Pierre Baldi
Orcid: 0000-0001-8752-4664Affiliations:
- University of California, Irvine, CA, USA
According to our database1,
Pierre Baldi
authored at least 276 papers
between 1987 and 2024.
Collaborative distances:
Collaborative distances:
Awards
ACM Fellow
ACM Fellow 2012, "For contributions to artificial intelligence and statistical machine learning for bioinformatics.".
IEEE Fellow
IEEE Fellow 2012, "For contributions to machine learning and its applications in the life sciences".
Timeline
Legend:
Book In proceedings Article PhD thesis Dataset OtherLinks
Online presence:
-
on zbmath.org
-
on orcid.org
-
on id.loc.gov
-
on d-nb.info
-
on igb.uci.edu
-
on dl.acm.org
On csauthors.net:
Bibliography
2024
CoRR, 2024
Unraveling the Molecular Magic: AI Insights on the Formation of Extraordinarily Stretchable Hydrogels.
CoRR, 2024
Proceedings of the Northern Lights Deep Learning Conference, 2024
Proceedings of the Northern Lights Deep Learning Conference, 2024
2023
Artif. Intell., June, 2023
J. Chem. Inf. Model., February, 2023
Evaluating the Performance of Large Language Models for Spanish Language in Undergraduate Admissions Exams.
Computación y Sistemas (CyS), 2023
Machine Learning-Enhanced Prediction of Surface Smoothness for Inertial Confinement Fusion Target Polishing Using Limited Data.
CoRR, 2023
Selective Perception: Optimizing State Descriptions with Reinforcement Learning for Language Model Actors.
CoRR, 2023
ClimSim: An open large-scale dataset for training high-resolution physics emulators in hybrid multi-scale climate simulators.
CoRR, 2023
Generalizing to new calorimeter geometries with Geometry-Aware Autoregressive Models (GAAMs) for fast calorimeter simulation.
CoRR, 2023
Interpretable Joint Event-Particle Reconstruction for Neutrino Physics at NOvA with Sparse CNNs and Transformers.
CoRR, 2023
AI and Veterinary Medicine: Performance of Large Language Models on the North American Licensing Examination.
Proceedings of the Tenth International Conference on Social Networks Analysis, 2023
Clinical Knowledge and Reasoning Abilities of Large Language Models in Pharmacy: A Comparative Study on the NAPLEX Exam.
Proceedings of the Tenth International Conference on Social Networks Analysis, 2023
Proceedings of the Advances in Neural Information Processing Systems 36: Annual Conference on Neural Information Processing Systems 2023, 2023
AI for Interpretable Chemistry: Predicting Radical Mechanistic Pathways via Contrastive Learning.
Proceedings of the Advances in Neural Information Processing Systems 36: Annual Conference on Neural Information Processing Systems 2023, 2023
End-To-End Latent Variational Diffusion Models for Inverse Problems in High Energy Physics.
Proceedings of the Advances in Neural Information Processing Systems 36: Annual Conference on Neural Information Processing Systems 2023, 2023
Proceedings of the Advances in Neural Information Processing Systems 36: Annual Conference on Neural Information Processing Systems 2023, 2023
2022
Weakly Supervised Polyp Segmentation in Colonoscopy Images Using Deep Neural Networks.
J. Imaging, 2022
Quantum Mechanics and Machine Learning Synergies: Graph Attention Neural Networks to Predict Chemical Reactivity.
J. Chem. Inf. Model., 2022
J. Chem. Inf. Model., 2022
CoRR, 2022
Deep Learning Models of the Discrete Component of the Galactic Interstellar Gamma-Ray Emission.
CoRR, 2022
CoRR, 2022
SSpro/ACCpro 6: almost perfect prediction of protein secondary structure and relative solvent accessibility using profiles, deep learning and structural similarity.
Bioinform., 2022
2021
Development and validation of an interpretable neural network for prediction of postoperative in-hospital mortality.
npj Digit. Medicine, 2021
SPLASH: Learnable activation functions for improving accuracy and adversarial robustness.
