Activity-dependent modulation of adaptation produces a constant burst proportion in a model of the lamprey spinal locomotor generator. - M. Ullström; Jeanette Hellgren Kotaleski; Jesper Tegnér; Erik Aurell; Sten Grillner; Anders Lansner (Biol. Cybern., 1998)

Modulation of Burst Frequency by Calcium-Dependent Potassium Channels in the Lamprey Locomotor System: Dependence of the Activity Level. - Jesper Tegnér; Anders Lansner; Sten Grillner (J. Comput. Neurosci., 1998)

Control of burst proportion and frequency range by drive-dependent modulation of adaptation. - Jeanette Hellgren Kotaleski; Jesper Tegnér; Sten Grillner; Anders Lansner (Neurocomputing, 1999)

The synaptic NMDA component desynchronizes neural bursters. - Jesper Tegnér; Jeanette Hellgren Kotaleski (Neurocomputing, 1999)

Why Neuronal Dynamics Should Control Synaptic Learning Rules. - Jesper Tegnér; Ádám Kepecs (NIPS, 2001)

Spike-timing-dependent plasticity: common themes and divergent vistas. - Ádám Kepecs; Mark C. W. van Rossum; Sen Song; Jesper Tegnér (Biol. Cybern., 2002)

The dynamical stability of reverberatory neural circuits. - Jesper Tegnér; Albert Compte; Xiao-Jing Wang (Biol. Cybern., 2002)

An adaptive spike-timing-dependent plasticity rule. - Jesper Tegnér; Ádám Kepecs (Neurocomputing, 2002)

Modeling complex cellular networks - robust switching in the cell cycle ensures a piecewise linear reduction of the regulatory network. - Olivia Eriksson; Yishao Zhou; Jesper Tegnér (CDC, 2004)

Growing Bayesian network models of gene networks from seed genes. - José M. Peña 001; Johan Björkegren; Jesper Tegnér (ECCB/JBI, 2005)

Scalable, Efficient and Correct Learning of Markov Boundaries Under the Faithfulness Assumption. - José M. Peña 001; Johan Björkegren; Jesper Tegnér (ECSQARU, 2005)

Learning dynamic Bayesian network models via cross-validation. - José M. Peña 001; Johan Björkegren; Jesper Tegnér (Pattern Recognit. Lett., 2005)

Evaluating Feature Selection for SVMs in High Dimensions. - Roland Nilsson; José M. Peña 001; Johan Björkegren; Jesper Tegnér (ECML, 2006)

Reading Dependencies from the Minimal Undirected Independence Map of a Graphoid that Satisfies Weak Transitivity. - José M. Peña 001; Roland Nilsson; Johan Björkegren; Jesper Tegnér (Probabilistic Graphical Models, 2006)

Identifying the Relevant Nodes Without Learning the Model. - José M. Peña 001; Roland Nilsson; Johan Björkegren; Jesper Tegnér (UAI, 2006)

Detection of compound mode of action by computational integration of whole-genome measurements and genetic perturbations. - Kristofer Hallén; Johan Björkegren; Jesper Tegnér (BMC Bioinform., 2006)

Neuronal firing rates account for distractor effects on mnemonic accuracy in a visuo-spatial working memory task. - Julian Macoveanu; Torkel Klingberg; Jesper Tegnér (Biol. Cybern., 2007)

Detecting multivariate differentially expressed genes. - Roland Nilsson; José M. Peña 001; Johan Björkegren; Jesper Tegnér (BMC Bioinform., 2007)

Towards scalable and data efficient learning of Markov boundaries. - José M. Peña 001; Roland Nilsson; Johan Björkegren; Jesper Tegnér (Int. J. Approx. Reason., 2007)

Consistent Feature Selection for Pattern Recognition in Polynomial Time. - Roland Nilsson; José M. Peña 001; Johan Björkegren; Jesper Tegnér (J. Mach. Learn. Res., 2007)

Stronger Synaptic Connectivity as a Mechanism behind Development of Working Memory-related Brain Activity during Childhood. - Fredrik Edin; Julian Macoveanu; Pernille Olesen; Jesper Tegnér; Torkel Klingberg (J. Cogn. Neurosci., 2007)

Networks in Biology - From Identification, Analysis to Interpretation. - Jesper Tegnér (GD, 2008)

Electrotonic Signals along Intracellular Membranes May Interconnect Dendritic Spines and Nucleus. - Isaac Shemer; Björn Brinne; Jesper Tegnér; Sten Grillner (PLoS Comput. Biol., 2008)

