An attractor neural network model of semantic fact retrieval. - Marius Usher; Eytan Ruppin (IJCNN, 1990)

An Attractor Neural Network Model of Recall and Recognition. - Eytan Ruppin; Yehezkel Yeshurun (NIPS, 1990)

History-Dependent Attractor Neural Networks. - Isaac Meilijson; Eytan Ruppin (NIPS, 1992)

Single-Iteration Threshold Hamming Networks. - Isaac Meilijson; Eytan Ruppin; Moshe Sipper (NIPS, 1992)

Optimal Signalling in Attractor Neural Networks. - Isaac Meilijson; Eytan Ruppin (NIPS, 1993)

A neural model of the dynamic activation of memory. - Michael Herrmann; Eytan Ruppin; Marius Usher (Biol. Cybern., 1993)

Examining the volume efficiency of the cortical architecture in a multi-processor network model. - Eytan Ruppin; Eric L. Schwartz; Yehezkel Yeshurun (Biol. Cybern., 1993)

Neural Network Modeling of Memory Deterioration in Alzheimer's Disease. - David Horn 001; Eytan Ruppin; Marius Usher; Michael Herrmann (Neural Comput., 1993)

Neural modeling of Memory processes in normal and pathological States - Eytan Ruppin (1993)

Patterns of damage in neural networks: The effects of lesion area, shape and number. - Eytan Ruppin; James A. Reggia (NIPS, 1994)

A Neural Model of Delusions and Hallucinations in Schizophrenia. - Eytan Ruppin; James A. Reggia; David Horn 001 (NIPS, 1994)

Compensatory mechanisms in an attractor neural network model of schizophrenia. - David Horn 001; Eytan Ruppin (Neural Comput., 1995)

Patterns of functional damage in neural network models of associative memory. - Eytan Ruppin; James A. Reggia (Neural Comput., 1995)

A single-iteration threshold Hamming network. - Isaac Meilijson; Eytan Ruppin; Moshe Sipper (IEEE Trans. Neural Networks, 1995)

Co-Evolving Cellular Architectures by Cellular Programming. - Moshe Sipper; Eytan Ruppin (International Conference on Evolutionary Computation, 1996)

Optimal firing in sparsely-connected low-activity attractor networks. - Isaac Meilijson; Eytan Ruppin (Biol. Cybern., 1996)

Frequency-Spatial Transformation: A Proposal for Parsimonious Intra-Cortical Communication. - Regev Levi; Eytan Ruppin; Yossi Matias; James A. Reggia (Int. J. Neural Syst., 1996)

Neuronal-Based Synaptic Compensation: A Computational Study in Alzheimer's Disease. - David Horn 001; Nir Levy; Eytan Ruppin (Neural Comput., 1996)

On Parallel versus Serial Processing: A Computational Study of Visual Search. - Eyal Cohen; Eytan Ruppin (NIPS, 1997)

Multi-modular Associative Memory. - Nir Levy; David Horn 001; Eytan Ruppin (NIPS, 1997)

Fast computation in hamming and hopfield networks. - Isaac Meilijson; Eytan Ruppin; Moshe Sipper (Algorithms and Architectures, 1998)

Neuronal Regulation Implements Efficient Synaptic Pruning. - Gal Chechik; Isaac Meilijson; Eytan Ruppin (NIPS, 1998)

Seeking order in disorder: computational studies of neurologic and psychiatric diseases. - Eytan Ruppin; James A. Reggia (Artif. Intell. Medicine, 1998)

Synaptic Pruning In Development: A Computational Account. - Gal Chechik; Isaac Meilijson; Eytan Ruppin (Neural Comput., 1998)

Synaptic Runaway In Associative Networks And The Pathogenesis Of Schizophrenia. - Asnat Greenstein-Messica; Eytan Ruppin (Neural Comput., 1998)

Memory Maintenance via Neuronal Regulation. - David Horn 001; Nir Levy; Eytan Ruppin (Neural Comput., 1998)

