Bioinform. Ann-Kristin Petersen, Jan Krumsiek, Brigitte Wägele, Fabian J. Theis, Heinz-Erich Wichmann, Christian Gieger, Karsten Suhre
2012	J	`jnl`	The signal separation evaluation campaign (2007-2010): Achievements and remaining challenges. Signal Process. Emmanuel Vincent, Shoko Araki, Fabian J. Theis, Guido Nolte, Pau Bofill, Hiroshi Sawada, Alexey Ozerov, Vikrham Gowreesunker, Dominik Lutter, Ngoc Q. K. Duong
2012	—	`conf`	To Infinity and Beyond: On ICA over Hilbert Spaces. LVA/ICA Harold W. Gutch, Fabian J. Theis
2012	J	`jnl`	Uniqueness of linear factorizations into independent subspaces. J. Multivar. Anal. Harold W. Gutch, Fabian J. Theis
2011	—	`conf`	An ISA algorithm with unknown group sizes identifies meaningful clusters in metabolomics data. EUSIPCO Harold W. Gutch, Jan Krumsiek, Fabian J. Theis
2011	J	`jnl`	Gaussian graphical modeling reconstructs pathway reactions from high-throughput metabolomics data. BMC Syst. Biol. Jan Krumsiek, Karsten Suhre, Thomas Illig, Jerzy Adamski, Fabian J. Theis
2011	J	`jnl`	MIPS: curated databases and comprehensive secondary data resources in 2010. Nucleic Acids Res. Hans-Werner Mewes, Andreas Ruepp, Fabian J. Theis, Thomas Rattei, Mathias C. Walter, Dmitrij Frishman, Karsten Suhre, Manuel Spannagl, Klaus F. X. Mayer, Volker Stümpflen, Alexey V. Antonov
2011	J	`jnl`	MicroRNAs coordinately regulate protein complexes. BMC Syst. Biol. Steffen Sass, Sabine Dietmann, Ulrike C. Burk, Simone Brabletz, Dominik Lutter, Andreas Kowarsch, Klaus F. X. Mayer, Thomas Brabletz, Andreas Ruepp, Fabian J. Theis, Yu Wang
2011	J	`jnl`	Modularity maximization and tree clustering: Novel ways to determine effective geographic borders CoRR Daniel Grady, Rafael Brune, Christian Thiemann, Fabian J. Theis, Dirk Brockmann
2011	J	`jnl`	Uniqueness of Non-Gaussianity-Based Dimension Reduction. IEEE Trans. Signal Process. Fabian J. Theis, Motoaki Kawanabe, Klaus-Robert Müller
2010	J	`jnl`	Colored Subspace Analysis: Dimension Reduction Based on a Signal's Autocorrelation Structure. IEEE Trans. Circuits Syst. I Regul. Pap. Fabian J. Theis
2010	J	`jnl`	From Binary to Multivalued to Continuous Models: The Lac Operon as a Case Study. J. Integr. Bioinform. Raimo Franke, Fabian J. Theis, Steffen Klamt
2010	—	`conf`	ICA over Finite Fields. LVA/ICA Harold W. Gutch, Peter Gruber, Fabian J. Theis
2010	—	`conf`	Information-Theoretic Model Selection for Independent Components. LVA/ICA Claudia Plant, Fabian J. Theis, Anke Meyer-Bäse, Christian Böhm
2010	J	`jnl`	Knowledge-based matrix factorization temporally resolves the cellular responses to IL-6 stimulation. BMC Bioinform. Andreas Kowarsch, Florian Blöchl, Sebastian Bohl, Maria Saile, Norbert Gretz, Ursula Klingmüller, Fabian J. Theis
2010	J	`jnl`	Odefy -- From discrete to continuous models. BMC Bioinform. Jan Krumsiek, Sebastian Pölsterl, Dominik M. Wittmann, Fabian J. Theis
2010	J	`jnl`	Patterns of Subnet Usage Reveal Distinct Scales of Regulation in the Transcriptional Regulatory Network of PLoS Comput. Biol. Carsten Marr, Fabian J. Theis, Larry S. Liebovitch, Marc-Thorsten Hütt
2010	—	`conf`	Robust Second-Order Source Separation Identifies Experimental Responses in Biomedical Imaging. LVA/ICA Fabian J. Theis, Nikola S. Müller, Claudia Plant, Christian Böhm
2010	—	`conf`	Robust Stability Analysis and Design Under Consideration of Multiple Feedback Loops in the Tryptophan Regulatory Network of E. coli. BIOCOMP Anke Meyer-Bäse, Fabian J. Theis