Neural Networks, 2021
SPANet: Generalized Permutationless Set Assignment for Particle Physics using Symmetry Preserving Attention.
CoRR, 2021
CoRR, 2021
Detecting Pulmonary Coccidioidomycosis (Valley fever) with Deep Convolutional Neural Networks.
CoRR, 2021
Bioinform., 2021
D-REX: Static Detection of Relevant Runtime Exceptions with Location Aware Transformer.
Proceedings of the 21st IEEE International Working Conference on Source Code Analysis and Manipulation, 2021
Proceedings of the Advances in Neural Information Processing Systems 34: Annual Conference on Neural Information Processing Systems 2021, 2021
Proceedings of the Thirtieth International Joint Conference on Artificial Intelligence, 2021
2020
Development and validation of a deep neural network model to predict postoperative mortality, acute kidney injury, and reintubation using a single feature set.
npj Digit. Medicine, 2020
Deep machine learning-assisted multiphoton microscopy to reduce light exposure and expedite imaging.
CoRR, 2020
Permutationless Many-Jet Event Reconstruction with Symmetry Preserving Attention Networks.
CoRR, 2020
Quantity vs. Quality: On Hyperparameter Optimization for Deep Reinforcement Learning.
CoRR, 2020
Pipeline PSRO: A Scalable Approach for Finding Approximate Nash Equilibria in Large Games.
Proceedings of the Advances in Neural Information Processing Systems 33: Annual Conference on Neural Information Processing Systems 2020, 2020
Proceedings of the AAAI 2020 Spring Symposium on Combining Artificial Intelligence and Machine Learning with Physical Sciences, Stanford, CA, USA, March 23rd - to, 2020
2019
IEEE Trans. Ind. Informatics, 2019
Deep Learning for Drug Discovery and Cancer Research: Automated Analysis of Vascularization Images.
IEEE ACM Trans. Comput. Biol. Bioinform., 2019
SIAM J. Math. Data Sci., 2019
Nat. Mach. Intell., 2019
CoRR, 2019
Proceedings of the Advances in Neural Information Processing Systems 32: Annual Conference on Neural Information Processing Systems 2019, 2019
Learning in the Machine: Random Backpropagation and the Deep Learning Channel (Extended Abstract).
Proceedings of the Twenty-Eighth International Joint Conference on Artificial Intelligence, 2019
Proceedings of the 41st International Conference on Software Engineering, 2019
Proceedings of the 7th International Conference on Learning Representations, 2019
Proceedings of the Thirty-Third AAAI Conference on Artificial Intelligence, 2019
2018
Neural Networks, 2018
Nucleic Acids Res., 2018
J. Chem. Inf. Model., 2018
Data Min. Knowl. Discov., 2018
Artif. Intell., 2018
Proceedings of the 2018 ACM Joint Meeting on European Software Engineering Conference and Symposium on the Foundations of Software Engineering, 2018
Proceedings of the Advances in Neural Information Processing Systems 31: Annual Conference on Neural Information Processing Systems 2018, 2018
2017
IEEE Trans. Medical Imaging, 2017
Neural Networks, 2017
A multi-resolution approach for spinal metastasis detection using deep Siamese neural networks.
Comput. Biol. Medicine, 2017
Proceedings of the Braverman Readings in Machine Learning. Key Ideas from Inception to Current State, 2017
Proceedings of the Braverman Readings in Machine Learning. Key Ideas from Inception to Current State, 2017
2016
A theory of local learning, the learning channel, and the optimality of backpropagation.
Neural Networks, 2016
J. Chem. Inf. Model., 2016
Revealing Fundamental Physics from the Daya Bay Neutrino Experiment Using Deep Neural Networks.
Proceedings of the 15th IEEE International Conference on Machine Learning and Applications, 2016
2015
Accurate and efficient target prediction using a potency-sensitive influence-relevance voter.
