William Stafford Noble
Orcid: 0000-0001-7283-4715Affiliations:
- University of Washington, Seattle, USA
According to our database1,
William Stafford Noble
authored at least 159 papers
between 1996 and 2023.
Collaborative distances:
Collaborative distances:
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Online presence:
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on zbmath.org
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on orcid.org
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on id.loc.gov
On csauthors.net:
Bibliography
2023
PLoS Comput. Biol., January, 2023
Bioinform., January, 2023
Matrix prior for data transfer between single cell data types in latent Dirichlet allocation.
PLoS Comput. Biol., 2023
Leveraging epigenomes and three-dimensional genome organization for interpreting regulatory variation.
PLoS Comput. Biol., 2023
2022
J. Comput. Biol., 2022
J. Comput. Biol., 2022
Proceedings of the Research in Computational Molecular Biology, 2022
Proceedings of the IEEE International Symposium on Information Theory, 2022
Proceedings of the International Conference on Machine Learning, 2022
2021
Prioritizing transcriptomic and epigenomic experiments using an optimization strategy that leverages imputed data.
Bioinform., 2021
Bioinform., 2021
Proceedings of the 38th International Conference on Machine Learning, 2021
Proceedings of the 38th International Conference on Machine Learning, 2021
2020
Capturing cell type-specific chromatin compartment patterns by applying topic modeling to single-cell Hi-C data.
PLoS Comput. Biol., 2020
J. Mach. Learn. Res., 2020
Proceedings of the Research in Computational Molecular Biology, 2020
Proceedings of the BCB '20: 11th ACM International Conference on Bioinformatics, 2020
Proceedings of the BCB '20: 11th ACM International Conference on Bioinformatics, 2020
Zero-shot imputations across species are enabled through joint modeling of human and mouse epigenomics.
Proceedings of the BCB '20: 11th ACM International Conference on Bioinformatics, 2020
Avocado: Deep tensor factorization characterizes the human epigenome via imputation of tens of thousands of functional experiments.
Proceedings of the BCB '20: 11th ACM International Conference on Bioinformatics, 2020
2019
Submodular Generalized Matching for Peptide Identification in Tandem Mass Spectrometry.
IEEE ACM Trans. Comput. Biol. Bioinform., 2019
Predicting gene expression in the human malaria parasite Plasmodium falciparum using histone modification, nucleosome positioning, and 3D localization features.
PLoS Comput. Biol., 2019
J. Open Source Softw., 2019
Response to comments on 'Empirical comparison of web-based antimicrobial peptide prediction tools'.
Bioinform., 2019
Bioinform., 2019
Proceedings of the 19th International Workshop on Algorithms in Bioinformatics, 2019
Proceedings of the 19th International Workshop on Algorithms in Bioinformatics, 2019
2018
GenomeDISCO: a concordance score for chromosome conformation capture experiments using random walks on contact map graphs.
Bioinform., 2018
Proceedings of the Advances in Neural Information Processing Systems 31: Annual Conference on Neural Information Processing Systems 2018, 2018
Proceedings of the Advances in Neural Information Processing Systems 31: Annual Conference on Neural Information Processing Systems 2018, 2018
Choosing Non-redundant Representative Subsets Of Protein Sequence Data Sets Using Submodular Optimization.
Proceedings of the 2018 ACM International Conference on Bioinformatics, 2018
Unveiling Elements of Genomic Architecture with Genome Wide Chromatin Conformation Capture.
Proceedings of the AMIA 2018, 2018
2017
Proceedings of the Encyclopedia of Machine Learning and Data Mining, 2017
PeerJ Comput. Sci., 2017
HiC-spector: a matrix library for spectral and reproducibility analysis of Hi-C contact maps.
Bioinform., 2017
DNA sequence+shape kernel enables alignment-free modeling of transcription factor binding.
Bioinform., 2017
Bioinform., 2017
Progressive Calibration and Averaging for Tandem Mass Spectrometry Statistical Confidence Estimation: Why Settle for a Single Decoy?
Proceedings of the Research in Computational Molecular Biology, 2017
Proceedings of the 5th International Conference on Learning Representations, 2017
2016
Faster and more accurate graphical model identification of tandem mass spectra using trellises.