Spontaneous Evolution of Command Neurons, Place Cells and Memory Mechanisms in Autonomous Agents. - Ranit Aharonov-Barki; Tuvik Beker; Eytan Ruppin (ECAL, 1999)

Effective Learning Requires Neuronal Remodeling of Hebbian Synapses. - Gal Chechik; Isaac Meilijson; Eytan Ruppin (NIPS, 1999)

Distributed Synchrony of Spiking Neurons in a Hebbian Cell Assembly. - David Horn 001; Nir Levy; Isaac Meilijson; Eytan Ruppin (NIPS, 1999)

Pathogenic mechanisms in ischemic damage: a computational study. - Eytan Ruppin; Elad Ofer; James A. Reggia; Kenneth Revett; Sharon Goodall (Comput. Biol. Medicine, 1999)

Neuronal regulation: A biologically plausible mechanism for efficient synaptic pruning in development. - Gal Chechik; Isaac Meilijson; Eytan Ruppin (Neurocomputing, 1999)

The importance of nonlinear dendritic processing in multimodular memory networks. - David Horn 001; Nir Levy; Eytan Ruppin (Neurocomputing, 1999)

Neuronal Regulation: A Mechanism for Synaptic Pruning During Brain Maturation. - Gal Chechik; Isaac Meilijson; Eytan Ruppin (Neural Comput., 1999)

Associative Memory in a Multimodular Network. - Nir Levy; David Horn 001; Eytan Ruppin (Neural Comput., 1999)

Who Does What? A Novel Algorithm to Determine Function Localization. - Ranit Aharonov-Barki; Isaac Meilijson; Eytan Ruppin (NIPS, 2000)

Neuronal normalization provides effective learning through ineffective synaptic learning rules. - Gal Chechik; Isaac Meilijson; Eytan Ruppin (Neurocomputing, 2000)

Global vs. local processing of compressed representations: A computational model of visual search. - Eyal Cohen; Nir Levy; Eytan Ruppin (Neurocomputing, 2000)

Distributed synchrony in an attractor of spiking neurons. - David Horn 001; Nir Levy; Eytan Ruppin (Neurocomputing, 2000)

Understanding the Agent's Brain: A Quantitative Approach. - Ranit Aharonov-Barki; Isaac Meilijson; Eytan Ruppin (ECAL, 2001)

Evolution of Reinforcement Learning in Uncertain Environments: Emergence of Risk-Aversion and Matching. - Yael Niv; Daphna Joel; Isaac Meilijson; Eytan Ruppin (ECAL, 2001)

Emerging command neuron circuitry in evolved autonomous agents. - Tuvik Beker; Ranit Aharonov-Barki; Eytan Ruppin (Neurocomputing, 2001)

Emergence of Memory-Driven Command Neurons in Evolved Artificial Agents. - Ranit Aharonov-Barki; Tuvik Beker; Eytan Ruppin (Neural Comput., 2001)

Effective Neuronal Learning with Ineffective Hebbian Learning Rules. - Gal Chechik; Isaac Meilijson; Eytan Ruppin (Neural Comput., 2001)

Distributed synchrony in a cell assembly of spiking neurons. - Nir Levy; David Horn 001; Isaac Meilijson; Eytan Ruppin (Neural Networks, 2001)

Automatic Acquisition and Efficient Representation of Syntactic Structures. - Zach Solan; Eytan Ruppin; David Horn 001; Shimon Edelman (NIPS, 2002)

Evolution of Reinforcement Learning in Uncertain Environments: A Simple Explanation for Complex Foraging Behaviors. - Yael Niv; Daphna Joel; Isaac Meilijson; Eytan Ruppin (Adapt. Behav., 2002)

Evolution of reinforcement learning in foraging bees: a simple explanation for risk averse behavior. - Yael Niv; Daphna Joel; Isaac Meilijson; Eytan Ruppin (Neurocomputing, 2002)

Actor-critic models of the basal ganglia: new anatomical and computational perspectives. - Daphna Joel; Yael Niv; Eytan Ruppin (Neural Networks, 2002)