2010	—	`conf`	Robust Stability Analysis of Multi-Time Scale Genetic Regulatory Networks under Parametric Uncertainties. BIOCOMP Anke Meyer-Bäse, Claudia Plant, Susanne Cappendijk, Fabian J. Theis
2010	—	`conf`	Second Order Subspace Analysis and Simple Decompositions. LVA/ICA Harold W. Gutch, Takanori Maehara, Fabian J. Theis
2010	—	`conf`	Second-Order Source Separation Based on Prior Knowledge Realized in a Graph Model. LVA/ICA Florian Blöchl, Andreas Kowarsch, Fabian J. Theis
2010	J	`jnl`	Structuring heterogeneous biological information using fuzzy clustering of k-partite graphs. BMC Bioinform. Mara L. Hartsperger, Florian Blöchl, Volker Stümpflen, Fabian J. Theis
2010	—	`conf`	The 2010 Signal Separation Evaluation Campaign (SiSEC2010): Audio Source Separation. LVA/ICA Shoko Araki, Alexey Ozerov, Vikrham Gowreesunker, Hiroshi Sawada, Fabian J. Theis, Guido Nolte, Dominik Lutter, Ngoc Q. K. Duong
2010	—	`conf`	The 2010 Signal Separation Evaluation Campaign (SiSEC2010): Biomedical Source Separation. LVA/ICA Shoko Araki, Fabian J. Theis, Guido Nolte, Dominik Lutter, Alexey Ozerov, Vikrham Gowreesunker, Hiroshi Sawada, Ngoc Q. K. Duong
2010	—	`conf`	Uncovering the Structure of Heterogenous Biological Data: Fuzzy Graph Partitioning in the k-partite Setting. GCB Florian Blöchl, Mara L. Hartsperger, Volker Stümpflen, Fabian J. Theis
2009	—	`conf`	Blind Decomposition of Spectral Imaging Microscopy: A Study on Artificial and Real Test Data. ICA Fabian J. Theis, Richard A. Neher, Andre Zeug
2009	—	`conf`	Estimating Hidden Influences in Metabolic and Gene Regulatory Networks. ICA Florian Blöchl, Fabian J. Theis
2009	—	`conf`	Hierarchical Extraction of Independent Subspaces of Unknown Dimensions. ICA Peter Gruber, Harold W. Gutch, Fabian J. Theis
2009	J	`jnl`	Hypergraphs and Cellular Networks. PLoS Comput. Biol. Steffen Klamt, Utz-Uwe Haus, Fabian J. Theis
2009	J	`jnl`	ICA, kernel methods and nonnegativity: New paradigms for dynamical component analysis of fMRI data. Eng. Appl. Artif. Intell. Peter Gruber, Anke Meyer-Bäse, Simon Y. Foo, Fabian J. Theis
2009	J	`jnl`	Reconstruction of graphs based on random walks. Theor. Comput. Sci. Dominik M. Wittmann, Daniel Schmidl, Florian Blöchl, Fabian J. Theis
2009	—	`conf`	Soft Dimension Reduction for ICA by Joint Diagonalization on the Stiefel Manifold. ICA Fabian J. Theis, Thomas P. Cason, Pierre-Antoine Absil
2009	J	`jnl`	Spatial Analysis of Expression Patterns Predicts Genetic Interactions at the Mid-Hindbrain Boundary. PLoS Comput. Biol. Dominik M. Wittmann, Florian Blöchl, Dietrich Trümbach, Wolfgang Wurst, Nilima Prakash, Fabian J. Theis
2009	J	`jnl`	Transforming Boolean models to continuous models: methodology and application to T-cell receptor signaling. BMC Syst. Biol. Dominik M. Wittmann, Jan Krumsiek, Julio Saez-Rodriguez, Douglas A. Lauffenburger, Steffen Klamt, Fabian J. Theis
2008	J	`jnl`	A robust model for spatiotemporal dependencies. Neurocomputing Fabian J. Theis, Peter Gruber, Ingo R. Keck, Elmar Wolfgang Lang
2008	J	`jnl`	Analyzing M-CSF dependent monocyte/macrophage differentiation: Expression modes and meta-modes derived from an independent component analysis. BMC Bioinform. Dominik Lutter, Peter Ugocsai, Margot Grandl, Evelyn Orso, Fabian J. Theis, Elmar Wolfgang Lang, Gerd Schmitz