Bioinform., 2016
Bipartite matching generalizations for peptide identification in tandem mass spectrometry.
Proceedings of the 7th ACM International Conference on Bioinformatics, 2016
2015
Proc. Natl. Acad. Sci. USA, 2015
Proceedings of the 32nd International Conference on Machine Learning, 2015
Proceedings of the Biomedical Engineering Systems and Technologies, 2015
Constructing Structural Profiles for Protein Torsion Angle Prediction.
Proceedings of the BIOINFORMATICS 2015, 2015
2014
PLoS Comput. Biol., 2014
Bioinform., 2014
Proceedings of the Thirtieth Conference on Uncertainty in Artificial Intelligence, 2014
2013
Proceedings of the Biocomputing 2013: Proceedings of the Pacific Symposium, 2013
Unsupervised pattern discovery in human chromatin structure through genomic segmentation.
Proceedings of the ACM Conference on Bioinformatics, 2013
2012
Faster Mass Spectrometry-Based Protein Inference: Junction Trees Are More Efficient than Sampling and Marginalization by Enumeration.
IEEE ACM Trans. Comput. Biol. Bioinform., 2012
PLoS Comput. Biol., 2012
BMC Bioinform., 2012
BMC Bioinform., 2012
Bioinform., 2012
Spectrum Identification using a Dynamic Bayesian Network Model of Tandem Mass Spectra.
Proceedings of the Twenty-Eighth Conference on Uncertainty in Artificial Intelligence, 2012
Proceedings of the Biocomputing 2012: Proceedings of the Pacific Symposium, 2012
A statistical approach to peptide identification from clustered tandem mass spectrometry data.
Proceedings of the 2012 IEEE International Conference on Bioinformatics and Biomedicine Workshops, 2012
2011
Detecting Remote Evolutionary Relationships among Proteins by Large-Scale Semantic Embedding.
PLoS Comput. Biol., 2011
Learning sparse models for a dynamic Bayesian network classifier of protein secondary structure.
BMC Bioinform., 2011
Proceedings of the Research in Computational Molecular Biology, 2011
Protein Interaction Networks: Protein Domain Interaction and Protein Function Prediction.
Proceedings of the Handbook of Statistical Bioinformatics., 2011
2010
Proceedings of the Encyclopedia of Machine Learning, 2010
Learning a Weighted Sequence Model of the Nucleosome Core and Linker Yields More Accurate Predictions in <i>Saccharomyces cerevisiae</i> and <i>Homo sapiens</i>.
PLoS Comput. Biol., 2010
High Resolution Models of Transcription Factor-DNA Affinities Improve <i>In Vitro</i> and <i>In Vivo</i> Binding Predictions.
PLoS Comput. Biol., 2010
BMC Bioinform., 2010
Using machine learning to speed up manual image annotation: application to a 3D imaging protocol for measuring single cell gene expression in the developing <i>C. elegans</i> embryo.
BMC Bioinform., 2010
Bioinform., 2010
A dynamic Bayesian network for identifying protein-binding footprints from single molecule-based sequencing data.
Bioinform., 2010
Proceedings of the Research in Computational Molecular Biology, 2010
2009
QVALITY: non-parametric estimation of <i>q</i>-values and posterior error probabilities.
Bioinform., 2009
Assessing phylogenetic motif models for predicting transcription factor binding sites.
Bioinform., 2009
Proceedings of the Research in Computational Molecular Biology, 2009
2008
Transmembrane Topology and Signal Peptide Prediction Using Dynamic Bayesian Networks.
PLoS Comput. Biol., 2008
PLoS Comput. Biol., 2008
PLoS Comput. Biol., 2008
Combining classifiers for improved classification of proteins from sequence or structure.
BMC Bioinform., 2008
Proceedings of the Biocomputing 2008, 2008
Modeling peptide fragmentation with dynamic Bayesian networks for peptide identification.
Proceedings of the Proceedings 16th International Conference on Intelligent Systems for Molecular Biology (ISMB), 2008
Proceedings of the ECCB'08 Proceedings, 2008
Non-parametric estimation of posterior error probabilities associated with peptides identified by tandem mass spectrometry.
Proceedings of the ECCB'08 Proceedings, 2008
2007
BMC Bioinform., 2007
SVM-Fold: a tool for discriminative multi-class protein fold and superfamily recognition.