Placing search in context: the concept revisited. - Lev Finkelstein; Evgeniy Gabrilovich; Yossi Matias; Ehud Rivlin; Zach Solan; Gadi Wolfman; Eytan Ruppin (ACM Trans. Inf. Syst., 2002)

Are There Representations in Embodied Evolved Agents? Taking Measures. - Hezi Avraham; Gal Chechik; Eytan Ruppin (ECAL, 2003)

Evolutionary Network Minimization: Adaptive Implicit Pruning of Successful Agents. - Zohar Ganon; Alon Keinan; Eytan Ruppin (ECAL, 2003)

Solving a Delayed Response Task with Spiking. - Keren Saggie; Alon Keinan; Eytan Ruppin (ECAL, 2003)

Unsupervised Context Sensitive Language Acquisition from a Large Corpus. - Zach Solan; David Horn 001; Eytan Ruppin; Shimon Edelman (NIPS, 2003)

Evolving Small Neurocontrollers with Self-Organized Compact Encoding. - Shlomy Boshy; Eytan Ruppin (Artif. Life, 2003)

High-Dimensional Analysis of Evolutionary Autonomous Agents. - Lior Segev; Ranit Aharonov-Barki; Isaac Meilijson; Eytan Ruppin (Artif. Life, 2003)

Localization of Function via Lesion Analysis. - Ranit Aharonov-Barki; Lior Segev; Isaac Meilijson; Eytan Ruppin (Neural Comput., 2003)

Multi-Knockout Genetic Network Analysis: The Rad6 Example. - Alon Kaufman; Martin Kupiec; Eytan Ruppin (CSB, 2004)

Causal localization of neural function: the Shapley value method. - Alon Keinan; Claus C. Hilgetag; Isaac Meilijson; Eytan Ruppin (Neurocomputing, 2004)

Spikes that count: rethinking spikiness in neurally embedded systems. - Keren Saggie; Alon Keinan; Eytan Ruppin (Neurocomputing, 2004)

Fair Attribution of Functional Contribution in Artificial and Biological Networks. - Alon Keinan; Ben Sandbank; Claus C. Hilgetag; Isaac Meilijson; Eytan Ruppin (Neural Comput., 2004)

Fair localization of function via multi-lesion analysis. - Alon Keinan; Alon Kaufman; Nadia Sachs; Claus C. Hilgetag; Eytan Ruppin (Neuroinformatics, 2004)

Motif Extraction and Protein Classification. - Vered Kunik; Zach Solan; Shimon Edelman; Eytan Ruppin; David Horn 001 (CSB, 2005)

Feature Selection Based on the Shapley Value. - Shay B. Cohen; Eytan Ruppin; Gideon Dror (IJCAI, 2005)

Comparison of Protein-Protein Interaction Confidence Assignment Schemes. - Silpa Suthram; Tomer Shlomi; Eytan Ruppin; Roded Sharan; Trey Ideker (Systems Biology and Regulatory Genomics, 2005)

The evolution of imitation and mirror neurons in adaptive agents. - Elhanan Borenstein; Eytan Ruppin (Cogn. Syst. Res., 2005)

Quantitative Analysis of Genetic and Neuronal Multi-Perturbation Experiments. - Alon Kaufman; Alon Keinan; Isaac Meilijson; Martin Kupiec; Eytan Ruppin (PLoS Comput. Biol., 2005)

Unsupervised learning of natural languages. - Zach Solan; David Horn 001; Eytan Ruppin; Shimon Edelman (Proc. Natl. Acad. Sci. USA, 2005)

Inferring Functional Pathways from Multi-Perturbation Data. - Nir Yosef; Alon Kaufman; Eytan Ruppin (ISMB (Supplement of Bioinformatics), 2006)

A Humanlike Predictor of Facial Attractiveness. - Amit Kagian; Gideon Dror; Tommer Leyvand; Daniel Cohen-Or; Eytan Ruppin (NIPS, 2006)

