David Haussler

Affiliations:
  • University of California, Santa Cruz, USA


According to our database1, David Haussler authored at least 159 papers between 1980 and 2021.

Collaborative distances:
  • Dijkstra number2 of four.
  • Erdős number3 of two.

Timeline

Legend:

Book 
In proceedings 
Article 
PhD thesis 
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Links

Online presence:

On csauthors.net:

Bibliography

2021
The UCSC Genome Browser database: 2021 update.
Nucleic Acids Res., 2021

Low cost cloud based remote microscopy for biological sciences.
CoRR, 2021

The Immersive Graph Genome Explorer: Navigating Genomics in Immersive Virtual Reality.
Proceedings of the 9th IEEE International Conference on Serious Games and Applications for Health, 2021

2020
Hydra: A mixture modeling framework for subtyping pediatric cancer cohorts using multimodal gene expression signatures.
PLoS Comput. Biol., 2020

UCSC Genome Browser enters 20th year.
Nucleic Acids Res., 2020

Spiking neural state machine for gait frequency entrainment in a flexible modular robot.
CoRR, 2020

Neuromorphic Closed-Loop Control of a Flexible Modular Robot by a Simulated Spiking Central Pattern Generator.
Proceedings of the 3rd IEEE International Conference on Soft Robotics, 2020

2019
The UCSC Genome Browser database: 2019 update.
Nucleic Acids Res., 2019

2018
The UCSC Genome Browser database: 2018 update.
Nucleic Acids Res., 2018

A Flow Procedure for Linearization of Genome Sequence Graphs.
J. Comput. Biol., 2018

2017
The UCSC Genome Browser database: 2017 update.
Nucleic Acids Res., 2017

A Flow Procedure for the Linearization of Genome Sequence Graphs.
Proceedings of the Research in Computational Molecular Biology, 2017

Count Everything: Secure Count Query Framework Across Big Data Centers.
Proceedings of the Summit on Clinical Research Informatics, 2017

2016
The UCSC Genome Browser database: 2016 update.
Nucleic Acids Res., 2016

Representing and decomposing genomic structural variants as balanced integer flows on sequence graphs.
BMC Bioinform., 2016

UCSC Data Integrator and Variant Annotation Integrator.
Bioinform., 2016

2015
Integrative analysis of 111 reference human epigenomes Open.
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Nat., 2015

The UCSC Genome Browser database: 2015 update.
Nucleic Acids Res., 2015

The UCSC Cancer Genomics Browser: update 2015.
Nucleic Acids Res., 2015

Building a Pan-Genome Reference for a Population.
J. Comput. Biol., 2015

The NIH BD2K center for big data in translational genomics.
J. Am. Medical Informatics Assoc., 2015

Canonical, stable, general mapping using context schemes.
Bioinform., 2015

Navigating protected genomics data with UCSC Genome Browser in a Box.
Bioinform., 2015

2014
The UCSC Genome Browser database: 2014 update.
Nucleic Acids Res., 2014

Current status and new features of the Consensus Coding Sequence database.
Nucleic Acids Res., 2014

A unifying model of genome evolution under parsimony.
BMC Bioinform., 2014

Comparative assembly hubs: Web-accessible browsers for comparative genomics.
Bioinform., 2014

The Cancer Genomics Hub (CGHub): overcoming cancer through the power of torrential data.
Database J. Biol. Databases Curation, 2014

Building a Pangenome Reference for a Population.
Proceedings of the Research in Computational Molecular Biology, 2014

2013
The UCSC Interaction Browser: multidimensional data views in pathway context.
Nucleic Acids Res., 2013

ENCODE Data in the UCSC Genome Browser: year 5 update.
Nucleic Acids Res., 2013

The UCSC Genome Browser database: extensions and updates 2013.
Nucleic Acids Res., 2013

The UCSC Cancer Genomics Browser: update 2013.
Nucleic Acids Res., 2013

Discovering causal pathways linking genomic events to transcriptional states using Tied Diffusion Through Interacting Events (TieDIE).
Bioinform., 2013

HAL: a hierarchical format for storing and analyzing multiple genome alignments.
Bioinform., 2013

The UCSC genome browser and associated tools.
Briefings Bioinform., 2013

2012
ENCODE whole-genome data in the UCSC Genome Browser: update 2012.
Nucleic Acids Res., 2012

The UCSC Genome Browser database: extensions and updates 2011.
Nucleic Acids Res., 2012

PARADIGM-SHIFT predicts the function of mutations in multiple cancers using pathway impact analysis.
Bioinform., 2012

2011
The UCSC cancer genomics browser: update 2011.
Nucleic Acids Res., 2011

ENCODE whole-genome data in the UCSC genome browser (2011 update).
Nucleic Acids Res., 2011