BMC Bioinform., 2007
BMC Bioinform., 2007
Peptide Retention Time Prediction Yields Improved Tandem Mass Spectrum Identification for Diverse Chromatography Conditions.
Proceedings of the Research in Computational Molecular Biology, 2007
2006
J. Bioinform. Comput. Biol., 2006
BMC Bioinform., 2006
Support vector machine learning from heterogeneous data: an empirical analysis using protein sequence and structure.
Bioinform., 2006
Proceedings of the Proceedings 14th International Conference on Intelligent Systems for Molecular Biology 2006, 2006
Proceedings of the Semi-Supervised Learning, 2006
2005
Guest Editor's Introduction to the Special Issue: Machine Learning for Bioinformatics-Part 2.
IEEE ACM Trans. Comput. Biol. Bioinform., 2005
Guest Editors' Introduction to the Special Issue: Machine Learning for Bioinformatics - Part 1.
IEEE ACM Trans. Comput. Biol. Bioinform., 2005
Proceedings of the Advances in Neural Information Processing Systems 18 [Neural Information Processing Systems, 2005
Proceedings of the Proceedings Thirteenth International Conference on Intelligent Systems for Molecular Biology 2005, 2005
Proceedings of the Proceedings Thirteenth International Conference on Intelligent Systems for Molecular Biology 2005, 2005
Proceedings of the Machine Learning, 2005
Proceedings of the Fourth International IEEE Computer Society Computational Systems Bioinformatics Conference, 2005
Proceedings of the Fourth International IEEE Computer Society Computational Systems Bioinformatics Conference, 2005
Proceedings of the Fourth International IEEE Computer Society Computational Systems Bioinformatics Conference, 2005
2004
Kernel-Based Data Fusion and Its Application to Protein Function Prediction in Yeast.
Proceedings of the Biocomputing 2004, 2004
Proceedings of the Proceedings Twelfth International Conference on Intelligent Systems for Molecular Biology/Third European Conference on Computational Biology 2004, 2004
2003
Combining Pairwise Sequence Similarity and Support Vector Machines for Detecting Remote Protein Evolutionary and Structural Relationships.
J. Comput. Biol., 2003
J. Comput. Biol., 2003
Bioinform., 2003
Bioinform., 2003
Bioinform., 2003
Proceedings of the Advances in Neural Information Processing Systems 16 [Neural Information Processing Systems, 2003
Searching for statistically significant regulatory modules.
Proceedings of the European Conference on Computational Biology (ECCB 2003), 2003
2002
J. Comput. Biol., 2002
Using Substitution Matrices to Estimate Probability Distributions for Biological Sequences.
J. Comput. Biol., 2002
Combining pairwise sequence similarity and support vector machines for remote protein homology detection.
Proceedings of the Sixth Annual International Conference on Computational Biology, 2002
Proceedings of the 7th Pacific Symposium on Biocomputing, 2002
Proceedings of the 7th Pacific Symposium on Biocomputing, 2002
Proceedings of the Principles of Data Mining and Knowledge Discovery, 2002
Proceedings of the Advances in Neural Information Processing Systems 15 [Neural Information Processing Systems, 2002
2001
Proceedings of the Fifth Annual International Conference on Computational Biology, 2001
Proceedings of the 6th Pacific Symposium on Biocomputing, 2001
Classification of genes using probabilistic models of microarray expression profiles.
Proceedings of the ACM SIGKDD Workshop on Data Mining in Bioinformatics (BIOKDD 2001), 2001
Using mixtures of common ancestors for estimating the probabilities of discrete events in biological sequences.
Proceedings of the Ninth International Conference on Intelligent Systems for Molecular Biology, 2001
1999
Proceedings of the Third Annual International Conference on Research in Computational Molecular Biology, 1999
MEME, MAST, and Meta-MEME: New Tools for Motif Discovery in Protein Sequences.
Proceedings of the Pattern Discovery in Biomolecular Data: Tools, 1999
1998
Proceedings of the Second Annual International Conference on Research in Computational Molecular Biology, 1998
1997
Comput. Appl. Biosci., 1997
1996
ParaMEME: a parallel implementation and a web interface for a DNA and protein motif discovery tool.
Comput. Appl. Biosci., 1996