Flux-Based vs. Topology-Based Similarity of Metabolic Genes. - Oleg Rokhlenko; Tomer Shlomi; Roded Sharan; Eytan Ruppin; Ron Y. Pinter (WABI, 2006)

Neurocontroller Analysis via Evolutionary Network Minimization. - Zohar Ganon; Alon Keinan; Eytan Ruppin (Artif. Life, 2006)

Axiomatic Scalable Neurocontroller Analysis via the Shapley Value. - Alon Keinan; Ben Sandbank; Claus C. Hilgetag; Isaac Meilijson; Eytan Ruppin (Artif. Life, 2006)

Neural Processing of Counting in Evolved Spiking and McCulloch-Pitts Agents. - Keren Saggie-Wexler; Alon Keinan; Eytan Ruppin (Artif. Life, 2006)

QPath: a method for querying pathways in a protein-protein interaction network. - Tomer Shlomi; Daniel Segal; Eytan Ruppin; Roded Sharan (BMC Bioinform., 2006)

A direct comparison of protein interaction confidence assignment schemes. - Silpa Suthram; Tomer Shlomi; Eytan Ruppin; Roded Sharan; Trey Ideker (BMC Bioinform., 2006)

Facial Attractiveness: Beauty and the Machine. - Yael Eisenthal; Gideon Dror; Eytan Ruppin (Neural Comput., 2006)

Conservation of Expression and Sequence of Metabolic Genes Is Reflected by Activity Across Metabolic States. - Yonatan Bilu; Tomer Shlomi; Naama Barkai; Eytan Ruppin (PLoS Comput. Biol., 2006)

Gene Expression of Caenorhabditis elegans Neurons Carries Information on Their Synaptic Connectivity. - Alon Kaufman; Gideon Dror; Isaac Meilijson; Eytan Ruppin (PLoS Comput. Biol., 2006)

SPINE: a framework for signaling-regulatory pathway inference from cause-effect experiments. - Oved Ourfali; Tomer Shlomi; Trey Ideker; Eytan Ruppin; Roded Sharan (ISMB/ECCB (Supplement of Bioinformatics), 2007)

Nucleotide variation of regulatory motifs may lead to distinct expression patterns. - Liat Segal; Michal Lapidot; Zach Solan; Eytan Ruppin; Yitzhak Pilpel; David Horn 001 (ISMB/ECCB (Supplement of Bioinformatics), 2007)

Meta-analysis of gene expression data: a predictor-based approach. - Irit Fishel; Alon Kaufman; Eytan Ruppin (Bioinform., 2007)

Pepitope: epitope mapping from affinity-selected peptides. - Itay Mayrose; Osnat Penn; Elana Erez; Nimrod D. Rubinstein; Tomer Shlomi; Natalia Tarnovitski Freund; Erez M. Bublil; Eytan Ruppin; Roded Sharan; Jonathan M. Gershoni; Eric Martz; Tal Pupko (Bioinform., 2007)

Constraint-based functional similarity of metabolic genes: going beyond network topology. - Oleg Rokhlenko; Tomer Shlomi; Roded Sharan; Eytan Ruppin; Ron Y. Pinter (Bioinform., 2007)

A supervised approach for identifying discriminating genotype patterns and its application to breast cancer data. - Nir Yosef; Zohar Yakhini; Anya Tsalenko; Vessela N. Kristensen; Anne-Lise Børresen-Dale; Eytan Ruppin; Roded Sharan (Bioinform., 2007)

Evolutionary conservation and over-representation of functionally enriched network patterns in the yeast regulatory network. - Ofer Meshi; Tomer Shlomi; Eytan Ruppin (BMC Syst. Biol., 2007)

Feature Selection via Coalitional Game Theory. - Shay B. Cohen; Gideon Dror; Eytan Ruppin (Neural Comput., 2007)