On reliable discovery of molecular signatures. - Roland Nilsson; Johan Björkegren; Jesper Tegnér (BMC Bioinform., 2009)

Computational disease modeling - fact or fiction? - Jesper Tegnér; Albert Compte; Charles Auffray; Gary An; Gunnar Cedersund; Gilles Clermont; Boris S. Gutkin; Zoltán N. Oltvai; Klaas Enno Stephan; Randy Thomas; Pablo Villoslada (BMC Syst. Biol., 2009)

An Algorithm for Reading Dependencies from the Minimal Undirected Independence Map of a Graphoid that Satisfies Weak Transitivity. - José M. Peña 001; Roland Nilsson; Johan Björkegren; Jesper Tegnér (J. Mach. Learn. Res., 2009)

ParkDB: a Parkinson's disease gene expression database. - Cristian Taccioli; Vincenza Maselli; Jesper Tegnér; David Gomez-Cabrero; Gioia Altobelli; Warren Emmett; Francesco Lescai; Stefano Gustincich; Elia Stupka (Database J. Biol. Databases Curation, 2011)

Decoding complex biological networks - tracing essential and modulatory parameters in complex and simplified models of the cell cycle. - Olivia Eriksson; Tom Andersson; Yishao Zhou; Jesper Tegnér (BMC Syst. Biol., 2011)

Algorithmic complexity of motifs clusters superfamilies of networks. - Hector Zenil; Narsis Aftab Kiani; Jesper Tegnér (BIBM, 2013)

Testing Biological Models for Non-linear Sensitivity with a Programmability Test. - Hector Zenil; Gordon Ball; Jesper Tegnér (ECAL, 2013)

A beta-mixture quantile normalization method for correcting probe design bias in Illumina Infinium 450 k DNA methylation data. - Andrew E. Teschendorff; Francesco Marabita; Matthias Lechner; Thomas E. Bartlett; Jesper Tegnér; David Gomez-Cabrero; Stephan Beck 002 (Bioinform., 2013)

Data integration in the era of omics: current and future challenges. - David Gomez-Cabrero; Imad Abugessaisa; Dieter Maier; Andrew E. Teschendorff; Matthias Merkenschlager; Andreas Gisel; Esteban Ballestar; Erik Bongcam-Rudloff; Ana Conesa; Jesper Tegnér (BMC Syst. Biol., 2014)

STATegra EMS: an Experiment Management System for complex next-generation omics experiments. - Rafael Hernández-de-Diego; Noemi Boix-Chova; David Gomez-Cabrero; Jesper Tegnér; Imad Abugessaisa; Ana Conesa (BMC Syst. Biol., 2014)

Numerical Investigation of Graph Spectra and Information Interpretability of Eigenvalues. - Hector Zenil; Narsis Aftab Kiani; Jesper Tegnér (IWBBIO (2), 2015)

Topological Evaluation of Methods for Reconstruction of Genetic Regulatory Networks. - Jakub Olczak; Narsis Aftab Kiani; Hector Zenil; Jesper Tegnér (SITIS, 2015)

The Information-theoretic and Algorithmic Approach to Human, Animal and Artificial Cognition. - Nicolas Gauvrit; Hector Zenil; Jesper Tegnér (CoRR, 2015)

Evaluating Network Inference Methods in Terms of Their Ability to Preserve the Topology and Complexity of Genetic Networks. - Narsis Aftab Kiani; Hector Zenil; Jakub Olczak; Jesper Tegnér (CoRR, 2015)

Approximations of Algorithmic and Structural Complexity Validate Cognitive-behavioural Experimental Results. - Hector Zenil; James A. R. Marshall; Jesper Tegnér (CoRR, 2015)

Causality, Programmability and Information Biology. - Héctor Zenil; Angelika Schmidt; Jesper Tegnér (CoRR, 2015)

Normalization of circulating microRNA expression data obtained by quantitative real-time RT-PCR. - Francesco Marabita; Paola de Candia; Anna Torri; Jesper Tegnér; Sergio Abrignani; Riccardo L. Rossi (Briefings Bioinform., 2016)

From comorbidities of chronic obstructive pulmonary disease to identification of shared molecular mechanisms by data integration. - David Gomez-Cabrero; Jörg Menche; Claudia Vargas; Isaac Cano; Dieter Maier; Albert-László Barabási; Jesper Tegnér; Josep Roca (BMC Bioinform., 2016)

Quantifying loss of information in network-based dimensionality reduction techniques. - Hector Zenil; Narsis Aftab Kiani; Jesper Tegnér (J. Complex Networks, 2016)

