Pierre Baldi

Sushil Krishna Bajracharya, Cristina V. Lopes, Pierre Baldi, 2007, Fourth International Workshop on Mining Software Repositories (MSR'07:ICSE Workshops 2007).

Structural proteomics of the poxvirus family

Pierre Baldi, Arlo Z. Randall, Luis P. Villarreal, 2004, Artif. Intell. Medicine.

Large-Scale Prediction of Disulphide Bond Connectivity

Pierre Baldi, Alessandro Vullo, Jianlin Cheng, 2004, NIPS.

Accurate Prediction of Protein Disordered Regions by Mining Protein Structure Data

Pierre Baldi, Jianlin Cheng, Michael J. Sweredoski, 2005, Data Mining and Knowledge Discovery.

Modeling and Understanding Human Behavior on the Web

Pierre Baldi, Paolo Frasconi, Padhraic Smyth, 2003 .

Efficient Neutrino Oscillation Parameter Inference with Gaussian Process

Pierre Baldi, Lingge Li, Nitish Nayak, 2019, AAAI.

Adaptive Low Power Listening for Wireless Sensor Networks

Cristina V. Lopes, Pierre Baldi, Raja Jurdak, 2007, IEEE Transactions on Mobile Computing.

Statistical detection of chromosomal homology using shared-gene density alone

Pierre Baldi, Steven E. Hampson, B. S. Gaut, 2005, Bioinform..

Computing with Arrays of Coupled Oscillators

Joachim M. Buhmann, Pierre Baldi, Ron Meir, 1990 .

Why are complementary DNA strands symmetric?

Pierre Baldi, Steven E. Hampson, Pierre-François Baisnée, 2002, Bioinform..

High-Throughput Screening with Two-Dimensional Kernels

Pierre Baldi, Chloé-Agathe Azencott, 2007 .

Polynomial Threshold Functions, Hyperplane Arrangements, and Random Tensors

Pierre Baldi, Roman Vershynin, P. Baldi, 2018, SIAM J. Math. Data Sci..

Mining concepts from code with probabilistic topic models

Sushil Krishna Bajracharya, Cristina V. Lopes, Pierre Baldi, 2007, ASE.

ISMB 2016 Proceedings

Pierre Baldi, Teresa M. Przytycka, P. Baldi, 2016, Bioinform..

Analysis of Yeast's ORF Upstream Regions by Parallel Processing, Microarrays, and Computational Methods

Pierre Baldi, Steven E. Hampson, Dennis F. Kibler, 2000, ISMB.

Modeling The Internet And The Web

Pierre Baldi, Paolo Frasconi, Padhraic Smyth, 2003 .

High-throughput prediction of protein antigenicity using protein microarray data

Pierre Baldi, Michael Zeller, Philip L. Felgner, 2010, Bioinform..

ChemDB update - full-text search and virtual chemical space

Pierre Baldi, Sanjay Joshua Swamidass, Dennis Wang, 2007, Bioinform..

From protein microarrays to diagnostic antigen discovery: a study of the pathogen Francisella tularensis

Pierre Baldi, Suman Sundaresh, Berkay Unal, 2007, ISMB/ECCB.

Learning in linear neural networks: a survey

Kurt Hornik, Pierre Baldi, P. Baldi, 1995, IEEE Trans. Neural Networks.

Capturing Java naming conventions with first-order Markov models

Cristina V. Lopes, Pierre Baldi, Erik Linstead, 2009, 2009 IEEE 17th International Conference on Program Comprehension.

The Shattered Self - The End of Natural Evolution

Pierre Baldi, 2001 .

Deep Learning in Biomedical Data Science

Pierre Baldi, P. Baldi, 2018, Annual Review of Biomedical Data Science.

MotifMap: integrative genome-wide maps of regulatory motif sites for model species

Xiaohui Xie, Pierre Baldi, Paul Rigor, 2011, BMC Bioinformatics.

Smooth On-Line Learning Algorithms for Hidden Markov Models

Pierre Baldi, Yves Chauvin, P. Baldi, 1994, Neural Computation.

Solving the Rubik's Cube Without Human Knowledge pdf

Pierre Baldi, Forest Agostinelli, Stephen McAleer, 2018, ArXiv.

Boolean autoencoders and hypercube clustering complexity

Pierre Baldi, P. Baldi, 2012, Designs, Codes and Cryptography.

Group Actions and Learning for a Family of Automata

Pierre Baldi, P. Baldi, 1988, J. Comput. Syst. Sci..

Hashing Algorithms and Data Structures for Rapid Searches of Fingerprint Vectors

Pierre Baldi, Daniel S. Hirschberg, Ramzi Nasr, 2010, J. Chem. Inf. Model..

BLASTing small molecules—statistics and extreme statistics of chemical similarity scores

Pierre Baldi, Ryan W. Benz, P. Baldi, 2008, ISMB.

Deep Learning for Drug Discovery and Cancer Research: Automated Analysis of Vascularization Images

Pierre Baldi, Chris Hughes, Gregor Urban, 2019, IEEE/ACM Transactions on Computational Biology and Bioinformatics.

Learning in the machine: Random backpropagation and the deep learning channel

Pierre Baldi, Peter J. Sadowski, Zhiqin Lu, 2016, Artif. Intell..

Random interactions in higher order neural networks

Pierre Baldi, Santosh S. Venkatesh, P. Baldi, 1993, IEEE Trans. Inf. Theory.

Modeling user reputation in wikis

Cristina V. Lopes, Pierre Baldi, Sara Javanmardi, 2010, Stat. Anal. Data Min..

Modeling and optimization of ad hoc and sensor networks

Pierre Baldi, Cristina Videira Lopes, Raja Jurdak, 2005 .

Solving the Rubik’s cube with deep reinforcement learning and search

Pierre Baldi, Forest Agostinelli, Stephen McAleer, 2019, Nat. Mach. Intell..

Distribution patterns of over-represented k-mers in non-coding yeast DNA

Pierre Baldi, Steven E. Hampson, Dennis F. Kibler, 2002, Bioinform..

Incorporating post-translational modifications and unnatural amino acids into high-throughput modeling of protein structures

Pierre Baldi, Arlo Z. Randall, Ken Nagata, 2014, Bioinform..

Protein β-Sheet Partner Prediction by Neural Networks

Pierre Baldi, Gianluca Pollastri, Søren Brunak, 2000, ANNIMAB.

Neural Networks, Acyclic Orientations of the Hypercube, and Sets of Orthogonal Vectors

Pierre Baldi, 1988, SIAM J. Discret. Math..

On the convergence of a clustering algorithm for protein-coding regions in microbial genomes

Pierre Baldi, 2000, Bioinform..