Functional Representation of Enzymes by Specific Peptides. - Vered Kunik; Yasmine Meroz; Zach Solan; Ben Sandbank; Uri Weingart; Eytan Ruppin; David Horn 001 (PLoS Comput. Biol., 2007)

Determinants of Protein Abundance and Translation Efficiency in S. cerevisiae. - Tamir Tuller; Martin Kupiec; Eytan Ruppin (PLoS Comput. Biol., 2007)

Cross-Species Analysis of Protein-protein Interaction Networks. - Nir Yosef; Eytan Ruppin; Roded Sharan (Protein-protein Interactions and Networks, 2008)

Can single knockouts accurately single out gene functions? - David Deutscher; Isaac Meilijson; Stefan Schuster; Eytan Ruppin (BMC Syst. Biol., 2008)

QNet: A Tool for Querying Protein Interaction Networks. - Banu Dost; Tomer Shlomi; Nitin Gupta 002; Eytan Ruppin; Vineet Bafna; Roded Sharan (J. Comput. Biol., 2008)

Co-evolutionary Models for Reconstructing Ancestral Genomic Sequences: Computational Issues and Biological Examples. - Tamir Tuller; Hadas Birin; Martin Kupiec; Eytan Ruppin (RECOMB-CG, 2009)

Network-based prediction of metabolic enzymes' subcellular localization. - Shira Mintz-Oron; Asaph Aharoni; Eytan Ruppin; Tomer Shlomi (Bioinform., 2009)

Higher-Order Genomic Organization of Cellular Functions in Yeast. - Tamir Tuller; Udi Rubinstein; Dani Bar; Michael Gurevich; Eytan Ruppin; Martin Kupiec (J. Comput. Biol., 2009)

Integrating quantitative proteomics and metabolomics with a genome-scale metabolic network model. - Keren Yizhak; Tomer Benyamini; Wolfram Liebermeister; Eytan Ruppin; Tomer Shlomi (Bioinform., 2010)

iMAT: an integrative metabolic analysis tool. - Hadas Zur; Eytan Ruppin; Tomer Shlomi (Bioinform., 2010)

Reconstructing Ancestral Genomic Sequences by Co-Evolution: Formal Definitions, Computational Issues, and Biological Examples. - Tamir Tuller; Hadas Birin; Martin Kupiec; Eytan Ruppin (J. Comput. Biol., 2010)

MuD: an interactive web server for the prediction of non-neutral substitutions using protein structural data. - Gilad Wainreb; Haim Ashkenazy; Yana Bromberg; Alina Starovolsky-Shitrit; Turkan Haliloglu; Eytan Ruppin; Karen B. Avraham; Burkhard Rost; Nir Ben-Tal (Nucleic Acids Res., 2010)

Decoupling Environment-Dependent and Independent Genetic Robustness across Bacterial Species. - Shiri Freilich; Anat Kreimer; Elhanan Borenstein; Uri Gophna; Roded Sharan; Eytan Ruppin (PLoS Comput. Biol., 2010)

Network-Free Inference of Knockout Effects in Yeast. - Tal Peleg; Nir Yosef; Eytan Ruppin; Roded Sharan (PLoS Comput. Biol., 2010)

Associating Genes and Protein Complexes with Disease via Network Propagation. - Oron Vanunu; Oded Magger; Eytan Ruppin; Tomer Shlomi; Roded Sharan (PLoS Comput. Biol., 2010)

A Ribosome Flow Model for Analyzing Translation Elongation - (Extended Abstract). - Shlomi Reuveni; Isaac Meilijson; Martin Kupiec; Eytan Ruppin; Tamir Tuller (RECOMB, 2011)

PRINCIPLE: a tool for associating genes with diseases via network propagation. - Assaf Gottlieb; Oded Magger; Igor Berman; Eytan Ruppin; Roded Sharan (Bioinform., 2011)

Combining Drug and Gene Similarity Measures for Drug-Target Elucidation. - Liat Perlman; Assaf Gottlieb; Nir Atias; Eytan Ruppin; Roded Sharan (J. Comput. Biol., 2011)

