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ORCIDFabian J. Theis
Person information
- affiliation: Helmholtz Munich, Institute for Computational Biology, Germany
- affiliation: Technical University Munich, Germany
- affiliation (PhD 2002): University of Regensburg, Germany
- affiliation (PhD 2003): University of Granada, Spain
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Books and Theses
- 2003
[b2]Fabian J. Theis:
Mathematics in independent component analysis. University of Regensburg, Germany, Logos-Verlag 2003, ISBN 978-3-8325-0127-3, pp. 1-179- [b1]Fabian J. Theis:
Geometric source separation: algorithms and applications. Granada, Univ., 2003, ISBN 3-8322-2388-6, pp. 1-189
Journal Articles
- 2023
- [j85]Juan D. Henao
, Michael Lauber, Manuel Azevedo, Anastasiia Grekova, Fabian J. Theis, Markus List, Christoph Ogris, Benjamin Schubert:
Multi-omics regulatory network inference in the presence of missing data. Briefings Bioinform. 24(5) (2023) - [j84]Charlotte Debus, Marie Piraud, Achim Streit, Fabian J. Theis, Markus Götz:
Reporting electricity consumption is essential for sustainable AI. Nat. Mac. Intell. 5(11): 1176-1178 (2023) - 2020
- [j83]Adriana Pitea, Ivan Kondofersky, Steffen Sass, Fabian J. Theis, Nikola S. Müller, Kristian Unger:
Copy number aberrations from Affymetrix SNP 6.0 genotyping data - how accurate are commonly used prediction approaches? Briefings Bioinform. 21(1): 272-281 (2020) - [j82]Philipp Angerer, David S. Fischer, Fabian J. Theis, Antonio Scialdone, Carsten Marr:
Automatic identification of relevant genes from low-dimensional embeddings of single-cell RNA-seq data. Bioinform. 36(15): 4291-4295 (2020) - [j81]Fabian J. Theis, Thomas Ludwig:
Munich School for Data Science (MUDS) - Eine Graduiertenschule für Data Science in München. Inform. Spektrum 42(6): 429-431 (2020) - [j80]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:
Self-supervised retinal thickness prediction enables deep learning from unlabelled data to boost classification of diabetic retinopathy. Nat. Mach. Intell. 2(11): 719-726 (2020) - [j79]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:
DeepWAS: Multivariate genotype-phenotype associations by directly integrating regulatory information using deep learning. PLoS Comput. Biol. 16(2) (2020) - [j78]Elba Raimúndez-Álvarez, Simone Keller, Gwen Zwingenberger, Karolin Ebert, Sabine Hug, Fabian J. Theis, Dieter Maier, Birgit Luber, Jan Hasenauer:
Model-based analysis of response and resistance factors of cetuximab treatment in gastric cancer cell lines. PLoS Comput. Biol. 16(3) (2020) - 2018
- [j77]Simon Dirmeier, Christiane Fuchs, Nikola S. Müller, Fabian J. Theis:
netReg: network-regularized linear models for biological association studies. Bioinform. 34(5): 896-898 (2018) - [j76]Benjamin Ballnus, Steffen Schaper, Fabian J. Theis, Jan Hasenauer:
Bayesian parameter estimation for biochemical reaction networks using region-based adaptive parallel tempering. Bioinform. 34(13): i494-i501 (2018) - 2017
- [j75]Fabian Fröhlich, Fabian J. Theis, Joachim O. Rädler, Jan Hasenauer:
Parameter estimation for dynamical systems with discrete events and logical operations. Bioinform. 33(7): 1049-1056 (2017) - [j74]Oliver Hilsenbeck, Michael Schwarzfischer, Dirk Loeffler, Sotiris Dimopoulos, Simon Hastreiter, Carsten Marr, Fabian J. Theis, Timm Schroeder:
fastER: a user-friendly tool for ultrafast and robust cell segmentation in large-scale microscopy. Bioinform. 33(13): 2020-2028 (2017) - [j73]Atefeh Kazeroonian, Fabian J. Theis, Jan Hasenauer:
A scalable moment-closure approximation for large-scale biochemical reaction networks. Bioinform. 33(14): i293-i300 (2017) - [j72]Nikolaos-Kosmas Chlis, F. Alexander Wolf, Fabian J. Theis:
Model-based branching point detection in single-cell data by K-branches clustering. Bioinform. 33(20): 3211-3219 (2017) - [j71]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:
pulver: an R package for parallel ultra-rapid p-value computation for linear regression interaction terms. BMC Bioinform. 18(1): 429:1-429:8 (2017) - [j70]Benjamin Ballnus, Sabine Hug, Kathrin Hatz, Linus Görlitz, Jan Hasenauer, Fabian J. Theis:
Comprehensive benchmarking of Markov chain Monte Carlo methods for dynamical systems. BMC Syst. Biol. 11(1): 63:1-63:18 (2017) - [j69]Norbert Krautenbacher, Fabian J. Theis, Christiane Fuchs:
Correcting Classifiers for Sample Selection Bias in Two-Phase Case-Control Studies. Comput. Math. Methods Medicine 2017: 7847531:1-7847531:18 (2017) - [j68]Fabian Fröhlich, Barbara Kaltenbacher, Fabian J. Theis, Jan Hasenauer:
Scalable Parameter Estimation for Genome-Scale Biochemical Reaction Networks. PLoS Comput. Biol. 13(1) (2017) - 2016
- [j67]Philipp Angerer, Laleh Haghverdi, Maren Büttner, Fabian J. Theis, Carsten Marr, Florian A. Büttner:
destiny: diffusion maps for large-scale single-cell data in R. Bioinform. 32(8): 1241-1243 (2016) - [j66]Eva-Maria Geissen, Jan Hasenauer, Stephanie Heinrich, Silke Hauf, Fabian J. Theis, Nicole Radde:
MEMO: multi-experiment mixture model analysis of censored data. Bioinform. 32(16): 2464-2472 (2016) - [j65]Anna Fiedler, Sebastian Raeth, Fabian J. Theis, Angelika Hausser, Jan Hasenauer:
Tailored parameter optimization methods for ordinary differential equation models with steady-state constraints. BMC Syst. Biol. 10: 80 (2016) - [j64]Michael Laimighofer, Jan Krumsiek, Florian A. Büttner, Fabian J. Theis:
Unbiased Prediction and Feature Selection in High-Dimensional Survival Regression. J. Comput. Biol. 23(4): 279-290 (2016) - [j63]Fabian Fröhlich, Philipp Thomas, Atefeh Kazeroonian, Fabian J. Theis, Ramon Grima, Jan Hasenauer:
Inference for Stochastic Chemical Kinetics Using Moment Equations and System Size Expansion. PLoS Comput. Biol. 12(7) (2016) - [j62]Sabine Hug, Michael Schwarzfischer, Jan Hasenauer, Carsten Marr, Fabian J. Theis:
An adaptive scheduling scheme for calculating Bayes factors with thermodynamic integration using Simpson's rule. Stat. Comput. 26(3): 663-677 (2016) - 2015
- [j61]Steffen Sass, Florian Buettner, Nikola S. Müller, Fabian J. Theis:
RAMONA: a Web application for gene set analysis on multilevel omics data. Bioinform. 31(1): 128-130 (2015) - [j60]Andrea Ocone, Laleh Haghverdi, Nikola S. Müller, Fabian J. Theis:
Reconstructing gene regulatory dynamics from high-dimensional single-cell snapshot data. Bioinform. 31(12): 89-96 (2015) - [j59]Laleh Haghverdi, Florian Buettner, Fabian J. Theis:
Diffusion maps for high-dimensional single-cell analysis of differentiation data. Bioinform. 31(18): 2989-2998 (2015) - [j58]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:
Data2Dynamics: a modeling environment tailored to parameter estimation in dynamical systems. Bioinform. 31(21): 3558-3560 (2015) - [j57]Michael K. Strasser, Justin Feigelman, Fabian J. Theis, Carsten Marr:
Inference of spatiotemporal effects on cellular state transitions from time-lapse microscopy. BMC Syst. Biol. 9: 61 (2015) - [j56]Katrin Illner, Jari Miettinen, Christiane Fuchs, Sara Taskinen, Klaus Nordhausen, Hannu Oja, Fabian J. Theis:
Model selection using limiting distributions of second-order blind source separation algorithms. Signal Process. 113: 95-103 (2015) - 2014
- [j55]Michaela Matthes, Martin Preusse, Jingzhong Zhang, Julia Schechter, Daniela Mayer, Bernd Lentes, Fabian J. Theis, Nilima Prakash, Wolfgang Wurst, Dietrich Trümbach:
Mouse IDGenes: a reference database for genetic interactions in the developing mouse brain. Database J. Biol. Databases Curation 2014 (2014) - [j54]Florian Buettner, Victoria Moignard, Berthold Göttgens, Fabian J. Theis:
Probabilistic PCA of censored data: accounting for uncertainties in the visualization of high-throughput single-cell qPCR data. Bioinform. 30(13): 1867-1875 (2014) - [j53]Justin Feigelman, Fabian J. Theis, Carsten Marr:
MCA: Multiresolution Correlation Analysis, a graphical tool for subpopulation identification in single-cell gene expression data. BMC Bioinform. 15: 240 (2014) - [j52]Katrin Illner, Christiane Fuchs, Fabian J. Theis:
Bayesian Blind Source Separation for Data with Network Structure. J. Comput. Biol. 21(11): 855-865 (2014) - [j51]Jan Hasenauer, Christine Hasenauer, Tim Hucho, Fabian J. Theis:
ODE Constrained Mixture Modelling: A Method for Unraveling Subpopulation Structures and Dynamics. PLoS Comput. Biol. 10(7) (2014) - 2013
- [j50]Felix Buggenthin, Carsten Marr, Michael Schwarzfischer, Philipp S. Hoppe, Oliver Hilsenbeck, Timm Schroeder, Fabian J. Theis:
An automatic method for robust and fast cell detection in bright field images from high-throughput microscopy. BMC Bioinform. 14: 297 (2013) - [j49]Sabrina Hock, Jan Hasenauer, Fabian J. Theis:
Modeling of 2D diffusion processes based on microscopy data: parameter estimation and practical identifiability analysis. BMC Bioinform. 14(S-10): S7 (2013) - [j48]Corinna Vehlow, Jan Hasenauer, Andrei Kramer, Andreas Raue, Sabine Hug, Jens Timmer, Nicole Radde, Fabian J. Theis, Daniel Weiskopf:
iVUN: interactive Visualization of Uncertain biochemical reaction Networks. BMC Bioinform. 14(S-19): S2 (2013) - [j47]Sabrina Hock, Yen-Kar Ng, Jan Hasenauer, Dominik M. Wittmann, Dominik Lutter, Dietrich Trümbach, Wolfgang Wurst, Nilima Prakash, Fabian J. Theis:
Sharpening of expression domains induced by transcription and microRNA regulation within a spatio-temporal model of mid-hindbrain boundary formation. BMC Syst. Biol. 7: 48 (2013) - [j46]Ercan E. Kuruoglu, Fabian J. Theis:
Dependent component analysis. EURASIP J. Adv. Signal Process. 2013: 185 (2013) - [j45]Dominik M. Wittmann, Sabrina Hock, Fabian J. Theis:
Truth-Content and Phase Transitions of Random Boolean Networks with Generic Logics. SIAM J. Appl. Dyn. Syst. 12(1): 315-351 (2013) - 2012
- [j44]Claudia Plant, Son Thai Mai, Junming Shao, Fabian J. Theis, Anke Meyer-Baese, Christian Böhm:
Measuring Non-Gaussianity by Phi-Transformed and Fuzzy Histograms. Adv. Artif. Neural Syst. 2012: 962105:1-962105:13 (2012) - [j43]Florian Buettner, Fabian J. Theis:
A novel approach for resolving differences in single-cell gene expression patterns from zygote to blastocyst. Bioinform. 28(18): 626-632 (2012) - [j42]Ann-Kristin Petersen, Jan Krumsiek, Brigitte Wägele, Fabian J. Theis, Heinz-Erich Wichmann, Christian Gieger, Karsten Suhre:
On the hypothesis-free testing of metabolite ratios in genome-wide and metabolome-wide association studies. BMC Bioinform. 13: 120 (2012) - [j41]Daniel Schmidl, Sabine Hug, Wei Li, Matthias B. Greiter, Fabian J. Theis:
Bayesian model selection validates a biokinetic model for zirconium processing in humans. BMC Syst. Biol. 6: 95 (2012) - [j40]Harold W. Gutch, Fabian J. Theis:
Uniqueness of linear factorizations into independent subspaces. J. Multivar. Anal. 112: 48-62 (2012) - [j39]Harold W. Gutch, Peter Gruber, Arie Yeredor, Fabian J. Theis:
ICA over finite fields - Separability and algorithms. Signal Process. 92(8): 1796-1808 (2012) - [j38]Emmanuel Vincent, Shoko Araki, Fabian J. Theis, Guido Nolte, Pau Bofill, Hiroshi Sawada, Alexey Ozerov, Vikrham Gowreesunker, Dominik Lutter, Ngoc Q. K. Duong:
The signal separation evaluation campaign (2007-2010): Achievements and remaining challenges. Signal Process. 92(8): 1928-1936 (2012) - 2011
- [j37]Jan Krumsiek, Karsten Suhre, Thomas Illig, Jerzy Adamski, Fabian J. Theis:
Gaussian graphical modeling reconstructs pathway reactions from high-throughput metabolomics data. BMC Syst. Biol. 5: 21 (2011) - [j36]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:
MicroRNAs coordinately regulate protein complexes. BMC Syst. Biol. 5: 136 (2011) - [j35]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:
MIPS: curated databases and comprehensive secondary data resources in 2010. Nucleic Acids Res. 39(Database-Issue): 220-224 (2011) - [j34]Fabian J. Theis, Motoaki Kawanabe, Klaus-Robert Müller:
Uniqueness of Non-Gaussianity-Based Dimension Reduction. IEEE Trans. Signal Process. 59(9): 4478-4482 (2011) - 2010
- [j33]Jan Krumsiek, Sebastian Pölsterl, Dominik M. Wittmann, Fabian J. Theis:
Odefy -- From discrete to continuous models. BMC Bioinform. 11: 233 (2010) - [j32]Mara L. Hartsperger, Florian Blöchl, Volker Stümpflen, Fabian J. Theis:
Structuring heterogeneous biological information using fuzzy clustering of k-partite graphs. BMC Bioinform. 11: 522 (2010) - [j31]Andreas Kowarsch, Florian Blöchl, Sebastian Bohl, Maria Saile, Norbert Gretz, Ursula Klingmüller, Fabian J. Theis:
Knowledge-based matrix factorization temporally resolves the cellular responses to IL-6 stimulation. BMC Bioinform. 11: 585 (2010) - [j30]Raimo Franke, Fabian J. Theis, Steffen Klamt:
From Binary to Multivalued to Continuous Models: The Lac Operon as a Case Study. J. Integr. Bioinform. 7(1) (2010) - [j29]Carsten Marr, Fabian J. Theis, Larry S. Liebovitch, Marc-Thorsten Hütt:
Patterns of Subnet Usage Reveal Distinct Scales of Regulation in the Transcriptional Regulatory Network of Escherichia coli. PLoS Comput. Biol. 6(7) (2010) - [j28]Fabian J. Theis:
Colored Subspace Analysis: Dimension Reduction Based on a Signal's Autocorrelation Structure. IEEE Trans. Circuits Syst. I Regul. Pap. 57-I(7): 1463-1474 (2010) - 2009
- [j27]Dominik M. Wittmann, Jan Krumsiek, Julio Saez-Rodriguez, Douglas A. Lauffenburger, Steffen Klamt, Fabian J. Theis:
Transforming Boolean models to continuous models: methodology and application to T-cell receptor signaling. BMC Syst. Biol. 3: 98 (2009) - [j26]Peter Gruber, Anke Meyer-Bäse, Simon Y. Foo, Fabian J. Theis:
ICA, kernel methods and nonnegativity: New paradigms for dynamical component analysis of fMRI data. Eng. Appl. Artif. Intell. 22(4-5): 497-504 (2009) - [j25]Steffen Klamt, Utz-Uwe Haus, Fabian J. Theis:
Hypergraphs and Cellular Networks. PLoS Comput. Biol. 5(5) (2009) - [j24]Dominik M. Wittmann, Florian Blöchl, Dietrich Trümbach, Wolfgang Wurst, Nilima Prakash, Fabian J. Theis:
Spatial Analysis of Expression Patterns Predicts Genetic Interactions at the Mid-Hindbrain Boundary. PLoS Comput. Biol. 5(11) (2009) - [j23]Dominik M. Wittmann, Daniel Schmidl, Florian Blöchl, Fabian J. Theis:
Reconstruction of graphs based on random walks. Theor. Comput. Sci. 410(38-40): 3826-3838 (2009) - 2008
- [j22]Reinhard Schachtner, Dominik Lutter, P. Knollmüller, Ana Maria Tomé, Fabian J. Theis, Gerd Schmitz, Martin Stetter, Pedro Gómez Vilda, Elmar Wolfgang Lang:
Knowledge-based gene expression classification via matrix factorization. Bioinform. 24(15): 1688-1697 (2008) - [j21]Dominik Lutter, Peter Ugocsai, Margot Grandl, Evelyn Orso, Fabian J. Theis, Elmar Wolfgang Lang, Gerd Schmitz:
Analyzing M-CSF dependent monocyte/macrophage differentiation: Expression modes and meta-modes derived from an independent component analysis. BMC Bioinform. 9 (2008) - [j20]Fabian J. Theis, Peter Gruber, Ingo R. Keck, Elmar Wolfgang Lang:
A robust model for spatiotemporal dependencies. Neurocomputing 71(10-12): 2209-2216 (2008) - [j19]Kurt Stadlthanner, Fabian J. Theis, Elmar Wolfgang Lang, Ana Maria Tomé, Carlos García Puntonet, Juan Manuel Górriz:
Hybridizing sparse component analysis with genetic algorithms for microarray analysis. Neurocomputing 71(10-12): 2356-2376 (2008) - [j18]Dirk Brockmann, Fabian J. Theis:
Money Circulation, Trackable Items, and the Emergence of Universal Human Mobility Patterns. IEEE Pervasive Comput. 7(4): 28-35 (2008) - 2007
- [j17]Pando G. Georgiev, Panos M. Pardalos, Fabian J. Theis:
A bilinear algorithm for sparse representations. Comput. Optim. Appl. 38(2): 249-259 (2007) - [j16]Fabian J. Theis, Pando G. Georgiev, Andrzej Cichocki:
Robust Sparse Component Analysis Based on a Generalized Hough Transform. EURASIP J. Adv. Signal Process. 2007 (2007) - [j15]Motoaki Kawanabe, Fabian J. Theis:
Joint low-rank approximation for extracting non-Gaussian subspaces. Signal Process. 87(8): 1890-1903 (2007) - 2006
- [j14]Anke Meyer-Bäse, Peter Gruber, Fabian J. Theis, Simon Y. Foo:
Blind source separation based on self-organizing neural network. Eng. Appl. Artif. Intell. 19(3): 305-311 (2006) - [j13]Kurt Stadlthanner, Ana Maria Tomé, Fabian J. Theis, Elmar Wolfgang Lang, Wolfram Gronwald, Hans Robert Kalbitzer:
Separation of water artifacts in 2D NOESY protein spectra using congruent matrix pencils. Neurocomputing 69(4-6): 497-522 (2006) - [j12]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:
Denoising using local projective subspace methods. Neurocomputing 69(13-15): 1485-1501 (2006) - [j11]Fabian J. Theis, Gonzalo A. García:
On the use of sparse signal decomposition in the analysis of multi-channel surface electromyograms. Signal Process. 86(3): 603-623 (2006) - [j10]Fabian J. Theis, Carlos García Puntonet, Elmar Wolfgang Lang:
Median-based clustering for underdetermined blind signal processing. IEEE Signal Process. Lett. 13(2): 96-99 (2006) - [j9]Matthias Böhm, Kurt Stadlthanner, Peter Gruber, Fabian J. Theis, Elmar Wolfgang Lang, Ana Maria Tomé, Ana R. Teixeira, Wolfram Gronwald, Hans Robert Kalbitzer:
On the use of simulated annealing to automatically assign decorrelated components in second-order blind source separation. IEEE Trans. Biomed. Eng. 53(5): 810-820 (2006) - 2005
- [j8]Fabian J. Theis, Peter Gruber:
On model identifiability in analytic postnonlinear ICA. Neurocomputing 64: 223-234 (2005) - [j7]Pando G. Georgiev, Fabian J. Theis, Andrzej Cichocki:
Sparse component analysis and blind source separation of underdetermined mixtures. IEEE Trans. Neural Networks 16(4): 992-996 (2005) - 2004
- [j6]Andreas Krause, Dominik Hartl, Fabian J. Theis, Manfred Stangl, Klaus-E. Gerauer, Alexander T. Mehlhorn:
Mobile decision support for transplantation patient data. Int. J. Medical Informatics 73(5): 461-464 (2004) - [j5]Fabian J. Theis, Elmar Wolfgang Lang, Carlos García Puntonet:
A geometric algorithm for overcomplete linear ICA. Neurocomputing 56: 381-398 (2004) - [j4]Fabian J. Theis:
A New Concept for Separability Problems in Blind Source Separation. Neural Comput. 16(9): 1827-1850 (2004) - [j3]Fabian J. Theis:
Uniqueness of complex and multidimensional independent component analysis. Signal Process. 84(5): 951-956 (2004) - 2003
- [j2]Fabian J. Theis, Andreas Jung, Carlos García Puntonet, Elmar Wolfgang Lang:
Linear Geometric ICA: Fundamentals and Algorithms. Neural Comput. 15(2): 419-439 (2003) - 2002
- [j1]Fabian J. Theis, Christoph Bauer, Elmar Wolfgang Lang:
Comparison of maximum entropy and minimal mutual information in a nonlinear setting. Signal Process. 82(7): 971-980 (2002)
Conference and Workshop Papers
- 2024
- [c93]Jan P. Engelmann, Alessandro Palma, Jakub M. Tomczak, Fabian J. Theis, Francesco Paolo Casale:
Mixed Models with Multiple Instance Learning. AISTATS 2024: 3664-3672 - 2023
- [c92]Manuel Tran, Amal Lahiani, Yashin Dicente Cid, Melanie Boxberg, Peter Lienemann, Christian Matek, Sophia J. Wagner, Fabian J. Theis, Eldad Klaiman, Tingying Peng:
B-Cos Aligned Transformers Learn Human-Interpretable Features. MICCAI (8) 2023: 514-524 - [c91]Manuel Tran, Yashin Dicente Cid, Amal Lahiani, Fabian J. Theis, Tingying Peng, Eldad Klaiman:
Training Transitive and Commutative Multimodal Transformers with LoReTTa. NeurIPS 2023 - 2022
- [c90]Valentin Koch, Olle G. Holmberg, Hannah Spitzer, Johannes Schiefelbein, Ben Asani, Michael Hafner, Fabian J. Theis:
Noise Transfer for Unsupervised Domain Adaptation of Retinal OCT Images. MICCAI (2) 2022: 699-708 - [c89]Hananeh Aliee, Till Richter, Mikhail Solonin, Ignacio Ibarra, Fabian J. Theis, Niki Kilbertus:
Sparsity in Continuous-Depth Neural Networks. NeurIPS 2022 - [c88]Leon Hetzel, Simon Böhm, Niki Kilbertus, Stephan Günnemann, Mohammad Lotfollahi, Fabian J. Theis:
Predicting Cellular Responses to Novel Drug Perturbations at a Single-Cell Resolution. NeurIPS 2022 - 2021
- [c87]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:
Multimodal single cell data integration challenge: Results and lessons learned. NeurIPS (Competition and Demos) 2021: 162-176 - [c86]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:
A sandbox for prediction and integration of DNA, RNA, and proteins in single cells. NeurIPS Datasets and Benchmarks 2021 - 2020
- [c85]Meshal Ansari, David S. Fischer, Fabian J. Theis:
Learning Tn5 Sequence Bias from ATAC-seq on Naked Chromatin. ICANN (1) 2020: 105-114 - 2018
- [c84]Justin Feigelman, Daniel Weindl, Fabian J. Theis, Carsten Marr, Jan Hasenauer:
LNA++: Linear Noise Approximation with First and Second Order Sensitivities. CMSB 2018: 300-306 - 2016
- [c83]Gerda Bortsova, Michael Sterr, Lichao Wang, Fausto Milletari, Nassir Navab, Anika Böttcher, Heiko Lickert, Fabian J. Theis, Tingying Peng:
Mitosis Detection in Intestinal Crypt Images with Hough Forest and Conditional Random Fields. MLMI@MICCAI 2016: 287-295 - 2015
- [c82]Carolin Loos, Carsten Marr, Fabian J. Theis, Jan Hasenauer:
Approximate Bayesian Computation for Stochastic Single-Cell Time-Lapse Data Using Multivariate Test Statistics. CMSB 2015: 52-63 - [c81]Pauliina Ilmonen, Klaus Nordhausen, Hannu Oja, Fabian J. Theis:
An Affine Equivariant Robust Second-Order BSS Method. LVA/ICA 2015: 328-335 - [c80]Lichao Wang, Vasileios Belagiannis, Carsten Marr, Fabian J. Theis, Guang-Zhong Yang, Nassir Navab:
Anatomic-landmark detection using graphical context modelling. ISBI 2015: 1304-1307 - 2014
- [c79]Fabian Fröhlich, Fabian J. Theis, Jan Hasenauer:
Uncertainty Analysis for Non-identifiable Dynamical Systems: Profile Likelihoods, Bootstrapping and More. CMSB 2014: 61-72 - [c78]Fabian Fröhlich, Sabrina Hross, Fabian J. Theis, Jan Hasenauer:
Radial Basis Function Approximations of Bayesian Parameter Posterior Densities for Uncertainty Analysis. CMSB 2014: 73-85 - [c77]Valeriy Khakhutskyy, Michael Schwarzfischer, Nina C. Hubig, Claudia Plant, Carsten Marr, Michael A. Rieger, Timm Schroeder, Fabian J. Theis:
Centroid Clustering of Cellular Lineage Trees. ITBAM 2014: 15-29 - 2013
- [c76]Corinna Vehlow, Jan Hasenauer, Fabian J. Theis, Daniel Weiskopf:
Visualizing edge-edge relations in graphs. PacificVis 2013: 201-208 - 2012
- [c75]Klaus Nordhausen, Harold W. Gutch, Hannu Oja, Fabian J. Theis:
Joint Diagonalization of Several Scatter Matrices for ICA. LVA/ICA 2012: 172-179 - [c74]Harold W. Gutch, Fabian J. Theis:
To Infinity and Beyond: On ICA over Hilbert Spaces. LVA/ICA 2012: 180-187 - [c73]Sabine Hug, Fabian J. Theis:
Bayesian Inference of Latent Causes in Gene Regulatory Dynamics. LVA/ICA 2012: 520-527 - [c72]Fabian J. Theis:
Bayesian Fuzzy Clustering of Colored Graphs. LVA/ICA 2012: 528-535 - 2011
- [c71]Harold W. Gutch, Jan Krumsiek, Fabian J. Theis:
An ISA algorithm with unknown group sizes identifies meaningful clusters in metabolomics data. EUSIPCO 2011: 1733-1737 - 2010
- [c70]Anke Meyer-Bäse, Fabian J. Theis:
Robust Stability Analysis and Design Under Consideration of Multiple Feedback Loops in the Tryptophan Regulatory Network of E. coli. BIOCOMP 2010: 755-759 - [c69]Anke Meyer-Bäse, Claudia Plant, Susanne Cappendijk, Fabian J. Theis:
Robust Stability Analysis of Multi-Time Scale Genetic Regulatory Networks under Parametric Uncertainties. BIOCOMP 2010: 854-863 - [c68]Florian Blöchl, Mara L. Hartsperger, Volker Stümpflen, Fabian J. Theis:
Uncovering the Structure of Heterogenous Biological Data: Fuzzy Graph Partitioning in the k-partite Setting. GCB 2010: 31-40 - [c67]Shoko Araki, Alexey Ozerov, Vikrham Gowreesunker, Hiroshi Sawada, Fabian J. Theis, Guido Nolte, Dominik Lutter, Ngoc Q. K. Duong:
The 2010 Signal Separation Evaluation Campaign (SiSEC2010): Audio Source Separation. LVA/ICA 2010: 114-122 - [c66]Shoko Araki, Fabian J. Theis, Guido Nolte, Dominik Lutter, Alexey Ozerov, Vikrham Gowreesunker, Hiroshi Sawada, Ngoc Q. K. Duong:
The 2010 Signal Separation Evaluation Campaign (SiSEC2010): Biomedical Source Separation. LVA/ICA 2010: 123-130 - [c65]Claudia Plant, Fabian J. Theis, Anke Meyer-Bäse, Christian Böhm:
Information-Theoretic Model Selection for Independent Components. LVA/ICA 2010: 254-262 - [c64]Harold W. Gutch, Takanori Maehara, Fabian J. Theis:
Second Order Subspace Analysis and Simple Decompositions. LVA/ICA 2010: 370-377 - [c63]Florian Blöchl, Andreas Kowarsch, Fabian J. Theis:
Second-Order Source Separation Based on Prior Knowledge Realized in a Graph Model. LVA/ICA 2010: 434-441 - [c62]Fabian J. Theis, Nikola S. Müller, Claudia Plant, Christian Böhm:
Robust Second-Order Source Separation Identifies Experimental Responses in Biomedical Imaging. LVA/ICA 2010: 466-473 - [c61]Harold W. Gutch, Peter Gruber, Fabian J. Theis:
ICA over Finite Fields. LVA/ICA 2010: 645-652 - 2009
- [c60]Peter Gruber, Harold W. Gutch, Fabian J. Theis:
Hierarchical Extraction of Independent Subspaces of Unknown Dimensions. ICA 2009: 259-266 - [c59]Fabian J. Theis, Thomas P. Cason, Pierre-Antoine Absil:
Soft Dimension Reduction for ICA by Joint Diagonalization on the Stiefel Manifold. ICA 2009: 354-361 - [c58]Florian Blöchl, Fabian J. Theis:
Estimating Hidden Influences in Metabolic and Gene Regulatory Networks. ICA 2009: 387-394 - [c57]Fabian J. Theis, Richard A. Neher, Andre Zeug:
Blind Decomposition of Spectral Imaging Microscopy: A Study on Artificial and Real Test Data. ICA 2009: 548-556 - 2008
- [c56]Anke Meyer-Bäse, Fabian J. Theis:
Stochastic Stability Analysis of the Heat Shock Response in E. Coli. BIOCOMP 2008: 39-42 - [c55]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:
Effective Emission Tomography Image Reconstruction Algorithms for SPECT Data. ICCS (1) 2008: 741-748 - 2007
- [c54]Harold W. Gutch, Fabian J. Theis:
Independent Subspace Analysis Is Unique, Given Irreducibility. ICA 2007: 49-56 - [c53]Fabian J. Theis, Motoaki Kawanabe:
Colored Subspace Analysis. ICA 2007: 121-128 - [c52]Cédric Févotte, Fabian J. Theis:
Pivot Selection Strategies in Jacobi Joint Block-Diagonalization. ICA 2007: 177-184 - [c51]Peter Gruber, C. Kohler, Fabian J. Theis:
A Toolbox for Model-Free Analysis of fMRI Data. ICA 2007: 209-217 - [c50]Pando G. Georgiev, Fabian J. Theis, Anca L. Ralescu:
Identifiability Conditions and Subspace Clustering in Sparse BSS. ICA 2007: 357-364 - [c49]Reinhard Schachtner, Dominik Lutter, Fabian J. Theis, Elmar Wolfgang Lang, Ana Maria Tomé, Juan Manuel Górriz Sáez, Carlos García Puntonet:
Blind Matrix Decomposition Techniques to Identify Marker Genes from Microarrays. ICA 2007: 649-656 - [c48]Reinhard Schachtner, Dominik Lutter, Fabian J. Theis, Elmar Wolfgang Lang, Ana Maria Tomé, Gerd Schmitz:
Exploiting Blind Matrix Decomposition Techniques to Identify Diagnostic Marker Genes. ICANN (2) 2007: 80-89 - [c47]Kurt Stadlthanner, Fabian J. Theis, Elmar Wolfgang Lang, Ana Maria Tomé, Carlos García Puntonet:
Blind Matrix Decomposition Via Genetic Optimization of Sparseness and Nonnegativity Constraints. ICANN (1) 2007: 799-808 - [c46]J. Michael Herrmann, Fabian J. Theis:
Statistical Analysis of Sample-Size Effects in ICA. IDEAL 2007: 416-425 - [c45]Kurt Stadlthanner, Dominik Lutter, Fabian J. Theis, Elmar Wolfgang Lang, Ana Maria Tomé, Petia Georgieva, Carlos García Puntonet:
Sparse Nonnegative Matrix Factorization with Genetic Algorithms for Microarray Analysis. IJCNN 2007: 294-299 - 2006
- [c44]Peter Gruber, Fabian J. Theis:
Grassmann clustering. EUSIPCO 2006: 1-5 - [c43]Motoaki Kawanabe, Fabian J. Theis:
Estimating Non-Gaussian Subspaces by Characteristic Functions. ICA 2006: 157-164 - [c42]Kurt Stadlthanner, Fabian J. Theis, Elmar Wolfgang Lang, Ana Maria Tomé, Carlos García Puntonet, Pedro Gómez Vilda, Thomas Langmann, Gerd Schmitz:
Sparse Nonnegative Matrix Factorization Applied to Microarray Data Sets. ICA 2006: 254-261 - [c41]Fabian J. Theis, Motoaki Kawanabe:
Uniqueness of Non-Gaussian Subspace Analysis. ICA 2006: 917-925 - [c40]Fabian J. Theis, Toshihisa Tanaka:
Sparseness by Iterative Projections Onto Spheres. ICASSP (5) 2006: 709-712 - [c39]Toshihisa Tanaka, Yumi Murakami, Fabian J. Theis:
A Fast Predictive Lossless Coder for fMRI Data Sets. ICIP 2006: 2529-2532 - [c38]Ingo R. Keck, Jan Churan, Fabian J. Theis, Peter Gruber, Elmar Wolfgang Lang, Carlos García Puntonet:
Region of Interest Based Independent Component Analysis. ICONIP (1) 2006: 1048-1057 - [c37]Anke Meyer-Bäse, Vera Thümmler, Fabian J. Theis:
Stability Analysis of an Unsupervised Competitive Neural Network. IJCNN 2006: 1025-1028 - [c36]Stefano Squartini, Francesco Piazza, Fabian J. Theis:
New Riemannian metrics for speeding-up the convergence of over- and underdetermined ICA. ISCAS 2006 - [c35]Fabian J. Theis, Yujiro Inouye:
On the use of joint diagonalization in blind signal processing. ISCAS 2006 - [c34]Fabian J. Theis:
Towards a general independent subspace analysis. NIPS 2006: 1361-1368 - 2005
- [c33]Fabian J. Theis:
Multidimensional independent component analysis using characteristic functions. EUSIPCO 2005: 1-4 - [c32]Fabian J. Theis, Peter Gruber, Ingo R. Keck, Anke Meyer-Bäse, Elmar Wolfgang Lang:
Spatiotemporal blind source separation using double-sided approximate joint diagonalization. EUSIPCO 2005: 1-4 - [c31]Fabian J. Theis, Kurt Stadlthanner, Toshihisa Tanaka:
First results on uniqueness of sparse non-negative matrix factorization. EUSIPCO 2005: 1-4 - [c30]Matthias Böhm, Kurt Stadlthanner, Ana Maria Tomé, Peter Gruber, Ana R. Teixeira, Fabian J. Theis, Carlos García Puntonet, Elmar Wolfgang Lang:
AutoAssign - An Automatic Assignment Tool for Independent Components. IbPRIA (2) 2005: 75-82 - [c29]Juan Manuel Górriz Sáez, Javier Ramírez, Carlos García Puntonet, Fabian J. Theis, Elmar Wolfgang Lang:
Bispectrum-Based Statistical Tests for VAD. ICANN (2) 2005: 541-546 - [c28]Fabian J. Theis, Peter Gruber, Ingo R. Keck, Elmar Wolfgang Lang:
Functional MRI Analysis by a Novel Spatiotemporal ICA Algorithm. ICANN (1) 2005: 677-682 - [c27]Fabian J. Theis, Toshihisa Tanaka:
A Fast and Efficient Method for Compressing fMRI Data Sets. ICANN (2) 2005: 769-777 - [c26]Fabian J. Theis:
Blind signal separation into groups of dependent signals using joint block diagonalization. ISCAS (6) 2005: 5878-5881 - [c25]Kurt Stadlthanner, Fabian J. Theis, Carlos García Puntonet, Juan Manuel Górriz, Ana Maria Tomé, Elmar Wolfgang Lang:
Hybridizing Sparse Component Analysis with Genetic Algorithms for Blind Source Separation. ISBMDA 2005: 137-148 - [c24]Kurt Stadlthanner, Fabian J. Theis, Carlos García Puntonet, Elmar Wolfgang Lang:
Extended Sparse Nonnegative Matrix Factorization. IWANN 2005: 249-256 - [c23]Matthias Böhm, Kurt Stadlthanner, Elmar Wolfgang Lang, Ana Maria Tomé, Ana R. Teixeira, Fabian J. Theis, Carlos García Puntonet:
A Hybridization of Simulated Annealing and Local PCA for Automatic Component Assignment Within ICA. IWANN 2005: 1075-1082 - 2004
- [c22]Fabian J. Theis, Elmar Wolfgang Lang:
Linearization identification and an application to BSS using a SOM. ESANN 2004: 205-210 - [c21]Fabian J. Theis, Peter Gruber:
Separability of analytic postnonlinear blind source separation with bounded sources. ESANN 2004: 217-222 - [c20]Fabian J. Theis, Pando G. Georgiev, Andrzej Cichocki:
Robust overcomplete matrix recovery for sparse sources using a generalized Hough transform. ESANN 2004: 343-348 - [c19]Fabian J. Theis:
Uniqueness of real and complex linear independent component analysis revisited. EUSIPCO 2004: 1705-1708 - [c18]Pando G. Georgiev, Fabian J. Theis:
Blind Source Separation of Linear Mixtures with Singular Matrices. ICA 2004: 121-128 - [c17]Fabian J. Theis, Shun-ichi Amari:
Postnonlinear Overcomplete Blind Source Separation Using Sparse Sources. ICA 2004: 718-725 - [c16]Fabian J. Theis, Anke Meyer-Bäse, Elmar Wolfgang Lang:
Second-Order Blind Source Separation Based on Multi-dimensional Autocovariances. ICA 2004: 726-733 - [c15]Anke Meyer-Bäse, Fabian J. Theis, Oliver Lange, Carlos García Puntonet:
Tree-Dependent and Topographic Independent Component Analysis for fMRI Analysis. ICA 2004: 782-789 - [c14]Ingo R. Keck, Fabian J. Theis, Peter Gruber, Elmar Wolfgang Lang, Karsten Specht, Carlos García Puntonet:
3D Spatial Analysis of fMRI Data on a Word Perception Task. ICA 2004: 977-984 - [c13]Peter Gruber, Kurt Stadlthanner, Ana Maria Tomé, Ana R. Teixeira, Fabian J. Theis, Carlos García Puntonet, Elmar Wolfgang Lang:
Denoising Using Local ICA and a Generalized Eigendecomposition with Time-Delayed Signals. ICA 2004: 993-1000 - [c12]Pando G. Georgiev, Fabian J. Theis, Andrzej Cichocki:
Blind source separation and sparse component analysis of overcomplete mixtures. ICASSP (5) 2004: 493-496 - 2003
- [c11]Kurt Stadlthanner, Ana Maria Tomé, Fabian J. Theis, Wolfram Gronwald, Hans Robert Kalbitzer, Elmar Wolfgang Lang:
Removing water artefacts from 2D protein NMR spectra using GEVD with congruent matrix pencils. ISSPA (2) 2003: 85-88 - [c10]Fabian J. Theis, Dominik Hartl, Susanne Krauss-Etschmann, Elmar Wolfgang Lang:
Neural network signal analysis in immunology. ISSPA (2) 2003: 235-238 - [c9]Fabian J. Theis:
Mathematics in independent component analysis. ISSPA (2) 2003: 609-610 - [c8]Fabian J. Theis, Carlos García Puntonet, Elmar Wolfgang Lang:
An Improved Geometric Overcomplete Blind Source Separation Algorithm. IWANN (2) 2003: 265-272 - [c7]Kurt Stadlthanner, Ana Maria Tomé, Fabian J. Theis, Elmar Wolfgang Lang:
A Generalized Eigendecomposition Approach Using Matrix Pencils to Remove Artefacts from 2D NMR Spectra. IWANN (2) 2003: 575-582 - [c6]Fabian J. Theis, Carlos García Puntonet, Elmar Wolfgang Lang:
Generalizing Geometric ICA to Nonlinear Settings. IWANN (2) 2003: 687-694 - [c5]Fabian J. Theis, Manuel Rodríguez Álvarez, Carlos García Puntonet, Elmar Wolfgang Lang:
An Adaptive Approach to Blind Source Separation Using a Self-Organzing Map and a Neural Gas. IWANN (2) 2003: 695-702 - 2002
- [c4]Fabian J. Theis, Elmar Wolfgang Lang:
How to generalize geometric ICA to higher dimensions. ESANN 2002: 205-210 - [c3]Fabian J. Theis, Elmar Wolfgang Lang:
Geometric overcomplete ICA. ESANN 2002: 217-222 - [c2]Fabian J. Theis, Elmar Wolfgang Lang, Tobias Westenhuber, Carlos García Puntonet:
Overcomplete ICA with a Geometric Algorithm. ICANN 2002: 1049-1054 - 2001
- [c1]Fabian J. Theis, Christoph Bauer, Carlos García Puntonet, Elmar Wolfgang Lang:
Pattern Repulsion Revisited. IWANN (2) 2001: 778-785
Editorship
- 2019
- [e6]Igor V. Tetko, Vera Kurková, Pavel Karpov, Fabian J. Theis:
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. Lecture Notes in Computer Science 11727, Springer 2019, ISBN 978-3-030-30486-7 [contents] - [e5]Igor V. Tetko, Vera Kurková, Pavel Karpov, Fabian J. Theis:
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. Lecture Notes in Computer Science 11728, Springer 2019, ISBN 978-3-030-30483-6 [contents] - [e4]Igor V. Tetko, Vera Kurková, Pavel Karpov, Fabian J. Theis:
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. Lecture Notes in Computer Science 11729, Springer 2019, ISBN 978-3-030-30507-9 [contents] - [e3]Igor V. Tetko, Vera Kurková, Pavel Karpov, Fabian J. Theis:
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. Lecture Notes in Computer Science 11730, Springer 2019, ISBN 978-3-030-30489-8 [contents] - [e2]Igor V. Tetko, Vera Kurková, Pavel Karpov, Fabian J. Theis:
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. Lecture Notes in Computer Science 11731, Springer 2019, ISBN 978-3-030-30492-8 [contents] - 2012
- [e1]Fabian J. Theis, Andrzej Cichocki, Arie Yeredor, Michael Zibulevsky:
Latent Variable Analysis and Signal Separation - 10th International Conference, LVA/ICA 2012, Tel Aviv, Israel, March 12-15, 2012. Proceedings. Lecture Notes in Computer Science 7191, Springer 2012, ISBN 978-3-642-28550-9 [contents]
Informal and Other Publications
- 2024
- [i22]Manuel Tran, Amal Lahiani, Yashin Dicente Cid, Melanie Boxberg, Peter Lienemann, Christian Matek, Sophia J. Wagner, Fabian J. Theis, Eldad Klaiman, Tingying Peng:
B-Cos Aligned Transformers Learn Human-Interpretable Features. CoRR abs/2401.08868 (2024) - 2023
- [i21]Leon Hetzel, Johanna Sommer, Bastian Rieck, Fabian J. Theis, Stephan Günnemann:
MAGNet: Motif-Agnostic Generation of Molecules from Shapes. CoRR abs/2305.19303 (2023) - [i20]Johanna Sommer, Leon Hetzel, David Lüdke, Fabian J. Theis, Stephan Günnemann:
The power of motifs as inductive bias for learning molecular distributions. CoRR abs/2306.17246 (2023) - [i19]Hananeh Aliee, Ferdinand Kapl, Soroor Hediyeh-Zadeh, Fabian J. Theis:
Conditionally Invariant Representation Learning for Disentangling Cellular Heterogeneity. CoRR abs/2307.00558 (2023) - [i18]Dominik Klein, Théo Uscidda, Fabian J. Theis, Marco Cuturi:
Generative Entropic Neural Optimal Transport To Map Within and Across Spaces. CoRR abs/2310.09254 (2023) - [i17]Alejandro Tejada-Lapuerta, Paul Bertin, Stefan Bauer, Hananeh Aliee, Yoshua Bengio, Fabian J. Theis:
Causal machine learning for single-cell genomics. CoRR abs/2310.14935 (2023) - [i16]Jan P. Engelmann, Alessandro Palma, Jakub M. Tomczak, Fabian J. Theis, Francesco Paolo Casale:
Attention-based Multi-instance Mixed Models. CoRR abs/2311.02455 (2023) - [i15]Micaela E. Consens, Cameron Dufault, Michael Wainberg, Duncan Forster, Mehran Karimzadeh, Hani Goodarzi, Fabian J. Theis, Alan Moses, Bo Wang:
To Transformers and Beyond: Large Language Models for the Genome. CoRR abs/2311.07621 (2023) - [i14]Luca Eyring, Dominik Klein, Théo Uscidda, Giovanni Palla, Niki Kilbertus, Zeynep Akata, Fabian J. Theis:
Unbalancedness in Neural Monge Maps Improves Unpaired Domain Translation. CoRR abs/2311.15100 (2023) - 2022
- [i13]Leon Hetzel, Simon Böhm, Niki Kilbertus, Stephan Günnemann, Mohammad Lotfollahi, Fabian J. Theis:
Predicting single-cell perturbation responses for unseen drugs. CoRR abs/2204.13545 (2022) - [i12]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:
SystemMatch: optimizing preclinical drug models to human clinical outcomes via generative latent-space matching. CoRR abs/2205.07110 (2022) - [i11]Tobias Bernecker, Annette Peters, Christopher L. Schlett, Fabian Bamberg, Fabian J. Theis, Daniel Rueckert, Jakob Weiß, Shadi Albarqouni:
FedNorm: Modality-Based Normalization in Federated Learning for Multi-Modal Liver Segmentation. CoRR abs/2205.11096 (2022) - [i10]Valentin Koch, Olle G. Holmberg, Hannah Spitzer, Johannes Schiefelbein, Ben Asani, Michael Hafner, Fabian J. Theis:
Noise transfer for unsupervised domain adaptation of retinal OCT images. CoRR abs/2209.08097 (2022) - [i9]Hananeh Aliee, Till Richter, Mikhail Solonin, Ignacio Ibarra, Fabian J. Theis, Niki Kilbertus:
Sparsity in Continuous-Depth Neural Networks. CoRR abs/2210.14672 (2022) - [i8]Jan P. Engelmann, Leon Hetzel, Giovanni Palla, Lisa Sikkema, Malte Lücken, Fabian J. Theis:
Uncertainty Quantification for Atlas-Level Cell Type Transfer. CoRR abs/2211.03793 (2022) - 2021
- [i7]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:
A field guide to cultivating computational biology. CoRR abs/2104.11364 (2021) - [i6]Hananeh Aliee, Fabian J. Theis, Niki Kilbertus:
Beyond Predictions in Neural ODEs: Identification and Interventions. CoRR abs/2106.12430 (2021) - 2019
- [i5]Mohammad Lotfollahi, Mohsen Naghipourfar, Fabian J. Theis, F. Alexander Wolf:
Conditional out-of-sample generation for unpaired data using trVAE. CoRR abs/1910.01791 (2019) - [i4]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:
12 Grand Challenges in Single-Cell Data Science. PeerJ Prepr. 7: e27885 (2019) - 2016
- [i3]Gerda Bortsova, Michael Sterr, Lichao Wang, Fausto Milletari, Nassir Navab, Anika Böttcher, Heiko Lickert, Fabian J. Theis, Tingying Peng:
Mitosis Detection in Intestinal Crypt Images with Hough Forest and Conditional Random Fields. CoRR abs/1608.07616 (2016) - 2014
- [i2]Justin Feigelman, Fabian J. Theis, Carsten Marr:
MCA: Multiresolution Correlation Analysis, a graphical tool for subpopulation identification in single-cell gene expression data. CoRR abs/1407.2112 (2014) - 2011
- [i1]Daniel Grady, Rafael Brune, Christian Thiemann, Fabian J. Theis, Dirk Brockmann:
Modularity maximization and tree clustering: Novel ways to determine effective geographic borders. CoRR abs/1104.1200 (2011)
Coauthor Index
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