J. Cheminformatics, 2015
Proceedings of the 3rd International Conference on Learning Representations, 2015
The pervasiveness and plasticity of circadian oscillations: the coupled circadian-oscillators framework.
Bioinform., 2015
2014
IEEE ACM Trans. Comput. Biol. Bioinform., 2014
NII Shonan Meet. Rep., 2014
Incorporating post-translational modifications and unnatural amino acids into high-throughput modeling of protein structures.
Bioinform., 2014
SSpro/ACCpro 5: almost perfect prediction of protein secondary structure and relative solvent accessibility using profiles, machine learning and structural similarity.
Bioinform., 2014
Proceedings of the New Frontiers in Mining Complex Patterns - Third International Workshop, 2014
Proceedings of the Advances in Neural Information Processing Systems 27: Annual Conference on Neural Information Processing Systems 2014, 2014
Proceedings of the Workshop on High-energy Physics and Machine Learning, 2014
Proceedings of the 5th ACM Conference on Bioinformatics, 2014
2013
J. Chem. Inf. Model., 2013
Deep Architectures and Deep Learning in Chemoinformatics: The Prediction of Aqueous Solubility for Drug-Like Molecules.
J. Chem. Inf. Model., 2013
J. Chem. Inf. Model., 2013
Bioinform., 2013
Proceedings of the Recent Advances of Neural Network Models and Applications, 2013
Proceedings of the Advances in Neural Information Processing Systems 26: 27th Annual Conference on Neural Information Processing Systems 2013. Proceedings of a meeting held December 5-8, 2013
2012
Nucleic Acids Res., 2012
Proceedings of the Unsupervised and Transfer Learning, 2012
Speeding Up Chemical Searches Using the Inverted Index: The Convergence of Chemoinformatics and Text Search Methods.
J. Chem. Inf. Model., 2012
ReactionPredictor: Prediction of Complex Chemical Reactions at the Mechanistic Level Using Machine Learning.
J. Chem. Inf. Model., 2012
The Universal Campus: An open virtual 3-D world infrastructure for research and education.
eLearn Mag., 2012
Proceedings of the Advances in Neural Information Processing Systems 25: 26th Annual Conference on Neural Information Processing Systems 2012. Proceedings of a meeting held December 3-6, 2012
2011
Data-Driven High-Throughput Prediction of the 3-D Structure of Small Molecules: Review and Progress. A Response to the Letter by the Cambridge Crystallographic Data Centre.
J. Chem. Inf. Model., 2011
Data-Driven High-Throughput Prediction of the 3-D Structure of Small Molecules: Review and Progress.
J. Chem. Inf. Model., 2011
BMC Bioinform., 2011
Proceedings of the Advances in Neural Information Processing Systems 24: 25th Annual Conference on Neural Information Processing Systems 2011. Proceedings of a meeting held 12-14 December 2011, 2011
Proceedings of the 18th ACM Conference on Computer and Communications Security, 2011
DNA Microarrays and Gene Expression - From Experiments to Data Analysis and Modeling.
Cambridge University Press, ISBN: 978-0-521-17635-4, 2011
2010
Computational Prediction and Experimental Verification of New MAP Kinase Docking Sites and Substrates Including Gli Transcription Factors.
PLoS Comput. Biol., 2010
Neural Networks, 2010
J. Chem. Inf. Model., 2010
When is Chemical Similarity Significant? The Statistical Distribution of Chemical Similarity Scores and Its Extreme Values.
J. Chem. Inf. Model., 2010
Data structures and compression algorithms for high-throughput sequencing technologies.
BMC Bioinform., 2010
Bioinform., 2010
Bioinform., 2010
Bridging the Gap Between Neural Network and Kernel Methods: Applications to Drug Discovery.
Proceedings of the Neural Nets WIRN10, 2010
Information-Theoretic Metrics for Project-Level Scattering and Tangling.