The UCSC Genome Browser database: update 2011.
Nucleic Acids Res., 2011

Cactus Graphs for Genome Comparisons.
J. Comput. Biol., 2011

Meta-Alignment with Crumble and Prune: Partitioning very large alignment problems for performance and parallelization.
BMC Bioinform., 2011

Cancer genomics.
Proceedings of the 17th ACM SIGKDD International Conference on Knowledge Discovery and Data Mining, 2011

2010
ENCODE whole-genome data in the UCSC Genome Browser.
Nucleic Acids Res., 2010

The UCSC Genome Browser database: update 2010.
Nucleic Acids Res., 2010

Inference of patient-specific pathway activities from multi-dimensional cancer genomics data using PARADIGM.
Bioinform., 2010

2009
The UCSC Genome Browser Database: update 2009.
Nucleic Acids Res., 2009

2008
The infinite sites model of genome evolution.
Proc. Natl. Acad. Sci. USA, 2008

The UCSC Genome Browser Database: 2008 update.
Nucleic Acids Res., 2008

DUPCAR: Reconstructing Contiguous Ancestral Regions with Duplications.
J. Comput. Biol., 2008

Using native and syntenically mapped cDNA alignments to improve <i>de novo</i> gene finding.
Bioinform., 2008

Computing how we became human.
Proceedings of the 40th Annual ACM Symposium on Theory of Computing, 2008

2007
Comparative Genomics Search for Losses of Long-Established Genes on the Human Lineage.
PLoS Comput. Biol., 2007

Detecting Coevolution in and among Protein Domains.
PLoS Comput. Biol., 2007

Variation resources at UC Santa Cruz.
Nucleic Acids Res., 2007

The ENCODE Project at UC Santa Cruz.
Nucleic Acids Res., 2007

The UCSC genome browser database: update 2007.
Nucleic Acids Res., 2007

A Heuristic Algorithm for Reconstructing Ancestral Gene Orders with Duplications.
Proceedings of the Comparative Genomics, RECOMB 2007 International Workshop, 2007

2006
Unusual Intron Conservation near Tissue-Regulated Exons Found by Splicing Microarrays.
PLoS Comput. Biol., 2006

Identification and Classification of Conserved RNA Secondary Structures in the Human Genome.
PLoS Comput. Biol., 2006

The UCSC Genome Browser Database: update 2006.
Nucleic Acids Res., 2006

Coding Exon Detection Using Comparative Sequences.
J. Comput. Biol., 2006

The UCSC Known Genes.
Bioinform., 2006

New Methods for Detecting Lineage-Specific Selection.
Proceedings of the Research in Computational Molecular Biology, 2006

Ultraconserved Elements, Living Fossil Transposons, and Rapid Bursts of Change: Reconstructing the Uneven Evolutionary History of the Human Genome.
Proceedings of the Research in Computational Molecular Biology, 2006

Detecting the Dependent Evolution of Biosequences.
Proceedings of the Research in Computational Molecular Biology, 2006

2005
The UCSC Proteome Browser.
Nucleic Acids Res., 2005

LS-SNP: large-scale annotation of coding non-synonymous SNPs based on multiple information sources.
Bioinform., 2005

2004
The UCSC Table Browser data retrieval tool.
Nucleic Acids Res., 2004

Combining Phylogenetic and Hidden Markov Models in Biosequence Analysis.
J. Comput. Biol., 2004

Score Functions for Determining Regional Conservation in Two-Species Local Alignments.
J. Comput. Biol., 2004

Computational identification of evolutionarily conserved exons.
Proceedings of the Eighth Annual International Conference on Computational Molecular Biology, 2004

Transcriptome and Genome Conservation of Alternative Splicing Events in Humans and Mice.
Proceedings of the Biocomputing 2004, 2004

Efficient approximations for learning phylogenetic HMM models from data.
Proceedings of the Proceedings Twelfth International Conference on Intelligent Systems for Molecular Biology/Third European Conference on Computational Biology 2004, 2004

Into the heart of darkness: large-scale clustering of human non-coding DNA.
Proceedings of the Proceedings Twelfth International Conference on Intelligent Systems for Molecular Biology/Third European Conference on Computational Biology 2004, 2004

2003
The UCSC Genome Browser Database.
Nucleic Acids Res., 2003

Scoring two-species local alignments to try to statistically separate neutrally evolving from selected DNA segments.
Proceedings of the Sventh Annual International Conference on Computational Biology, 2003

Computational analysis of the human and other mammalian genomes.
Proceedings of the Sventh Annual International Conference on Computational Biology, 2003

Gene structure-based splice variant deconvolution using a microarry platform.
Proceedings of the Eleventh International Conference on Intelligent Systems for Molecular Biology, June 29, 2003