HiDi: an efficient reverse engineering schema for large-scale dynamic regulatory network reconstruction using adaptive differentiation. - Yue Deng 008; Hector Zenil; Jesper Tegnér; Narsis Aftab Kiani (Bioinform., 2017)

An Algorithmic Information Calculus for Causal Discovery and Reprogramming Systems. - Hector Zenil; Narsis Aftab Kiani; Francesco Marabita; Yue Deng 008; Szabolcs Elias; Angelika Schmidt; Gordon Ball; Jesper Tegnér (CoRR, 2017)

SCENERY: a web application for (causal) network reconstruction from cytometry data. - Giorgos Papoutsoglou; Giorgos Athineou; Vincenzo Lagani; Iordanis Xanthopoulos; Angelika Schmidt; Szabolcs Elias; Jesper Tegnér; Ioannis Tsamardinos (Nucleic Acids Res., 2017)

Dynamics and heterogeneity of brain damage in multiple sclerosis. - Ekaterina Kotelnikova; Narsis Aftab Kiani; Elena Abad; Elena H. Martinez-Lapiscina; Magí Andorrà; Irati Zubizarreta; Irene Pulido-Valdeolivas; Inna Pertsovskaya; Leonidas G. Alexopoulos; Tomas Olsson; Roland Martin; Friedemann Paul; et al. (PLoS Comput. Biol., 2017)

Synthesizing New Retinal Symptom Images by Multiple Generative Models. - Yi-Chieh Liu; Hao-Hsiang Yang; Chao-Han Huck Yang; Jia-Hong Huang; Meng Tian 002; Hiromasa Morikawa; Yi-Chang James Tsai; Jesper Tegnér (ACCV Workshops, 2018)

Auto-classification of Retinal Diseases in the Limit of Sparse Data Using a Two-Streams Machine Learning Model. - Chao-Han Huck Yang; Fangyu Liu 001; Jia-Hong Huang; Meng Tian 002; I-Hung Lin; Yi-Chieh Liu; Hiromasa Morikawa; Hao-Hsiang Yang; Jesper Tegnér (ACCV Workshops, 2018)

Parameter-free Network Sparsification and Data Reduction by Minimal Algorithmic Information Loss. - Hector Zenil; Narsis Aftab Kiani; Jesper Tegnér (CoRR, 2018)

Algorithmic Information Dynamics of Persistent Patterns and Colliding Particles in the Game of Life. - Hector Zenil; Narsis Aftab Kiani; Jesper Tegnér (CoRR, 2018)

Ab initio Algorithmic Causal Deconvolution of Intertwined Programs and Networks by Generative Mechanism. - Hector Zenil; Narsis Aftab Kiani; Jesper Tegnér (CoRR, 2018)

Symmetry and Algorithmic Complexity of Polyominoes and Polyhedral Graphs. - Hector Zenil; Narsis Aftab Kiani; Jesper Tegnér (CoRR, 2018)

An Algorithmic Refinement of Maxent Induces a Thermodynamic-like Behaviour in the Reprogrammability of Generative Mechanisms. - Hector Zenil; Narsis Aftab Kiani; Jesper Tegnér (CoRR, 2018)

A Novel Hybrid Machine Learning Model for Auto-Classification of Retinal Diseases. - Chao-Han Huck Yang; Jia-Hong Huang; Fangyu Liu 001; Fang-Yi Chiu; Mengya Gao; Weifeng Lyu; I-Hung Lin; Jesper Tegnér (CoRR, 2018)

Learning Functions in Large Networks requires Modularity and produces Multi-Agent Dynamics. - Chao-Han Huck Yang; Rise Ooi; Tom Hiscock; Víctor M. Eguíluz; Jesper Tegnér (CoRR, 2018)

Auto-Classification of Retinal Diseases in the Limit of Sparse Data Using a Two-Streams Machine Learning Model. - Chao-Han Huck Yang; Fangyu Liu 001; Jia-Hong Huang; Meng Tian 002; Yi-Chieh Liu; I-Hung Lin; Jesper Tegnér (CoRR, 2018)

Controllability, Multiplexing, and Transfer Learning in Networks using Evolutionary Learning. - Rise Ooi; Chao-Han Huck Yang; Pin-Yu Chen; Víctor M. Eguíluz; Narsis Aftab Kiani; Hector Zenil; David Gomez-Cabrero; Jesper Tegnér (CoRR, 2018)

A Decomposition Method for Global Evaluation of Shannon Entropy and Local Estimations of Algorithmic Complexity. - Hector Zenil; Santiago Hernández-Orozco; Narsis Aftab Kiani; Fernando Soler-Toscano; Antonio Rueda-Toicen; Jesper Tegnér (Entropy, 2018)