Proceedings of the 22nd International Conference on Software Engineering & Knowledge Engineering (SEKE'2010), Redwood City, San Francisco Bay, CA, USA, July 1, 2010
A scalable reference-point based algorithm to efficiently search large chemical databases.
Proceedings of the International Joint Conference on Neural Networks, 2010
2009
Influence Relevance Voting: An Accurate And Interpretable Virtual High Throughput Screening Method.
J. Chem. Inf. Model., 2009
No Electron Left Behind: A Rule-Based Expert System To Predict Chemical Reactions and Reaction Mechanisms.
J. Chem. Inf. Model., 2009
An Intersection Inequality Sharper than the Tanimoto Triangle Inequality for Efficiently Searching Large Databases.
J. Chem. Inf. Model., 2009
Data Min. Knowl. Discov., 2009
Bioinform., 2009
Bioinform., 2009
Ad Hoc Networks, 2009
SourcererDB: An aggregated repository of statically analyzed and cross-linked open source Java projects.
Proceedings of the 6th International Working Conference on Mining Software Repositories, 2009
Proceedings of the 6th International Working Conference on Mining Software Repositories, 2009
Proceedings of the 17th IEEE International Conference on Program Comprehension, 2009
Proceedings of the 5th International Conference on Collaborative Computing: Networking, 2009
2008
Speeding Up Chemical Database Searches Using a Proximity Filter Based on the Logical Exclusive OR.
J. Chem. Inf. Model., 2008
PEPITO: improved discontinuous B-cell epitope prediction using multiple distance thresholds and half sphere exposure.
Bioinform., 2008
TMBpro: secondary structure, beta-contact and tertiary structure prediction of transmembrane beta-barrel proteins.
Bioinform., 2008
Proceedings of the 23rd Annual ACM SIGPLAN Conference on Object-Oriented Programming, 2008
BLASTing small molecules - statistics and extreme statistics of chemical similarity scores.
Proceedings of the Proceedings 16th International Conference on Intelligent Systems for Molecular Biology (ISMB), 2008
Proceedings of the Seventh International Conference on Machine Learning and Applications, 2008
Proceedings of the 2008 Data Compression Conference (DCC 2008), 2008
2007
IEEE Trans. Mob. Comput., 2007
Nucleic Acids Res., 2007
Mathematical Correction for Fingerprint Similarity Measures to Improve Chemical Retrieval.
J. Chem. Inf. Model., 2007
Bounds and Algorithms for Fast Exact Searches of Chemical Fingerprints in Linear and Sublinear Time.
J. Chem. Inf. Model., 2007
Lossless Compression of Chemical Fingerprints Using Integer Entropy Codes Improves Storage and Retrieval.
J. Chem. Inf. Model., 2007
One- to Four-Dimensional Kernels for Virtual Screening and the Prediction of Physical, Chemical, and Biological Properties.
J. Chem. Inf. Model., 2007
Improved residue contact prediction using support vector machines and a large feature set.
BMC Bioinform., 2007
Minimizing the overlap problem in protein NMR: a computational framework for precision amino acid labeling.
Bioinform., 2007
Proceedings of the Advances in Neural Information Processing Systems 20, 2007
Proceedings of the Fourth International Workshop on Mining Software Repositories, 2007
Learning and Charting Chemical Space with Strings and Graphs: Challenges and Opportunities for AI and Machine Learning.
Proceedings of the Mining and Learning with Graphs, 2007
Proceedings of the 22nd IEEE/ACM International Conference on Automated Software Engineering (ASE 2007), 2007
Proceedings of the 22nd IEEE/ACM International Conference on Automated Software Engineering (ASE 2007), 2007
From protein microarrays to diagnostic antigen discovery: a study of the pathogen <i>Francisella tularensis</i>.
Proceedings of the Proceedings 15th International Conference on Intelligent Systems for Molecular Biology (ISMB) & 6th European Conference on Computational Biology (ECCB), 2007
Proceedings of the Sixth International Conference on Machine Learning and Applications, 2007
2006
Functional Census of Mutation Sequence Spaces: The Example of p53 Cancer Rescue Mutants.