Bounds and Algorithms for Fast Exact Searches of Chemical Fingerprints in Linear and Sublinear Time

Pierre Baldi, Sanjay Joshua Swamidass, S. Joshua Swamidass, 2007, J. Chem. Inf. Model..

No Electron Left Behind: A Rule-Based Expert System To Predict Chemical Reactions and Reaction Mechanisms

Pierre Baldi, Jonathan H. Chen, 2009, J. Chem. Inf. Model..

SOLpro: accurate sequence-based prediction of protein solubility

Pierre Baldi, Arlo Z. Randall, Christophe N. Magnan, 2009, Bioinform..

Three-stage prediction of protein ?-sheets by neural networks, alignments and graph algorithms

Pierre Baldi, Jianlin Cheng, P. Baldi, 2005, ISMB.

Hidden Markov Models of the G-Protein-Coupled Receptor Family

Pierre Baldi, Yves Chauvin, P. Baldi, 1994, J. Comput. Biol..

Data structures and compression algorithms for high-throughput sequencing technologies - eScholarship

Xiaohui Xie, Pierre Baldi, Paul Rigor, 2010 .

U-MAC: a proactive and adaptive UWB medium access control protocol

Cristina V. Lopes, Pierre Baldi, Raja Jurdak, 2005, Wirel. Commun. Mob. Comput..

Prediction of contact maps by GIOHMMs and recurrent neural networks using lateral propagation from all four cardinal corners

Pierre Baldi, Gianluca Pollastri, P. Baldi, 2002, ISMB.

An Application of Latent Dirichlet Allocation to Analyzing Software Evolution

Cristina V. Lopes, Pierre Baldi, Erik Linstead, 2008, 2008 Seventh International Conference on Machine Learning and Applications.

DNA Structure, Protein-DNA Interactions, and DNA-Protein Expression - Session Introduction

Pierre Baldi, Richard H. Lathrop, 2001, Pacific Symposium on Biocomputing.

Bidirectional Dynamics for Protein Secondary Structure Prediction

Giovanni Soda, Pierre Baldi, Paolo Frasconi, 2001, Sequence Learning.

Influence Relevance Voting: An Accurate And Interpretable Virtual High Throughput Screening Method

Pierre Baldi, Sanjay Joshua Swamidass, Chloé-Agathe Azencott, 2009, J. Chem. Inf. Model..

The capacity of feedforward neural networks

Pierre Baldi, Roman Vershynin, P. Baldi, 2019, Neural Networks.

Hidden Markov Models in Molecular Biology: New Algorithms and Applications

Pierre Baldi, Yves Chauvin, Tim Hunkapiller, 1992, NIPS.

Improved residue contact prediction using support vector machines and a large feature set

Pierre Baldi, Jianlin Cheng, P. Baldi, 2007, BMC Bioinformatics.

Deep Architectures and Deep Learning in Chemoinformatics: The Prediction of Aqueous Solubility for Drug-Like Molecules

Pierre Baldi, Gianluca Pollastri, Alessandro Lusci, 2013, J. Chem. Inf. Model..

Information-Theoretic Metrics for Project-Level Scattering and Tangling

Cristina V. Lopes, Pierre Baldi, Erik Linstead, 2010, SEKE.

Computing with Arrays of Coupled Oscillators: An Application to Preattentive Texture Discrimination

Pierre Baldi, Ron Meir, P. Baldi, 1990, Neural Computation.

A multi-resolution approach for spinal metastasis detection using deep Siamese neural networks

Min-Ying Su, Pierre Baldi, Juan Wang, 2017, Comput. Biol. Medicine.

Bridging the Gap Between Neural Network and Kernel Methods: Applications to Drug Discovery

Pierre Baldi, Sanjay Joshua Swamidass, S. Joshua Swamidass, 2011, WIRN.

SourcererDB: An aggregated repository of statically analyzed and cross-linked open source Java projects

Sushil Krishna Bajracharya, Cristina V. Lopes, Pierre Baldi, 2009, 2009 6th IEEE International Working Conference on Mining Software Repositories.

Reaction Explorer:Towards a Knowledge Map of Organic Chemistry To Support Dynamic Assessment and Personalized Instruction

Pierre Baldi, Jonathan H. Chen, Matthew A. Kayala, 2010 .

Universal Approximnation and Learning of Trajectories Using Oscillators

Kurt Hornik, Pierre Baldi, P. Baldi, 1995, NIPS.

Editorial: Charting Chemical Space: Challenges and Opportunities for Artificial Intelligence and Machine Learning

Klaus-Robert Müller, Pierre Baldi, Gisbert Schneider, 2011, Molecular informatics.

A Machine-Learning Strategy for Protein Analysis

Pierre Baldi, Gianluca Pollastri, 2002, IEEE Intell. Syst..

The inner and outer approaches to the design of recursive neural architectures

Pierre Baldi, P. Baldi, 2017, Data Mining and Knowledge Discovery.

Gradient descent learning algorithms: a unified perspective

Pierre Baldi, P. Baldi, 1995 .

Inferring Ground Truth from Subjective Labelling of Venus Images

Pietro Perona, Pierre Baldi, Padhraic Smyth, 1994, NIPS.

Synergies Between Quantum Mechanics and Machine Learning in Reaction Prediction

Pierre Baldi, Niranjan A. Subrahmanya, Peter J. Sadowski, 2016, J. Chem. Inf. Model..

Modular DAG-RNN Architectures for Assembling Coarse Protein Structures

Pierre Baldi, Paolo Frasconi, Alessandro Vullo, 2006, J. Comput. Biol..

When is Chemical Similarity Significant? The Statistical Distribution of Chemical Similarity Scores and Its Extreme Values

Pierre Baldi, Ramzi Nasr, P. Baldi, 2010, J. Chem. Inf. Model..

Data structures and compression algorithms for genomic sequence data

Pierre Baldi, Douglas C. Wallace, Marty C. Brandon, 2009, Bioinform..

Kernels for small molecules and the prediction of mutagenicity, toxicity and anti-cancer activity

Pierre Baldi, Sanjay Joshua Swamidass, Liva Ralaivola, 2005, ISMB.

The pervasiveness and plasticity of circadian oscillations: the coupled circadian-oscillators framework

Pierre Baldi, Michael Zeller, Paolo Sassone-Corsi, 2015, Bioinform..

Parallel Multicut Segmentation via Dual Decomposition

Pierre Baldi, Julian Yarkony, Fred A. Hamprecht, 2014, NFMCP.

ReactionMap: An Efficient Atom-Mapping Algorithm for Chemical Reactions

Pierre Baldi, David Fooshee, Alessio Andronico, 2013, J. Chem. Inf. Model..