Symmetry and Correspondence of Algorithmic Complexity over Geometric, Spatial and Topological Representations. - Hector Zenil; Narsis Aftab Kiani; Jesper Tegnér (Entropy, 2018)

A Review of Graph and Network Complexity from an Algorithmic Information Perspective. - Hector Zenil; Narsis Aftab Kiani; Jesper Tegnér (Entropy, 2018)

Algorithmic Complexity and Reprogrammability of Chemical Structure Networks. - Hector Zenil; Narsis Aftab Kiani; Ming-Mei Shang; Jesper Tegnér (Parallel Process. Lett., 2018)

Algorithmic Information Dynamics of Emergent, Persistent, and Colliding Particles in the Game of Life. - Hector Zenil; Narsis Aftab Kiani; Jesper Tegnér (From Parallel to Emergent Computing, 2019)

Algorithmic Probability-guided Supervised Machine Learning on Non-differentiable Spaces. - Santiago Hernández-Orozco; Hector Zenil; Jürgen Riedel; Adam Uccello; Narsis Aftab Kiani; Jesper Tegnér (CoRR, 2019)

The Thermodynamics of Network Coding, and an Algorithmic Refinement of the Principle of Maximum Entropy. - Hector Zenil; Narsis Aftab Kiani; Jesper Tegnér (Entropy, 2019)

Causal deconvolution by algorithmic generative models. - Hector Zenil; Narsis Aftab Kiani; Allan A. Zea; Jesper Tegnér (Nat. Mach. Intell., 2019)

Building gene regulatory networks from scATAC-seq and scRNA-seq using Linked Self Organizing Maps. - Camden Jansen; Ricardo N. Ramirez; Nicole C. El-Ali; David Gomez-Cabrero; Jesper Tegnér; Matthias Merkenschlager; Ana Conesa; Ali Mortazavi (PLoS Comput. Biol., 2019)

Evolving Neural Networks through a Reverse Encoding Tree. - Haoling Zhang; Chao-Han Huck Yang; Hector Zenil; Narsis Aftab Kiani; Yue Shen; Jesper N. Tegnér (CEC, 2020)

Interpretable Self-Attention Temporal Reasoning for Driving Behavior Understanding. - Yi-Chieh Liu; Yung-An Hsieh; Min-Hung Chen; Chao-Han Huck Yang; Jesper Tegnér; Yi-Chang James Tsai (ICASSP, 2020)

Algorithmic Probability-Guided Machine Learning on Non-Differentiable Spaces. - Santiago Hernández-Orozco; Hector Zenil; Jürgen Riedel; Adam Uccello; Narsis Aftab Kiani; Jesper Tegnér (Frontiers Artif. Intell., 2020)

Algorithmic Information Dynamics. - Hector Zenil; Narsis Aftab Kiani; Felipe S. Abrahão; Jesper Tegnér (Scholarpedia, 2020)

VLG-Net: Video-Language Graph Matching Network for Video Grounding. - Mattia Soldan; Mengmeng Xu; Sally Sisi Qu; Jesper Tegnér; Bernard Ghanem (ICCVW, 2021)

DeepOpht: Medical Report Generation for Retinal Images via Deep Models and Visual Explanation. - Jia-Hong Huang; Chao-Han Huck Yang; Fangyu Liu 001; Meng Tian 002; Yi-Chieh Liu; Ting-Wei Wu; I-Hung Lin; Kang Wang; Hiromasa Morikawa; Hernghua Chang; Jesper Tegnér; Marcel Worring (WACV, 2021)

DeepViral: prediction of novel virus-host interactions from protein sequences and infectious disease phenotypes. - Wang Liu-Wei; Senay Kafkas; Jun Chen 021; Nicholas J. Dimonaco; Jesper Tegnér; Robert Hoehndorf (Bioinform., 2021)

Non-local Attention Improves Description Generation for Retinal Images. - Jia-Hong Huang; Ting-Wei Wu; Chao-Han Huck Yang; Zenglin Shi; I-Hung Lin; Jesper Tegnér; Marcel Worring (WACV, 2022)

Approximations of algorithmic and structural complexity validate cognitive-behavioral experimental results. - Hector Zenil; James A. R. Marshall; Jesper Tegnér (Frontiers Comput. Neurosci., 2022)

Whispering LLaMA: A Cross-Modal Generative Error Correction Framework for Speech Recognition. - Srijith Radhakrishnan; Chao-Han Huck Yang; Sumeer Ahmad Khan; Rohit Kumar; Narsis A. Kiani; David Gomez-Cabrero; Jesper Tegnér (EMNLP, 2023)