IEEE ACM Trans. Comput. Biol. Bioinform., 2006
Localization of off-the-shelf mobile devices using audible sound: architectures, protocols and performance assessment.
ACM SIGMOBILE Mob. Comput. Commun. Rev., 2006
Proc. Natl. Acad. Sci. USA, 2006
J. Comput. Biol., 2006
DOMpro: Protein Domain Prediction Using Profiles, Secondary Structure, Relative Solvent Accessibility, and Recursive Neural Networks.
Data Min. Knowl. Discov., 2006
Identification of humoral immune responses in protein microarrays using DNA microarray data analysis techniques.
Bioinform., 2006
Bioinform., 2006
Proceedings of the Companion to the 21th Annual ACM SIGPLAN Conference on Object-Oriented Programming, 2006
Proceedings of the Advances in Neural Information Processing Systems 19, 2006
2005
Wirel. Commun. Mob. Comput., 2005
On the relationship between deterministic and probabilistic directed Graphical models: From Bayesian networks to recursive neural networks.
Neural Networks, 2005
Nucleic Acids Res., 2005
Nucleic Acids Res., 2005
Int. J. Bioinform. Res. Appl., 2005
IEEE Intell. Syst., 2005
Data Min. Knowl. Discov., 2005
Bioinform., 2005
Bioinform., 2005
Proceedings of the Fuzzy Logic and Applications, 6th International Workshop, 2005
Proceedings of the Advances in Neural Information Processing Systems 18 [Neural Information Processing Systems, 2005
Kernels for small molecules and the prediction of mutagenicity, toxicity and anti-cancer activity.
Proceedings of the Proceedings Thirteenth International Conference on Intelligent Systems for Molecular Biology 2005, 2005
Three-stage prediction of protein ?-sheets by neural networks, alignments and graph algorithms.
Proceedings of the Proceedings Thirteenth International Conference on Intelligent Systems for Molecular Biology 2005, 2005
Proceedings of the Systems Communications 2005 (ICW / ICHSN / ICMCS / SENET 2005), 2005
Proceedings of the 13th European Symposium on Artificial Neural Networks, 2005
Proceedings of the 2005 IEEE Computer Society Conference on Computer Vision and Pattern Recognition (CVPR 2005), 2005
Proceedings of the 2nd IEEE Consumer Communications and Networking Conference, 2005
2004
Combining protein secondary structure prediction models with ensemble methods of optimal complexity.
Neurocomputing, 2004
A survey, classification and comparative analysis of medium access control protocols for ad hoc networks.
IEEE Commun. Surv. Tutorials, 2004
ICBS: a database of interactions between protein chains mediated by ?-sheet formation.
Bioinform., 2004
Proceedings of the Advances in Neural Information Processing Systems 17 [Neural Information Processing Systems, 2004
Proceedings of the IEEE/ACS International Conference on Pervasive Services (ICPS'04), 2004
2003
The Principled Design of Large-Scale Recursive Neural Network Architectures--DAG-RNNs and the Protein Structure Prediction Problem.
J. Mach. Learn. Res., 2003
Proceedings of the Advances in Artificial Intelligence, 2003
John Wiley, ISBN: 0-470-84906-1, 2003
2002
Modeling and optimization of UWB communication networks through a flexible cost function.
IEEE J. Sel. Areas Commun., 2002
Bioinform., 2002
Proceedings of the Advances in Neural Information Processing Systems 15 [Neural Information Processing Systems, 2002
Prediction of contact maps by GIOHMMs and recurrent neural networks using lateral propagation from all four cardinal corners.
Proceedings of the Tenth International Conference on Intelligent Systems for Molecular Biology, 2002
MIT Press, ISBN: 978-0-262-52334-9, 2002
2001
A Bayesian framework for the analysis of microarray expression data: regularized t -test and statistical inferences of gene changes.