Localization of off-the-shelf mobile devices using audible sound: architectures, protocols and performance assessment

Cristina V. Lopes, Pierre Baldi, Tony Givargis, 2006, MOCO.

Linear Learning: Landscapes and Algorithms

Pierre Baldi, P. Baldi, 1988, NIPS.

SIDEpro: A novel machine learning approach for the fast and accurate prediction of side‐chain conformations

Pierre Baldi, Arlo Z. Randall, Ken Nagata, 2012, Proteins.

Fold recognition by combining profile-profile alignment and support vector machine

Pierre Baldi, Sanjay Joshua Swamidass, Jonathan H. Chen, 2005, Bioinform..

Bioinformatics - the machine learning approach (2. ed.)

Pierre Baldi, Søren Brunak, P. Baldi, 2000 .

Machine Learning Challenges in Chemoinformatics and Drug Screening and Design

Pierre Baldi, 2007, Sixth International Conference on Machine Learning and Applications (ICMLA 2007).

Periodic Sequence Patterns in Human Exons

Pierre Baldi, Yves Chauvin, Søren Brunak, 1995, ISMB.

Neural networks, orientations of the hypercube, and algebraic threshold functions

Pierre Baldi, P. Baldi, 1988, IEEE Trans. Inf. Theory.

The dropout learning algorithm

Pierre Baldi, Peter J. Sadowski, P. Baldi, 2014, Artif. Intell..

One- to Four-Dimensional Kernels for Virtual Screening and the Prediction of Physical, Chemical, and Biological Properties

Pierre Baldi, Sanjay Joshua Swamidass, Liva Ralaivola, 2007, J. Chem. Inf. Model..

Statistical machine learning and data mining for chemoinformatics and drug discovery

Pierre Baldi, Chloé-Agathe Azencott, P. Baldi, 2010 .

Characterization of Prokaryotic and Eukaryotic Promoters Using Hidden Markov Models

Pierre Baldi, Yves Chauvin, Søren Brunak, 1996, ISMB.

Flexibility of the genetic code with respect to DNA structure

Pierre Baldi, Søren Brunak, Anders Gorm Pedersen, 2001, Bioinform..

Exploiting the past and the future in protein secondary structure prediction

Giovanni Soda, Pierre Baldi, Paolo Frasconi, 1999, Bioinform..

A theory of local learning, the learning channel, and the optimality of backpropagation

Pierre Baldi, Peter J. Sadowski, P. Baldi, 2015, Neural Networks.

Prediction of Protein Topologies Using Generalized IOHMMS and RNNs

Pierre Baldi, Paolo Frasconi, Alessandro Vullo, 2002, NIPS.

Speeding Up Chemical Database Searches Using a Proximity Filter Based on the Logical Exclusive OR

Pierre Baldi, Daniel S. Hirschberg, Ramzi Nasr, 2008, J. Chem. Inf. Model..

Mathematical Correction for Fingerprint Similarity Measures to Improve Chemical Retrieval

Pierre Baldi, Sanjay Joshua Swamidass, 2007, J. Chem. Inf. Model..

A theory of aspects as latent topics

Sushil Krishna Bajracharya, Cristina V. Lopes, Pierre Baldi, 2008, OOPSLA.

Large‐scale prediction of disulphide bridges using kernel methods, two‐dimensional recursive neural networks, and weighted graph matching

Pierre Baldi, Jianlin Cheng, Hiroto Saigo, 2005, Proteins.

Effective Compression of Monotone and Quasi-Monotone Sequences of Integers

Pierre Baldi, Daniel S. Hirschberg, 2008, Data Compression Conference (dcc 2008).

A Framework for Modeling Sensor Networks

Pierre Baldi, Cristina Videira Lopes, Raja Jurdak, 2004 .

Oreo: detection of clones in the twilight zone

Cristina V. Lopes, Pierre Baldi, Yadong Lu, 2018, ESEC/SIGSOFT FSE.

DOMpro: Protein Domain Prediction Using Profiles, Secondary Structure, Relative Solvent Accessibility, and Recursive Neural Networks

Pierre Baldi, Jianlin Cheng, Michael J. Sweredoski, 2006, Data Mining and Knowledge Discovery.

Bioethics, Fiction Science, and the Future of Mankind - Session Introduction

Pierre Baldi, Søren Brunak, P. Baldi, 2000, Pacific Symposium on Biocomputing.

Deep architectures for protein contact map prediction

Pierre Baldi, Pietro Di Lena, Ken Nagata, 2012, Bioinform..

Improved prediction of the number of residue contacts in proteins by recurrent neural networks

Piero Fariselli, Pierre Baldi, Gianluca Pollastri, 2001, ISMB.

User contribution and trust in Wikipedia

Cristina V. Lopes, Pierre Baldi, Sara Javanmardi, 2009, 2009 5th International Conference on Collaborative Computing: Networking, Applications and Worksharing.

Solving the Rubik's Cube with Approximate Policy Iteration

Pierre Baldi, Forest Agostinelli, Stephen McAleer, 2018, ICLR.

Probabilistic Models of Neuronal Spike Trains

Pierre Baldi, P. Baldi, 1997, Summer School on Neural Networks.

A neural network with modular hierarchical learning

Pierre Baldi, Nikzad Toomarian, P. Baldi, 1994 .

An Intersection Inequality Sharper than the Tanimoto Triangle Inequality for Efficiently Searching Large Databases

Pierre Baldi, Daniel S. Hirschberg, P. Baldi, 2009, J. Chem. Inf. Model..

Deep Learning, Dark Knowledge, and Dark Matter

Pierre Baldi, Daniel Whiteson, Peter J. Sadowski, 2014, HEPML@NIPS.

Parameterized Machine Learning for High-Energy Physics pdf

Pierre Baldi, Daniel Whiteson, Kyle Cranmer, 2016, ArXiv.

Privacy-Enhanced Methods for Comparing Compressed DNA Sequences pdf

David Eppstein, Michael T. Goodrich, Pierre Baldi, 2011, ArXiv.

Efficient antihydrogen detection in antimatter physics by deep learning pdf

Pierre Baldi, Yasunori Yamazaki, Peter J. Sadowski, 2017, ArXiv.

Software-driven sensor networks for short-range shallow water applications

Cristina V. Lopes, Pierre Baldi, Raja Jurdak, 2009, Ad Hoc Networks.

Create standalone simulation tools to facilitate collaboration between HEP and machine learning community

Gilles Louppe, Pierre Baldi, Balázs Kégl, 2016 .

Advances in protein structure determination and protein structural feature prediction using computer science

Pierre Baldi, Michael J. Sweredoski, 2008 .

Assessing the accuracy of prediction algorithms for classification: an overview

Pierre Baldi, Yves Chauvin, Søren Brunak, 2000, Bioinform..