2008	—	`conf`	Effective Emission Tomography Image Reconstruction Algorithms for SPECT Data. ICCS (1) Javier Ramírez, Juan Manuel Górriz, Manuel Gómez-Río, Alejandro Romero, Rosa Chaves, A. Lassl, A. Rodríguez, Carlos García Puntonet, Fabian J. Theis, Elmar Wolfgang Lang
2008	J	`jnl`	Hybridizing sparse component analysis with genetic algorithms for microarray analysis. Neurocomputing Kurt Stadlthanner, Fabian J. Theis, Elmar Wolfgang Lang, Ana Maria Tomé, Carlos García Puntonet, Juan Manuel Górriz
2008	J	`jnl`	Knowledge-based gene expression classification via matrix factorization. Bioinform. Reinhard Schachtner, Dominik Lutter, P. Knollmüller, Ana Maria Tomé, Fabian J. Theis, Gerd Schmitz, Martin Stetter, Pedro Gómez-Vilda, Elmar Wolfgang Lang
2008	J	`jnl`	Money Circulation, Trackable Items, and the Emergence of Universal Human Mobility Patterns. IEEE Pervasive Comput. Dirk Brockmann, Fabian J. Theis
2008	—	`conf`	Stochastic Stability Analysis of the Heat Shock Response in E. Coli. BIOCOMP Anke Meyer-Bäse, Fabian J. Theis
2007	—	`conf`	A Toolbox for Model-Free Analysis of fMRI Data. ICA Peter Gruber, C. Kohler, Fabian J. Theis
2007	J	`jnl`	A bilinear algorithm for sparse representations. Comput. Optim. Appl. Pando G. Georgiev, Panos M. Pardalos, Fabian J. Theis
2007	—	`conf`	Blind Matrix Decomposition Techniques to Identify Marker Genes from Microarrays. ICA Reinhard Schachtner, Dominik Lutter, Fabian J. Theis, Elmar Wolfgang Lang, Ana Maria Tomé, Juan Manuel Górriz Sáez, Carlos García Puntonet
2007	—	`conf`	Blind Matrix Decomposition Via Genetic Optimization of Sparseness and Nonnegativity Constraints. ICANN (1) Kurt Stadlthanner, Fabian J. Theis, Elmar Wolfgang Lang, Ana Maria Tomé, Carlos García Puntonet
2007	—	`conf`	Colored Subspace Analysis. ICA Fabian J. Theis, Motoaki Kawanabe
2007	—	`conf`	Exploiting Blind Matrix Decomposition Techniques to Identify Diagnostic Marker Genes. ICANN (2) Reinhard Schachtner, Dominik Lutter, Fabian J. Theis, Elmar Wolfgang Lang, Ana Maria Tomé, Gerd Schmitz
2007	—	`conf`	Identifiability Conditions and Subspace Clustering in Sparse BSS. ICA Pando G. Georgiev, Fabian J. Theis, Anca L. Ralescu
2007	—	`conf`	Independent Subspace Analysis Is Unique, Given Irreducibility. ICA Harold W. Gutch, Fabian J. Theis
2007	J	`jnl`	Joint low-rank approximation for extracting non-Gaussian subspaces. Signal Process. Motoaki Kawanabe, Fabian J. Theis
2007	—	`conf`	Pivot Selection Strategies in Jacobi Joint Block-Diagonalization. ICA Cédric Févotte, Fabian J. Theis
2007	J	`jnl`	Robust Sparse Component Analysis Based on a Generalized Hough Transform. EURASIP J. Adv. Signal Process. Fabian J. Theis, Pando G. Georgiev, Andrzej Cichocki
2007	B	`conf`	Sparse Nonnegative Matrix Factorization with Genetic Algorithms for Microarray Analysis. IJCNN Kurt Stadlthanner, Dominik Lutter, Fabian J. Theis, Elmar Wolfgang Lang, Ana Maria Tomé, Petia Georgieva, Carlos García Puntonet
2007	C	`conf`	Statistical Analysis of Sample-Size Effects in ICA. IDEAL J. Michael Herrmann, Fabian J. Theis
2006	B	`conf`	A Fast Predictive Lossless Coder for fMRI Data Sets. ICIP Toshihisa Tanaka, Yumi Murakami, Fabian J. Theis
2006	J	`jnl`	Blind source separation based on self-organizing neural network. Eng. Appl. Artif. Intell. Anke Meyer-Bäse, Peter Gruber, Fabian J. Theis, Simon Y. Foo
2006	J	`jnl`	Denoising using local projective subspace methods. Neurocomputing Peter Gruber, Kurt Stadlthanner, Matthias Böhm, Fabian J. Theis, Elmar Wolfgang Lang, Ana Maria Tomé, Ana R. Teixeira, Carlos García Puntonet, Juan Manuel Górriz Sáez