Bioinform., 2001
Proceedings of the Sequence Learning - Paradigms, Algorithms, and Applications, 2001
DNA Structure, Protein-DNA Interactions, and DNA-Protein Expression - Session Introduction.
Proceedings of the 6th Pacific Symposium on Biocomputing, 2001
Bioethics, Fiction Science, and the Future of Mankind - Session Introduction.
Proceedings of the 6th Pacific Symposium on Biocomputing, 2001
Improved prediction of the number of residue contacts in proteins by recurrent neural networks.
Proceedings of the Ninth International Conference on Intelligent Systems for Molecular Biology, 2001
Bioinformatics - the machine learning approach (2. ed.).
MIT Press, ISBN: 978-0-262-02506-5, 2001
2000
Bioinform., 2000
Sequence analysis by additive scales: DNA structure for sequences and repeats of all lengths.
Bioinform., 2000
On the convergence of a clustering algorithm for protein-coding regions in microbial genomes.
Bioinform., 2000
Analysis of Yeast's ORF Upstream Regions by Parallel Processing, Microarrays, and Computational Methods.
Proceedings of the Eighth International Conference on Intelligent Systems for Molecular Biology, 2000
Proceedings of the Eighth International Conference on Intelligent Systems for Molecular Biology, 2000
Proceedings of the Artificial Neural Networks in Medicine and Biology, 2000
Bioinformatics - the machine learning approach.
MIT Press, ISBN: 978-0-262-02442-6, 2000
1999
Bioinform., 1999
Bioinform., 1999
1998
J. Comput. Neurosci., 1998
Proceedings of the 6th International Conference on Intelligent Systems for Molecular Biology (ISMB-98), Montréal, Québec, Canada, June 28, 1998
1997
Proceedings of the Adaptive Processing of Sequences and Data Structures, 1997
1996
Neural Comput., 1996
Proceedings of the Fourth International Conference on Intelligent Systems for Molecular Biology, 1996
1995
Gradient descent learning algorithm overview: a general dynamical systems perspective.
IEEE Trans. Neural Networks, 1995
Proceedings of the Advances in Neural Information Processing Systems 8, 1995
Proceedings of the Third International Conference on Intelligent Systems for Molecular Biology, 1995
Proceedings of the Third International Conference on Intelligent Systems for Molecular Biology, 1995
1994
J. Comput. Biol., 1994
Proceedings of the Advances in Neural Information Processing Systems 7, 1994
1993
Proceedings of the Advances in Neural Information Processing Systems 6, 1993
Proceedings of International Conference on Neural Networks (ICNN'88), San Francisco, CA, USA, March 28, 1993
Proceedings of the 1st European Symposium on Artificial Neural Networks, 1993
1992
Proceedings of the Advances in Neural Information Processing Systems 5, [NIPS Conference, Denver, Colorado, USA, November 30, 1992
1991
Neural Comput., 1991
Programmed interactions in higher-order neural networks: The outer-product algorithm.
J. Complex., 1991
J. Complex., 1991
1990
Computing with Arrays of Coupled Oscillators: An Application to Preattentive Texture Discrimination.
Neural Comput., 1990
Proceedings of the Advances in Neural Information Processing Systems 3, 1990
1989
Neural networks and principal component analysis: Learning from examples without local minima.
Neural Networks, 1989
Oscillations and Synchronizations in Neural Networks: an Exploration of the Labeling Hypothesis.
Int. J. Neural Syst., 1989
Proceedings of the Advances in Neural Information Processing Systems 2, 1989
1988
IEEE Trans. Inf. Theory, 1988
Neural Networks, Acyclic Orientations of the Hypercube, and Sets of Orthogonal Vectors.
SIAM J. Discret. Math., 1988
Proceedings of the Advances in Neural Information Processing Systems 1, 1988
1987
Proceedings of the Neural Information Processing Systems, Denver, Colorado, USA, 1987, 1987