Machine Learning Challenges in Chemoinformatics and Drug Screening and Design

Pierre Baldi, 2007, ICMLA 2007.

Data structures and compression algorithms for high-throughput sequencing technologies

Xiaohui Xie, Pierre Baldi, Paul Rigor, 2009, BMC Bioinformatics.

Large scale study of multiple-molecule queries

Pierre Baldi, Sanjay Joshua Swamidass, Ramzi Nasr, 2009, J. Cheminformatics.

Cyber-T web server: differential analysis of high-throughput data

Pierre Baldi, Matthew A. Kayala, P. Baldi, 2012, Nucleic Acids Res..

Computational Prediction and Experimental Verification of New MAP Kinase Docking Sites and Substrates Including Gli Transcription Factors

Pierre Baldi, Lan Huang, Jeffrey S. Rogers, 2010, PLoS Comput. Biol..

Gradient descent learning algorithm overview: a general dynamical systems perspective

Pierre Baldi, P. Baldi, 1995, IEEE Trans. Neural Networks.

Mining Internet-Scale Software Repositories

Sushil Krishna Bajracharya, Cristina V. Lopes, Pierre Baldi, 2007, NIPS.

Temporal Evolution of Generalization during Learning in Linear Networks

Pierre Baldi, Yves Chauvin, P. Baldi, 1991, Neural Computation.

VIRALpro: a tool to identify viral capsid and tail sequences

Pierre Baldi, Clovis Galiez, François Coste, 2016, Bioinform..

Contrastive Learning and Neural Oscillations

Pierre Baldi, Fernando J. Pineda, P. Baldi, 1991, Neural Computation.

On a generalized family of colorings

Pierre Baldi, 1990, Graphs Comb..

Lossless Compression of Chemical Fingerprints Using Integer Entropy Codes Improves Storage and Retrieval

Pierre Baldi, Sanjay Joshua Swamidass, Daniel S. Hirschberg, 2007, J. Chem. Inf. Model..

The Biology of Eukaryotic Promoter Prediction - A Review

Pierre Baldi, Yves Chauvin, Søren Brunak, 1999, Comput. Chem..

Programmed interactions in higher-order neural networks: Maximal capacity

Pierre Baldi, Santosh S. Venkatesh, 1991, J. Complex..

Of bits and wows: A Bayesian theory of surprise with applications to attention

Pierre Baldi, Laurent Itti, P. Baldi, 2010, Neural Networks.

Computing with Arrays of Bell-Shaped and Sigmoid Functions

Pierre Baldi, P. Baldi, 1990, NIPS.

Continuous Representation of Molecules using Graph Variational Autoencoder pdf

Pierre Baldi, Mohammadamin Tavakoli, P. Baldi, 2020, AAAI Spring Symposium: MLPS.

A principled approach to detecting surprising events in video

Pierre Baldi, Laurent Itti, P. Baldi, 2005, 2005 IEEE Computer Society Conference on Computer Vision and Pattern Recognition (CVPR'05).

Hybrid Modeling, HMM/NN Architectures, and Protein Applications

Pierre Baldi, Yves Chauvin, P. Baldi, 1996, Neural Computation.

Learning and Charting Chemical Space with Strings and Graphs: Challenges and Opportunities for AI and Machine Learning

Pierre Baldi, 2007, MLG.

Neural network gradient Hamiltonian Monte Carlo

Babak Shahbaba, Pierre Baldi, Lingge Li, 2017, Computational Statistics.

Deep Spatio-Temporal Architectures and Learning for Protein Structure Prediction

Pierre Baldi, Pietro Di Lena, Ken Nagata, 2012, NIPS.

Advanced Crawling Techniques

Pierre Baldi, Paolo Frasconi, Padhraic Smyth, 2003 .

Learning in the machine: Recirculation is random backpropagation

Pierre Baldi, Peter J. Sadowski, P. Baldi, 2018, Neural Networks.

Learning Activation Functions to Improve Deep Neural Networks pdf

Pierre Baldi, Matthew D. Hoffman, Forest Agostinelli, 2014, ICLR.

Deep Learning in the Natural Sciences: Applications to Physics

Pierre Baldi, Peter J. Sadowski, P. Baldi, 2017, Braverman Readings in Machine Learning.

Sherpa: Hyperparameter Optimization for Machine Learning Models

Lars Hertel, Pierre Baldi, Julian Collado, 2018 .

An enhanced MITOMAP with a global mtDNA mutational phylogeny

Pierre Baldi, Vincent Procaccio, Marie T. Lott, 2006, Nucleic Acids Res..

Understanding Dropout

Pierre Baldi, Peter J. Sadowski, P. Baldi, 2013, NIPS.

On neuronal capacity

Pierre Baldi, Roman Vershynin, P. Baldi, 2019, NeurIPS.

Sigmoid: a software infrastructure for pathway bioinformatics and systems biology

Pierre Baldi, Eric Mjolsness, Jianlin Cheng, 2005, IEEE Intelligent Systems.

PEPITO: improved discontinuous B-cell epitope prediction using multiple distance thresholds and half sphere exposure

Pierre Baldi, Michael J. Sweredoski, Michael J. Sweredoski, 2008, Bioinform..

Learning in the machine: The symmetries of the deep learning channel

Pierre Baldi, Peter J. Sadowski, Zhiqin Lu, 2017, Neural Networks.

A Bayesian framework for the analysis of microarray expression data: regularized t -test and statistical inferences of gene changes

Pierre Baldi, Anthony D. Long, P. Baldi, 2001, Bioinform..

Computational Applications of DNA Structural Scales

Pierre Baldi, Yves Chauvin, Søren Brunak, 1998, ISMB.

ReactionPredictor: Prediction of Complex Chemical Reactions at the Mechanistic Level Using Machine Learning

Pierre Baldi, Matthew A. Kayala, P. Baldi, 2012, J. Chem. Inf. Model..

Bayesian surprise attracts human attention

Pierre Baldi, Laurent Itti, P. Baldi, 2005, Vision Research.

Hidden Markov models and neural networks

Pierre Baldi, Stefan C. Kremer, 2005 .

COBEpro: a novel system for predicting continuous B-cell epitopes.

Pierre Baldi, Michael J. Sweredoski, Michael J Sweredoski, 2009, Protein engineering, design & selection : PEDS.

From Reinforcement Learning to Deep Reinforcement Learning: An Overview

Pierre Baldi, Sameer Singh, Forest Agostinelli, 2017, Braverman Readings in Machine Learning.

A Computational Theory of Surprise

Pierre Baldi, P. Baldi, 2002 .

Matching Protein b-Sheet Partners by Feedforward and Recurrent Neural Networks

Pierre Baldi, Gianluca Pollastri, Søren Brunak, 2000, ISMB.