2006	—	`conf`	Estimating Non-Gaussian Subspaces by Characteristic Functions. ICA Motoaki Kawanabe, Fabian J. Theis
2006	—	`conf`	Grassmann clustering. EUSIPCO Peter Gruber, Fabian J. Theis
2006	J	`jnl`	Median-based clustering for underdetermined blind signal processing. IEEE Signal Process. Lett. Fabian J. Theis, Carlos García Puntonet, Elmar Wolfgang Lang
2006	C	`conf`	New Riemannian metrics for speeding-up the convergence of over- and underdetermined ICA. ISCAS Stefano Squartini, Francesco Piazza, Fabian J. Theis
2006	C	`conf`	On the use of joint diagonalization in blind signal processing. ISCAS Fabian J. Theis, Yujiro Inouye
2006	J	`jnl`	On the use of simulated annealing to automatically assign decorrelated components in second-order blind source separation. IEEE Trans. Biomed. Eng. Matthias Böhm, Kurt Stadlthanner, Peter Gruber, Fabian J. Theis, Elmar Wolfgang Lang, Ana Maria Tomé, Ana R. Teixeira, Wolfram Gronwald, Hans Robert Kalbitzer
2006	J	`jnl`	On the use of sparse signal decomposition in the analysis of multi-channel surface electromyograms. Signal Process. Fabian J. Theis, Gonzalo A. García
2006	—	`conf`	Region of Interest Based Independent Component Analysis. ICONIP (1) Ingo R. Keck, Jan Churan, Fabian J. Theis, Peter Gruber, Elmar Wolfgang Lang, Carlos García Puntonet
2006	J	`jnl`	Separation of water artifacts in 2D NOESY protein spectra using congruent matrix pencils. Neurocomputing Kurt Stadlthanner, Ana Maria Tomé, Fabian J. Theis, Elmar Wolfgang Lang, Wolfram Gronwald, Hans Robert Kalbitzer
2006	—	`conf`	Sparse Nonnegative Matrix Factorization Applied to Microarray Data Sets. ICA Kurt Stadlthanner, Fabian J. Theis, Elmar Wolfgang Lang, Ana Maria Tomé, Carlos García Puntonet, Pedro Gómez-Vilda, Thomas Langmann, Gerd Schmitz
2006	—	`conf`	Sparseness by Iterative Projections Onto Spheres. ICASSP (5) Fabian J. Theis, Toshihisa Tanaka
2006	B	`conf`	Stability Analysis of an Unsupervised Competitive Neural Network. IJCNN Anke Meyer-Bäse, Vera Thümmler, Fabian J. Theis
2006	—	`conf`	Towards a general independent subspace analysis. NIPS Fabian J. Theis
2006	—	`conf`	Uniqueness of Non-Gaussian Subspace Analysis. ICA Fabian J. Theis, Motoaki Kawanabe
2005	—	`conf`	A Fast and Efficient Method for Compressing fMRI Data Sets. ICANN (2) Fabian J. Theis, Toshihisa Tanaka
2005	Misc	`conf`	A Hybridization of Simulated Annealing and Local PCA for Automatic Component Assignment Within ICA. IWANN Matthias Böhm, Kurt Stadlthanner, Elmar Wolfgang Lang, Ana Maria Tomé, Ana R. Teixeira, Fabian J. Theis, Carlos García Puntonet
2005	B	`conf`	An algorithm for automatic assignment of artifact-related independent components in biomedical signal analysis. IJCNN Matthias Böhm, Kurt Stadlthanner, Elmar Wolfgang Lang, Fabian J. Theis, Peter Gruber, Ana Maria Tomé, Ana Rita Teixeira, Carlos García Puntonet
2005	—	`conf`	AutoAssign - An Automatic Assignment Tool for Independent Components. IbPRIA (2) Matthias Böhm, Kurt Stadlthanner, Ana Maria Tomé, Peter Gruber, Ana R. Teixeira, Fabian J. Theis, Carlos García Puntonet, Elmar Wolfgang Lang
2005	—	`conf`	Bispectrum-Based Statistical Tests for VAD. ICANN (2) Juan Manuel Górriz Sáez, Javier Ramírez, Carlos García Puntonet, Fabian J. Theis, Elmar Wolfgang Lang
2005	—	`conf`	Blind signal separation into groups of dependent signals using joint block diagonalization. ISCAS (6) Fabian J. Theis