Genome-Scale Analysis of Translation Elongation with a Ribosome Flow Model. - Shlomi Reuveni; Isaac Meilijson; Martin Kupiec; Eytan Ruppin; Tamir Tuller (PLoS Comput. Biol., 2011)

Genome-Scale Metabolic Modeling Elucidates the Role of Proliferative Adaptation in Causing the Warburg Effect. - Tomer Shlomi; Tomer Benyamini; Eyal Gottlieb; Roded Sharan; Eytan Ruppin (PLoS Comput. Biol., 2011)

Gene Expression in the Rodent Brain is Associated with Its Regional Connectivity. - Lior Wolf; Chen Goldberg; Nathan Manor; Roded Sharan; Eytan Ruppin (PLoS Comput. Biol., 2011)

Large-Scale Elucidation of Drug Response Pathways in Humans. - Yael Silberberg; Assaf Gottlieb; Martin Kupiec; Eytan Ruppin; Roded Sharan (J. Comput. Biol., 2012)

A Linearized Constraint-Based Approach for Modeling Signaling Networks. - Liram Vardi; Eytan Ruppin; Roded Sharan (J. Comput. Biol., 2012)

Enhancing the Prioritization of Disease-Causing Genes through Tissue Specific Protein Interaction Networks. - Oded Magger; Yedael Y. Waldman; Eytan Ruppin; Roded Sharan (PLoS Comput. Biol., 2012)

A Novel Nutritional Predictor Links Microbial Fastidiousness with Lowered Ubiquity, Growth Rate, and Cooperativeness. - Raphy Zarecki; Matthew A. Oberhardt; Leah Reshef; Uri Gophna; Eytan Ruppin (PLoS Comput. Biol., 2014)

Functional Alignment of Metabolic Networks. - Arnon Mazza; Allon Wagner; Eytan Ruppin; Roded Sharan (J. Comput. Biol., 2016)

Data-Driven Metabolic Pathway Compositions Enhance Cancer Survival Prediction. - Noam Auslander; Allon Wagner; Matthew A. Oberhardt; Eytan Ruppin (PLoS Comput. Biol., 2016)

Systems-Wide Prediction of Enzyme Promiscuity Reveals a New Underground Alternative Route for Pyridoxal 5'-Phosphate Production in E. coli. - Matthew A. Oberhardt; Raphy Zarecki; Leah Reshef; Fangfang Xia; Miquel Duran-Frigola; Rachel Schreiber; Christopher S. Henry; Nir Ben-Tal; Daniel J. Dwyer; Uri Gophna; Eytan Ruppin (PLoS Comput. Biol., 2016)

Detecting similar binding pockets to enable systems polypharmacology. - Miquel Duran-Frigola; Lydia Siragusa; Eytan Ruppin; Xavier Barril; Gabriele Cruciani; Patrick Aloy (PLoS Comput. Biol., 2017)

A SSIM Guided cGAN Architecture For Clinically Driven Generative Image Synthesis of Multiplexed Spatial Proteomics Channels. - Jillur Rahman Saurav; Mohammad Sadegh Nasr 001; Paul Koomey; Michael Robben; Manfred Huber; Jon Weidanz; Bríd Ryan; Eytan Ruppin; Peng Jiang; Jacob M. Luber (CoRR, 2022)

A SSIM Guided cGAN Architecture For Clinically Driven Generative Image Synthesis of Multiplexed Spatial Proteomics Channels. - Jillur Rahman Saurav; Mohammad Sadegh Nasr 001; Helen H. Shang; Paul Koomey; Michael Robben; Manfred Huber; Jon Weidanz; Bríd Ryan; Eytan Ruppin; Peng Jiang; Jacob M. Luber (CIBCB, 2023)

Reusability report: Leveraging supervised learning to uncover phenotype-relevant biology from single-cell RNA sequencing data. - Yingying Cao; Tian-Gen Chang; Sahil Sahni; Eytan Ruppin (Nat. Mac. Intell., 2024)