Mining the coherence of GNOME bug reports with statistical topic models

Pierre Baldi, Erik Linstead, 2009, 2009 6th IEEE International Working Conference on Mining Software Repositories.

Surprise: A Shortcut for Attention?

Pierre Baldi, P. Baldi, 2005 .

Learning in the Machine: Random Backpropagation and the Deep Learning Channel (Extended Abstract)

Pierre Baldi, Peter J. Sadowski, Zhiqin Lu, 2019, IJCAI.

A Machine Learning Approach to Predict Chemical Reactions

Pierre Baldi, Matthew A. Kayala, 2011, NIPS.

Searching for Higgs Boson Decay Modes with Deep Learning

Pierre Baldi, Daniel Whiteson, Peter J. Sadowski, 2014, NIPS.

Proceedings of the 5th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics

Pierre Baldi, Wei Wang, 2014, BCB.

Revealing Fundamental Physics from the Daya Bay Neutrino Experiment Using Deep Neural Networks

Prabhat, Pierre Baldi, Sang-Yun Oh, 2016, ICMLA 2016.

Commerce on the Web: Models and Applications

Pierre Baldi, Paolo Frasconi, Padhraic Smyth, 2003 .

Structural basis for triplet repeat disorders: a computational analysis

Pierre Baldi, Yves Chauvin, Søren Brunak, 1999, Bioinform..

Towards Automating Precision Studies of Clone Detectors

Cristina V. Lopes, Pierre Baldi, Hitesh Sajnani, 2018, 2019 IEEE/ACM 41st International Conference on Software Engineering (ICSE).

Data-Driven High-Throughput Prediction of the 3-D Structure of Small Molecules: Review and Progress

Pierre Baldi, Arlo Z. Randall, Ryan W. Benz, 2011, J. Chem. Inf. Model..

CircadiOmics: circadian omic web portal

Pierre Baldi, Yu Liu, Forest Agostinelli, 2018, Nucleic Acids Res..

Predicting chemical reactions and mechanisms with computer expert systems

Pierre Baldi, Jonathan H. Chen, 2009 .

Speeding Up Chemical Searches Using the Inverted Index: The Convergence of Chemoinformatics and Text Search Methods

Pierre Baldi, Chen Li, Rares Vernica, 2012, J. Chem. Inf. Model..

Modeling the Internet and the Web: Probabilistic Method and Algorithms

Pierre Baldi, Paolo Frasconi, Padhraic Smyth, 2003 .

A machine learning information retrieval approach to protein fold recognition.

Pierre Baldi, Jianlin Cheng, P. Baldi, 2006, Bioinformatics.

On the Use of Bayesian Methods for Evaluating Compartmental Neural Models

Pierre Baldi, James M. Bower, Michael C. Vanier, 1998, Journal of Computational Neuroscience.

State-driven energy optimization in wireless sensor networks

Cristina V. Lopes, Pierre Baldi, Raja Jurdak, 2005, 2005 Systems Communications (ICW'05, ICHSN'05, ICMCS'05, SENET'05).

A Scalable Machine Learning Approach to Go

Lin Wu, Pierre Baldi, P. Baldi, 2006, NIPS.

Battery Lifetime Estimation and Optimization for Underwater Sensor Networks

Pierre Baldi, Raja Jurdak, Cristina Videira Lopes, 2004 .

Learning in the Machine: Random Backpropagation and the Learning Channel pdf

Pierre Baldi, Peter J. Sadowski, Zhiqin Lu, 2016, ArXiv.

Trajectory learning using hierarchy of oscillatory modules

Pierre Baldi, Nikzad Benny Toomarian, P. Baldi, 1993, ESANN.

Bioinformatics - the machine learning approach (2. ed.)

Pierre Baldi, Søren Brunak, P. Baldi, 2001 .

SSpro/ACCpro 5: almost perfect prediction of protein secondary structure and relative solvent accessibility using profiles, machine learning and structural similarity

Pierre Baldi, Christophe N. Magnan, P. Baldi, 2014, Bioinform..

SVM and pattern-enriched common fate graphs for the game of go

Lin Wu, Pierre Baldi, Liva Ralaivola, 2005, ESANN.

Modeling user reputation in wikis

Pierre Baldi, Sara Javanmardi, Cristina Videira Lopes, 2010 .

Data-DrivenHigh-ThroughputPredictionofthe3-DStructureofSmall Molecules: Review and Progress

Pierre Baldi, Ryan W. Benz, Alessio Andronico, 2011 .

Enhanced Higgs to $τ^+τ^-$ Searches with Deep Learning pdf

Pierre Baldi, Daniel Whiteson, Peter J. Sadowski, 2014, ArXiv.

A CROC stronger than ROC: measuring, visualizing and optimizing early retrieval

Pierre Baldi, Sanjay Joshua Swamidass, S. Joshua Swamidass, 2010, Bioinform..

MITOMAP: a human mitochondrial genome database—2004 update

Shamkant B. Navathe, Pierre Baldi, Marie T. Lott, 2004, Nucleic Acids Res..

ICBS: a database of interactions between protein chains mediated by ?-sheet formation

Pierre Baldi, Gianluca Pollastri, Pierre-François Baisnée, 2004, Bioinform..

Sourcerer: a search engine for open source code supporting structure-based search

Sushil Krishna Bajracharya, Cristina V. Lopes, Pierre Baldi, 2006, OOPSLA '06.

Neural networks and principal component analysis: Learning from examples without local minima

Kurt Hornik, Pierre Baldi, P. Baldi, 1989, Neural Networks.

An Adaptive Reference Point Approach to Efficiently Search Large Chemical Databases

Pierre Baldi, Francesco Napolitano, Roberto Tagliaferri, 2013, WIRN.

Modular, Hierarchical Learning By Artificial Neural Networks

Pierre Baldi, Nikzad Toomarian, 1996 .

A scalable reference-point based algorithm to efficiently search large chemical databases

Pierre Baldi, Francesco Napolitano, Roberto Tagliaferri, 2010, The 2010 International Joint Conference on Neural Networks (IJCNN).

Small-Molecule 3D Structure Prediction Using Open Crystallography Data

Pierre Baldi, Peter J. Sadowski, P. Baldi, 2013, J. Chem. Inf. Model..

The Ebb and Flow of Deep Learning: a Theory of Local Learning pdf

Pierre Baldi, Peter J. Sadowski, P. Baldi, 2015, ArXiv.

CodeGenie: using test-cases to search and reuse source code

Sushil Krishna Bajracharya, Cristina V. Lopes, Pierre Baldi, 2007, ASE '07.

A scalable and integrative system for pathway bioinformatics and systems biology.