A Parameter-Efficient Learning Approach to Arabic Dialect Identification with Pre-Trained General-Purpose Speech Model. - Srijith Radhakrishnan; Chao-Han Huck Yang; Sumeer Ahmad Khan; Narsis A. Kiani; David Gomez-Cabrero; Jesper N. Tegnér (INTERSPEECH, 2023)

The Future of Fundamental Science Led by Generative Closed-Loop Artificial Intelligence. - Hector Zenil; Jesper Tegnér; Felipe S. Abrahão; Alexander Lavin; Vipin Kumar 001; Jeremy G. Frey; Adrian Weller; Larisa N. Soldatova; Alan R. Bundy; Nicholas R. Jennings; Koichi Takahashi; Lawrence Hunter; et al. (CoRR, 2023)

Translating single-cell genomics into cell types. - Jesper N. Tegnér (Nat. Mac. Intell., 2023)

LIBRA: an adaptative integrative tool for paired single-cell multi-omics data. - Xabier Martinez de Morentin; Sumeer Ahmad Khan; Robert Lehmann 002; Sally Sisi Qu; Alberto Maillo; Narsis A. Kiani; Felipe Prósper; Jesper Tegnér; David Gomez-Cabrero (Quant. Biol., 2023)

Reusability report: Learning the transcriptional grammar in single-cell RNA-sequencing data using transformers. - Sumeer Ahmad Khan; Alberto Maillo; Vincenzo Lagani; Robert Lehmann 002; Narsis A. Kiani; David Gomez-Cabrero; Jesper Tegnér (Nat. Mac. Intell., 2023)

Assembly Theory is an approximation to algorithmic complexity based on LZ compression that does not explain selection or evolution. - Felipe S. Abrahão; Santiago Hernández-Orozco; Narsis A. Kiani; Jesper Tegnér; Hector Zenil (CoRR, 2024)

T- Hop: A framework for studying the importance path information in molecular graphs for chemical property prediction. - Abdulrahman Ibraheem; Narsis A. Kiani; Jesper Tegnér (CoRR, 2024)

Assembly Theory Reduced to Shannon Entropy and Rendered Redundant by Naive Statistical Algorithms. - Luan Ozelim; Abicumaran Uthamacumaran; Felipe S. Abrahão; Santiago Hernández-Orozco; Narsis A. Kiani; Jesper Tegnér; Hector Zenil (CoRR, 2024)

Leveraging Pre-Trained Neural Networks to Enhance Machine Learning with Variational Quantum Circuits. - Jun Qi 002; Chao-Han Huck Yang; Samuel Yen-Chi Chen; Pin-Yu Chen; Hector Zenil; Jesper Tegnér (CoRR, 2024)

Latent space arithmetic on data embeddings from healthy multi-tissue human RNA-seq decodes disease modules. - Hendrik A. de Weerd; Dimitri Guala; Mika Gustafsson; Jane Synnergren; Jesper Tegnér; Zelmina Lubovac-Pilav; Rasmus Magnusson (Patterns, 2024)

ClustAll: An R package for patient stratification in complex diseases. - Asier Ortega-Legarreta; Sara Palomino-Echeverria; Estefania Huergo; Vincenzo Lagani; Narsis A. Kiani; Pierre-Emmanuel Rautou; Nuria Planell-Picola; Jesper Tegnér; David Gomez-Cabrero (PLoS Comput. Biol., 2024)

Interpretable Causal Representation Learning for Biological Data in the Pathway Space. - Jesus de la Fuente Cedeño; Robert Lehmann 002; Carlos Ruiz-Arenas; Jan Voges; Irene Marín-Goñi; Xabier Martinez de Morentin; David Gomez-Cabrero; Idoia Ochoa; Jesper Tegnér; Vincenzo Lagani; Mikel Hernaez (ICLR, 2025)

Minimal algorithmic information loss methods for dimension reduction, feature selection and network sparsification. - Hector Zenil; Narsis A. Kiani; Alyssa M. Adams; Felipe S. Abrahão; Antonio Rueda-Toicen; Allan A. Zea; Luan Ozelim; Jesper Tegnér (Inf. Sci., 2025)

Advancing the Scientific Method with Large Language Models: From Hypothesis to Discovery. - Yanbo Zhang; Sumeer Ahmad Khan; Adnan Mahmud; Huck Yang; Alexander Lavin; Michael Levin 001; Jeremy G. Frey; Jared Dunnmon; James A. Evans; Alan R. Bundy; Saso Dzeroski; Jesper Tegnér; et al. (CoRR, 2025)