2005	Misc	`conf`	Extended Sparse Nonnegative Matrix Factorization. IWANN Kurt Stadlthanner, Fabian J. Theis, Carlos García Puntonet, Elmar Wolfgang Lang
2005	—	`conf`	First results on uniqueness of sparse non-negative matrix factorization. EUSIPCO Fabian J. Theis, Kurt Stadlthanner, Toshihisa Tanaka
2005	—	`conf`	Functional MRI Analysis by a Novel Spatiotemporal ICA Algorithm. ICANN (1) Fabian J. Theis, Peter Gruber, Ingo R. Keck, Elmar Wolfgang Lang
2005	—	`conf`	Hybridizing Sparse Component Analysis with Genetic Algorithms for Blind Source Separation. ISBMDA Kurt Stadlthanner, Fabian J. Theis, Carlos García Puntonet, Juan Manuel Górriz, Ana Maria Tomé, Elmar Wolfgang Lang
2005	—	`conf`	Multidimensional independent component analysis using characteristic functions. EUSIPCO Fabian J. Theis
2005	J	`jnl`	On model identifiability in analytic postnonlinear ICA. Neurocomputing Fabian J. Theis, Peter Gruber
2005	J	`jnl`	Sparse component analysis and blind source separation of underdetermined mixtures. IEEE Trans. Neural Networks Pando G. Georgiev, Fabian J. Theis, Andrzej Cichocki
2005	—	`conf`	Spatiotemporal blind source separation using double-sided approximate joint diagonalization. EUSIPCO Fabian J. Theis, Peter Gruber, Ingo R. Keck, Anke Meyer-Bäse, Elmar Wolfgang Lang
2004	—	`conf`	3D Spatial Analysis of fMRI Data on a Word Perception Task. ICA Ingo R. Keck, Fabian J. Theis, Peter Gruber, Elmar Wolfgang Lang, Karsten Specht, Carlos García Puntonet
2004	B	`conf`	3D spatial analysis of fMRI data: a comparison of ICA and GLM analysis on a word perception task. IJCNN Ingo R. Keck, Fabian J. Theis, Peter Gruber, Elmar Wolfgang Lang, Karsten Specht, Carlos García Puntonet
2004	J	`jnl`	A New Concept for Separability Problems in Blind Source Separation. Neural Comput. Fabian J. Theis
2004	J	`jnl`	A geometric algorithm for overcomplete linear ICA. Neurocomputing Fabian J. Theis, Elmar Wolfgang Lang, Carlos García Puntonet
2004	—	`conf`	Blind Source Separation of Linear Mixtures with Singular Matrices. ICA Pando G. Georgiev, Fabian J. Theis
2004	—	`conf`	Blind source separation and sparse component analysis of overcomplete mixtures. ICASSP (5) Pando G. Georgiev, Fabian J. Theis, Andrzej Cichocki
2004	B	`conf`	Clustering of dependent components: a new paradigm for fMRI signal detection. IJCNN Anke Meyer-Bäse, Fabian J. Theis, Oliver Lange, Axel Wismüller
2004	—	`conf`	Denoising Using Local ICA and a Generalized Eigendecomposition with Time-Delayed Signals. ICA Peter Gruber, Kurt Stadlthanner, Ana Maria Tomé, Ana R. Teixeira, Fabian J. Theis, Carlos García Puntonet, Elmar Wolfgang Lang
2004	B	`conf`	Denoising using local ICA and kernel-PCA. IJCNN Peter Gruber, Fabian J. Theis, Kurt Stadlthanner, Elmar Wolfgang Lang, Ana Maria Tomé, Ana Rita Teixeira
2004	B	`conf`	Kernel-PCA denoising of artifact-free protein NMR spectra. IJCNN Kurt Stadlthanner, Elmar Wolfgang Lang, Peter Gruber, Fabian J. Theis, Ana Maria Tomé, Ana Rita Teixeira, Carlos García Puntonet
2004	B	`conf`	Linearization identification and an application to BSS using a SOM. ESANN Fabian J. Theis, Elmar Wolfgang Lang
2004	J	`jnl`	Mobile decision support for transplantation patient data. Int. J. Medical Informatics Andreas Krause, Dominik Hartl, Fabian J. Theis, Manfred Stangl, Klaus-E. Gerauer, Alexander T. Mehlhorn
2004	—	`conf`	Postnonlinear Overcomplete Blind Source Separation Using Sparse Sources. ICA Fabian J. Theis, Shun-ichi Amari