Pierre Baldi, Eric Mjolsness, Jianlin Cheng, 2010, Advances in experimental medicine and biology.

DNA Microarrays and Gene Expression - From Experiments to Data Analysis and Modeling

Pierre Baldi, G. Wesley Hatfield, G. W. Hatfield, 2002 .

Curiosity-Driven Multi-Criteria Hindsight Experience Replay pdf

Pierre Baldi, Stephen McAleer, John B. Lanier, 2019, ArXiv.

Discovery of Power-Laws in Chemical Space

Pierre Baldi, Sanjay Joshua Swamidass, S. Joshua Swamidass, 2008, J. Chem. Inf. Model..

Parameterized neural networks for high-energy physics

Pierre Baldi, Daniel Whiteson, Kyle Cranmer, 2016, The European Physical Journal C.

Sourcerer: mining and searching internet-scale software repositories

Sushil Krishna Bajracharya, Cristina V. Lopes, Pierre Baldi, 2008, Data Mining and Knowledge Discovery.

Learning to Predict Chemical Reactions

Pierre Baldi, Jonathan H. Chen, Chloé-Agathe Azencott, 2011, J. Chem. Inf. Model..

MotifMap‐RNA: a genome‐wide map of RBP binding sites

Yu Liu, Pierre Baldi, Sha Sun, 2017, Bioinform..

TMBpro: secondary structure, beta-contact and tertiary structure prediction of transmembrane beta-barrel proteins

Pierre Baldi, Jianlin Cheng, Michael J. Sweredoski, 2008, Bioinform..

SCRATCH: a protein structure and structural feature prediction server

Pierre Baldi, Jianlin Cheng, Michael J. Sweredoski, 2005, Nucleic Acids Res..

Oscillations and Synchronizations in Neural Networks: an Exploration of the Labeling Hypothesis

Amir F. Atiya, Pierre Baldi, P. Baldi, 1991, Int. J. Neural Syst..

Accurate and efficient target prediction using a potency-sensitive influence-relevance voter

Pierre Baldi, Sanjay Joshua Swamidass, S. Joshua Swamidass, 2015, Journal of Cheminformatics.

Web Structure Mining: Analyse de Liens

Pierre Baldi, Paolo Frasconi, Padhraic Smyth, 2008 .

On Properties of Networks of Neuron-Like Elements

Pierre Baldi, Santosh S. Venkatesh, P. Baldi, 1987, NIPS.

An acoustic identification scheme for location systems

Cristina V. Lopes, Pierre Baldi, Raja Jurdak, 2004, The IEEE/ACS International Conference onPervasive Services, 2004. ICPS 2004. Proceedings..

Autoencoders, Unsupervised Learning, and Deep Architectures

Pierre Baldi, P. Baldi, 2011, ICML Unsupervised and Transfer Learning.

Modeling the Internet and the Web: Probabilistic Methods and Algorithms: Baldi/Probabilistic

Pierre Baldi, Paolo Frasconi, Padhraic Smyth, 2002 .

Graph kernels for chemical informatics

Pierre Baldi, Sanjay Joshua Swamidass, Hiroto Saigo, 2005, Neural Networks.

On the relationship between deterministic and probabilistic directed Graphical models: From Bayesian networks to recursive neural networks

Pierre Baldi, Michal Rosen-Zvi, P. Baldi, 2005, Neural Networks.

Functional census of mutation sequence spaces: the example of p53 cancer rescue mutants

Pierre Baldi, Ray Luo, Sanjay Joshua Swamidass, 2006, IEEE/ACM Transactions on Computational Biology and Bioinformatics.

A survey, classification and comparative analysis of medium access control protocols for ad hoc networks

Cristina V. Lopes, Pierre Baldi, Raja Jurdak, 2004, IEEE Communications Surveys & Tutorials.

Improving the prediction of protein secondary structure in three and eight classes using recurrent neural networks and profiles

Pierre Baldi, Gianluca Pollastri, Burkhard Rost, 2002, Proteins.

A Genomic Analysis Pipeline and Its Application to Pediatric Cancers

Pierre Baldi, Michael Zeller, Paul Rigor, 2014, IEEE/ACM Transactions on Computational Biology and Bioinformatics.

U-MAC: a proactive and adaptive UWB medium access control protocol: Research Articles

Pierre Baldi, Raja Jurdak, Cristina Videira Lopes, 2005 .

Sequence analysis by additive scales: DNA structure for sequences and repeats of all lengths

Pierre Baldi, Pierre-François Baisnée, P. Baldi, 2000, Bioinform..

Revealing Fundamental Physics from the Daya Bay Neutrino Experiment Using Deep Neural Networks

Prabhat, Pierre Baldi, Sang-Yun Oh, 2016, 2016 15th IEEE International Conference on Machine Learning and Applications (ICMLA).

Assessment of predictions submitted for the CASP7 domain prediction category

David Kim, Keehyoung Joo, Jinwoo Lee, 2007, Proteins.

The Principled Design of Large-Scale Recursive Neural Network Architectures--DAG-RNNs and the Protein Structure Prediction Problem

Pierre Baldi, Gianluca Pollastri, P. Baldi, 2003, J. Mach. Learn. Res..

The Universal Campus: An open virtual 3-D world infrastructure for research and education

Cristina V. Lopes, Pierre Baldi, 2012, ELERN.

Machine Learning Methods for Computational Proteomics and Beyond

Pierre Baldi, 2003, Canadian Conference on AI.

Statistical machine learning for internet-scale software repositories

Pierre Baldi, Erik Linstead, 2009 .

Statistical Distribution of Chemical Fingerprints

Pierre Baldi, Sanjay Joshua Swamidass, P. Baldi, 2005, WILF.

Fold recognition by scoring protein maps using the congruence coefficient

Pierre Baldi, Pietro Di Lena, 2021, Bioinform..

Rxn Hypergraph: a Hypergraph Attention Model for Chemical Reaction Representation pdf

Pierre Baldi, Mohammadamin Tavakoli, Alexander Shmakov, 2022, ArXiv.

XDO: A Double Oracle Algorithm for Extensive-Form Games pdf

Pierre Baldi, Roy Fox, Stephen McAleer, 2021, ArXiv.

Enforcing Analytic Constraints in Neural Networks Emulating Physical Systems.

Pierre Baldi, Pierre Gentine, Tom Beucler, 2019, Physical review letters.

A theory of capacity and sparse neural encoding

Pierre Baldi, Roman Vershynin, P. Baldi, 2021, Neural Networks.

Improving Social Welfare While Preserving Autonomy via a Pareto Mediator pdf

Pierre Baldi, Roy Fox, Michael Dennis, 2021, ArXiv.

Detecting pulmonary Coccidioidomycosis with deep convolutional neural networks

Pierre Baldi, Jordan Ott, Silke Hecht, 2021 .

Reinforcement Learning and Deep Reinforcement Learning

Pierre Baldi, P. Baldi, 2021, Deep Learning in Science.

Deep Bucket Elimination

Pierre Baldi, Yadong Lu, Rina Dechter, 2021, IJCAI.

A* Search Without Expansions: Learning Heuristic Functions with Deep Q-Networks pdf

Pierre Baldi, Roy Fox, Forest Agostinelli, 2021, ArXiv.

SPANet: Generalized Permutationless Set Assignment for Particle Physics using Symmetry Preserving Attention pdf

Pierre Baldi, Ta-Wei Ho, Michael James Fenton, 2021, SciPost Physics.

Deep Networks and Backpropagation

Pierre Baldi, P. Baldi, 2021, Deep Learning in Science.

The Deep Learning Channel

Pierre Baldi, P. Baldi, 2021, Deep Learning in Science.

Quantum Mechanics and Machine Learning Synergies: Graph Attention Neural Networks to Predict Chemical Reactivity pdf

Pierre Baldi, Mohammadamin Tavakoli, Aaron D. Mood, 2021, J. Chem. Inf. Model..

Reproducible Hyperparameter Optimization

Pierre Baldi, Daniel L. Gillen, Lars Hertel, 2021, J. Comput. Graph. Stat..

Detecting Pulmonary Coccidioidomycosis (Valley fever) with Deep Convolutional Neural Networks pdf

Pierre Baldi, Jordan Ott, Silke Hecht, 2021, ArXiv.

D-REX: Static Detection of Relevant Runtime Exceptions with Location Aware Transformer

Cristina V. Lopes, Pierre Baldi, Yadong Lu, 2021, 2021 IEEE 21st International Working Conference on Source Code Analysis and Manipulation (SCAM).

Tourbillon: a Physically Plausible Neural Architecture pdf

Pierre Baldi, Peter Sadowski, Mohammadamin Tavakoli, 2021, ArXiv.

Anytime Optimal PSRO for Two-Player Zero-Sum Games pdf

Pierre Baldi, Roy Fox, Marc Lanctot, 2022 .

Genome Architecture Mediates Transcriptional Control of Human Myogenic Reprogramming

Pierre Baldi, Alfred Hero, Gerald A. Higgins, 2018, iScience.

On Normal Approximations of Distributions in Terms of Dependency Graphs

Pierre Baldi, Yosef Rinott, P. Baldi, 1989 .

Lung Adenocarcinoma Distally Rewires Hepatic Circadian Homeostasis

Pierre Baldi, Paolo Sassone-Corsi, P. Baldi, 2016, Cell.

The role of bottom-up and top-down influences in directing primate gaze shifts

Pierre Baldi, Laurent Itti, Robert A. Marino, 2010 .

Improved energy reconstruction in NOvA with regression convolutional neural networks

Lars Hertel, Pierre Baldi, P. Baldi, 2018, Physical Review D.

Mitochondrial Mutations and Polymorphisms in Psychiatric Disorders

Pierre Baldi, Fabio Macciardi, Douglas C. Wallace, 2012, Front. Gene..

Structure-based inhibitor design of AccD5, an essential acyl-CoA carboxylase carboxyltransferase domain of Mycobacterium tuberculosis.

Pierre Baldi, S Joshua Swamidass, S. Joshua Swamidass, 2006, Proceedings of the National Academy of Sciences of the United States of America.

CircadiOmics: integrating circadian genomics, transcriptomics, proteomics and metabolomics

Pierre Baldi, Paolo Sassone-Corsi, Kristin Eckel-Mahan, 2012, Nature Methods.

Microarrays and Gene Expression

Pierre Baldi, Søren Brunak, 2001 .

Gut microbiota directs PPARγ‐driven reprogramming of the liver circadian clock by nutritional challenge

Pierre Baldi, Paolo Sassone-Corsi, P. Baldi, 2016, EMBO reports.

Machine learning of physiological waveforms and electronic health record data to predict, diagnose and treat haemodynamic instability in surgical patients: protocol for a retrospective study

Pierre Baldi, Artur Dubrawski, Joseph Rinehart, 2019, BMJ Open.

Comparative Circadian Metabolomics Reveal Differential Effects of Nutritional Challenge in the Serum and Liver*

Pierre Baldi, Paolo Sassone-Corsi, P. Baldi, 2015, The Journal of Biological Chemistry.

Software Analysis with Unsupervised Topic Models

Pierre Baldi, Erik Linstead, Lindsey Hughes, 2009 .

A Tandem Affinity Tag for Two-step Purification under Fully Denaturing Conditions

Pierre Baldi, Lan Huang, Yimeng Dou, 2006, Molecular & Cellular Proteomics.

One- to Four-Dimensional Kernels for Virtual Screening and the Prediction of Physical, Chemical, and Biological Properties.

Pierre Baldi, Liva Ralaivola, S. Joshua Swamidass, 2007 .

Mapping the Structural Topology of the Yeast 19S Proteasomal Regulatory Particle Using Chemical Cross-linking and Probabilistic Modeling*

Pierre Baldi, Arlo Z. Randall, Vishal R. Patel, 2012, Molecular & Cellular Proteomics.

Circadian clock regulates the host response to Salmonella

Pierre Baldi, Paolo Sassone-Corsi, Michael D. George, 2013, Proceedings of the National Academy of Sciences.

The Stability and Complexity of Antibody Responses to the Major Surface Antigen of Plasmodium falciparum Are Associated with Age in a Malaria Endemic Area*

Pierre Baldi, Denise L. Doolan, Philip L. Felgner, 2011, Molecular & Cellular Proteomics.

Partitioning Circadian Transcription by SIRT6 Leads to Segregated Control of Cellular Metabolism

Pierre Baldi, Paolo Sassone-Corsi, Paul Rigor, 2014, Cell.

Combining docking site and phosphosite predictions to find new substrates: identification of smoothelin-like-2 (SMTNL2) as a c-Jun N-terminal kinase (JNK) substrate.

Pierre Baldi, Vishal R. Patel, Lee Bardwell, 2013, Cellular signalling.

SELECTpro: effective protein model selection using a structure-based energy function resistant to BLUNDERs

Pierre Baldi, Arlo Z. Randall, Arlo Randall, 2008, BMC Structural Biology.

Adaptation and habituation of visual responses in the superficial and intermediate layers of the superior colliculus (SC)

Pierre Baldi, Laurent Itti, Susan E. Boehnke, 2010 .

Methyl Anion Affinities of the Canonical Organic Functional Groups.