2004	B	`conf`	Postnonlinear blind source separation via linearization identification. IJCNN Fabian J. Theis, Elmar Wolfgang Lang
2004	B	`conf`	Robust overcomplete matrix recovery for sparse sources using a generalized Hough transform. ESANN Fabian J. Theis, Pando G. Georgiev, Andrzej Cichocki
2004	—	`conf`	Second-Order Blind Source Separation Based on Multi-dimensional Autocovariances. ICA Fabian J. Theis, Anke Meyer-Bäse, Elmar Wolfgang Lang
2004	B	`conf`	Separability of analytic postnonlinear blind source separation with bounded sources. ESANN Fabian J. Theis, Peter Gruber
2004	—	`conf`	Tree-Dependent and Topographic Independent Component Analysis for fMRI Analysis. ICA Anke Meyer-Bäse, Fabian J. Theis, Oliver Lange, Carlos García Puntonet
2004	J	`jnl`	Uniqueness of complex and multidimensional independent component analysis. Signal Process. Fabian J. Theis
2004	—	`conf`	Uniqueness of real and complex linear independent component analysis revisited. EUSIPCO Fabian J. Theis
2003	—	`conf`	A Generalized Eigendecomposition Approach Using Matrix Pencils to Remove Artefacts from 2D NMR Spectra. IWANN (2) Kurt Stadlthanner, Ana Maria Tomé, Fabian J. Theis, Elmar Wolfgang Lang
2003	—	`conf`	An Adaptive Approach to Blind Source Separation Using a Self-Organzing Map and a Neural Gas. IWANN (2) Fabian J. Theis, Manuel Rodríguez Álvarez, Carlos García Puntonet, Elmar Wolfgang Lang
2003	—	`conf`	An Improved Geometric Overcomplete Blind Source Separation Algorithm. IWANN (2) Fabian J. Theis, Carlos García Puntonet, Elmar Wolfgang Lang
2003	—	`conf`	Generalizing Geometric ICA to Nonlinear Settings. IWANN (2) Fabian J. Theis, Carlos García Puntonet, Elmar Wolfgang Lang
2003	—	`—`	Geometric source separation: algorithms and applications. Fabian J. Theis
2003	J	`jnl`	Linear Geometric ICA: Fundamentals and Algorithms. Neural Comput. Fabian J. Theis, Andreas Jung, Carlos García Puntonet, Elmar Wolfgang Lang
2003	B	`conf`	Local features in biomedical image clusters extracted with independent component analysis. IJCNN Christoph Bauer, Fabian J. Theis, Wolfgang Bäumler, Elmar Wolfgang Lang
2003	—	`conf`	Mathematics in independent component analysis. ISSPA (2) Fabian J. Theis
2003	—	`—`	Mathematics in independent component analysis. Fabian J. Theis
2003	—	`conf`	Neural network signal analysis in immunology. ISSPA (2) Fabian J. Theis, Dominik Hartl, Susanne Krauss-Etschmann, Elmar Wolfgang Lang
2003	—	`conf`	Removing water artefacts from 2D protein NMR spectra using GEVD with congruent matrix pencils. ISSPA (2) Kurt Stadlthanner, Ana Maria Tomé, Fabian J. Theis, Wolfram Gronwald, Hans Robert Kalbitzer, Elmar Wolfgang Lang
2003	B	`conf`	SOMICA - an application of self-organizing maps to geometric independent component analysis. IJCNN Fabian J. Theis, Carlos García Puntonet, Elmar Wolfgang Lang
2002	J	`jnl`	Comparison of maximum entropy and minimal mutual information in a nonlinear setting. Signal Process. Fabian J. Theis, Christoph Bauer, Elmar Wolfgang Lang
2002	B	`conf`	Geometric overcomplete ICA. ESANN Fabian J. Theis, Elmar Wolfgang Lang
2002	B	`conf`	How to generalize geometric ICA to higher dimensions. ESANN Fabian J. Theis, Elmar Wolfgang Lang
2002	C	`conf`	Overcomplete ICA with a Geometric Algorithm. ICANN Fabian J. Theis, Elmar Wolfgang Lang, Tobias Westenhuber, Carlos García Puntonet
2001	—	`conf`	Pattern Repulsion Revisited. IWANN (2) Fabian J. Theis, Christoph Bauer, Carlos García Puntonet, Elmar Wolfgang Lang