Pierre Baldi, Mohammadamin Tavakoli, Aaron D. Mood, 2020, The Journal of organic chemistry.

Pierre Baldi, Siddiqua Hirst, Yunxiang Mu, 2007, Proteomics.

TMBpro : Secondary Structure , β-contact , and Tertiary Structure Prediction of Transmembrane β-Barrel Proteins

Pierre Baldi, Jianlin Cheng, Arlo Randall, 2007 .

Muscle insulin sensitivity and glucose metabolism are controlled by the intrinsic muscle clock

Pierre Baldi, Paolo Sassone-Corsi, Henriette Pilegaard, 2013, Molecular metabolism.

The TCF C-clamp DNA binding domain expands the Wnt transcriptome via alternative target recognition

Pierre Baldi, Anke Busch, Michael D. Zeller, 2014, Nucleic acids research.

A Study of Ranking Schemes in Internet-Scale Code Search

Pierre Baldi, Erik Linstead, Paul Rigor, 2007 .

Circadian acetylome reveals regulation of mitochondrial metabolic pathways

Pierre Baldi, Paolo Sassone-Corsi, Vishal R. Patel, 2013, Proceedings of the National Academy of Sciences.

Global gene expression profiling in Escherichia coli K12: effects of oxygen availability and ArcA.

Pierre Baldi, G. W. Hatfield, Nicholas R. Steffen, 2005, The Journal of biological chemistry.

Reprogramming of the Circadian Clock by Nutritional Challenge

Pierre Baldi, Paolo Sassone-Corsi, Vishal R. Patel, 2013, Cell.

Pierre Baldi, Chase Shimmin, Peter Sadowski, 2017, Physical Review D.

Neural Network Regression with Beta, Dirichlet, and Dirichlet-Multinomial Outputs

Pierre Baldi, Peter Sadowski, P. Baldi, 2018 .

Statistical Measure of the Effectiveness of the Open Editing Model of Wikipedia

Pierre Baldi, Sara Javanmardi, Yasser Ganjisaffar, 2010 .

Global Gene Expression Profiling in Escherichia coliK12

Pierre Baldi, G. W. Hatfield, G Wesley Hatfield, 2002, The Journal of Biological Chemistry.

Embeddings of ultrametric spaces in finite dimensional structures

Pierre Baldi, M. Aschbacher, Eric B. Baum, 1987 .

Coordination of the transcriptome and metabolome by the circadian clock

Pierre Baldi, Paolo Sassone-Corsi, Vishal R. Patel, 2012, Proceedings of the National Academy of Sciences.

Graph coloring bounds for cellular radio

Pierre Baldi, Edward C. Posner, 1990 .

The fixed-size Luria-Delbruck model with a nonzero death rate.

Pierre Baldi, Natalia L Komarova, P. Baldi, 2007, Mathematical biosciences.

A Genome-Wide Proteome Array Reveals a Limited Set of Immunogens in Natural Infections of Humans and White-Footed Mice with Borrelia burgdorferi

Pierre Baldi, D. Huw Davies, Philip L. Felgner, 2008, Infection and Immunity.

Time of Exercise Specifies the Impact on Muscle Metabolic Pathways and Systemic Energy Homeostasis.

Pierre Baldi, Paolo Sassone-Corsi, Ali Altıntaş, 2019, Cell metabolism.

The Neuron-specific Chromatin Regulatory Subunit BAF53b is Necessary for Synaptic Plasticity and Memory

Pierre Baldi, Christophe N. Magnan, Gary Lynch, 2013, Nature Neuroscience.

Bounds and Algorithms for Fast Exact Searches of Chemical Fingerprints in Linear and Sublinear Time.

Pierre Baldi, S. Joshua Swamidass, P. Baldi, 2007 .

Neural Networks: Applications

Pierre Baldi, Søren Brunak, P. Baldi, 2001 .

A Normal Approximation for the Number of Local Maxima of a Random Function on a Graph

Pierre Baldi, Yosef Rinott, Charles Stein, 1989 .

Development and Validation of a Deep Neural Network Model for Prediction of Postoperative In-hospital Mortality

Pierre Baldi, Maxime Cannesson, P. Baldi, 2018, Anesthesiology.

A bottom-up model of spatial attention predicts human error patterns in rapid scene recognition.

Pierre Baldi, Christof Koch, Laurent Itti, 2007, Journal of vision.

A prospective analysis of the Ab response to Plasmodium falciparum before and after a malaria season by protein microarray

Pierre Baldi, Denise L. Doolan, Philip L. Felgner, 2010, Proceedings of the National Academy of Sciences.

Information Theory, Entropy, and Relative Entropy

Pierre Baldi, Søren Brunak, 2001 .

An automated machine learning-based model predicts postoperative mortality using readily-extractable preoperative electronic health record data.

Eran Halperin, Pierre Baldi, Sriram Sankararaman, 2019, British journal of anaesthesia.

Cycles in spatial and temporal chromosomal organization driven by the circadian clock

Pierre Baldi, Paolo Sassone-Corsi, Vishal R. Patel, 2013, Nature Structural &Molecular Biology.

Profiling the humoral immune response to infection by using proteome microarrays: high-throughput vaccine and diagnostic antigen discovery.

Pierre Baldi, Siddiqua Hirst, Yunxiang Mu, 2005, Proceedings of the National Academy of Sciences of the United States of America.

Guidelines for Genome-Scale Analysis of Biological Rhythms

Pierre Baldi, Andrew J. Millar, Francis J. Doyle, 2017, Journal of biological rhythms.

DNA Microarrays and Gene Expression: Statistical analysis of array data: Dimensionality reduction, clustering, and regulatory regions

Pierre Baldi, G. W. Hatfield, G. Wesley Hatfield, 2002 .

Retroviruses and yeast retrotransposons use overlapping sets of host genes.

Pierre Baldi, Yimeng Dou, Michael Aye, 2005, Genome research.

A surprise theory of early attention

Pierre Baldi, Laurent Itti, P. Baldi, 2005 .

Backpropagation and unsupervised learning in linear networks

Kurt Hornik, Pierre Baldi, Yves Chauvin, 1995 .

MITOMASTER: a bioinformatics tool for the analysis of mitochondrial DNA sequences

Pierre Baldi, Vincent Procaccio, Eduardo Ruiz-Pesini, 2009, Human mutation.

DNA Microarrays and Gene Expression: The design, analysis, and interpretation of gene expression profiling experiments

Pierre Baldi, G. W. Hatfield, G. Wesley Hatfield, 2002 .

Modeling of Mitochondria Bioenergetics Using a Composable Chemiosmotic Energy Transduction Rate Law: Theory and Experimental Validation

Pierre Baldi, Douglas Wallace, Ivan Chang, 2011, PloS one.