2002
Classifying G-protein coupled receptors with support vector machines.
Bioinform., 2002

2001
Promoter Region-Based Classification of Genes.
Proceedings of the 6th Pacific Symposium on Biocomputing, 2001

2000
A Discriminative Framework for Detecting Remote Protein Homologies.
J. Comput. Biol., 2000

Support vector machine classification and validation of cancer tissue samples using microarray expression data.
Bioinform., 2000

1999
A Probabilistic Approach to a Consensus Multiple Alignment.
Proceedings of the 4th Pacific Symposium on Biocomputing, 1999

Using the Fisher Kernel Method to Detect Remote Protein Homologies.
Proceedings of the Seventh International Conference on Intelligent Systems for Molecular Biology, 1999

Probabilistic kernel regression models.
Proceedings of the Seventh International Workshop on Artificial Intelligence and Statistics, 1999

1998
Sequential Prediction of Individual Sequences Under General Loss Functions.
IEEE Trans. Inf. Theory, 1998

A Graph-theoretic Generalization of the Sauer-Shelah Lemma.
Discret. Appl. Math., 1998

Exploiting Generative Models in Discriminative Classifiers.
Proceedings of the Advances in Neural Information Processing Systems 11, [NIPS Conference, Denver, Colorado, USA, November 30, 1998

1997
A general minimax result for relative entropy.
IEEE Trans. Inf. Theory, 1997

Improved Splice Site Detection in Genie.
J. Comput. Biol., 1997

How to use expert advice.
J. ACM, 1997

Scale-sensitive dimensions, uniform convergence, and learnability.
J. ACM, 1997

A Brief Look at Some Machine Learning Problems in Genomics.
Proceedings of the Tenth Annual Conference on Computational Learning Theory, 1997

Metric Entropy and Minimax Risk in Classification.
Proceedings of the Structures in Logic and Computer Science, 1997

1996
Rigorous Learning Curve Bounds from Statistical Mechanics.
Mach. Learn., 1996

Mining Scientific Data.
Commun. ACM, 1996

Dirichlet mixtures: a method for improved detection of weak but significant protein sequence homology.
Comput. Appl. Biosci., 1996

KDD for Science Data Analysis: Issues and Examples.
Proceedings of the Second International Conference on Knowledge Discovery and Data Mining (KDD-96), 1996

A Generalized Hidden Markov Model for the Recognition of Human Genes in DNA.
Proceedings of the Fourth International Conference on Intelligent Systems for Molecular Biology, 1996

1995
A Generalization of Sauer's Lemma.
J. Comb. Theory, Ser. A, 1995

Sphere Packing Numbers for Subsets of the Boolean n-Cube with Bounded Vapnik-Chervonenkis Dimension.
J. Comb. Theory, Ser. A, 1995

Characterizations of Learnability for Classes of {0, ..., n}-Valued Functions.
J. Comput. Syst. Sci., 1995

The size of k-pseudotrees.
Discret. Math., 1995

Tight worst-case loss bounds for predicting with expert advice.
Proceedings of the Computational Learning Theory, Second European Conference, 1995

General Bounds on the Mutual Information Between a Parameter and <i>n</i> Conditionally Independent Observations.
Proceedings of the Eigth Annual Conference on Computational Learning Theory, 1995

1994
Predicting \0,1\-Functions on Randomly Drawn Points
Inf. Comput., December, 1994

Bounds on the Sample Complexity of Bayesian Learning Using Information Theory and the VC Dimension.
Mach. Learn., 1994

Optimally Parsing a Sequence into Different Classes Based on Multiple Types of Evidence.
Proceedings of the Second International Conference on Intelligent Systems for Molecular Biology, 1994

RNA Modeling Using Gibbs Sampling and Stochastic Context Free Grammars.
Proceedings of the Second International Conference on Intelligent Systems for Molecular Biology, 1994

Stochastic Context-Free Grammars for Modeling RN.
Proceedings of the 27th Annual Hawaii International Conference on System Sciences (HICSS-27), 1994

Recent Methods for RNA Modeling Using Stochastic Context-Free Grammars.
Proceedings of the Combinatorial Pattern Matching, 5th Annual Symposium, 1994

1993
Using Dirichlet Mixture Priors to Derive Hidden Markov Models for Protein Families.
Proceedings of the 1st International Conference on Intelligent Systems for Molecular Biology, 1993

1992
Decision Theoretic Generalizations of the PAC Model for Neural Net and Other Learning Applications
Inf. Comput., September, 1992

1991
Equivalence of Models for Polynomial Learnability
Inf. Comput., December, 1991

Estimating Average-Case Learning Curves Using Bayesian, Statistical Physics and VC Dimension Methods.
Proceedings of the Advances in Neural Information Processing Systems 4, 1991

Unsupervised Learning of Distributions of Binary Vectors Using 2-Layer Networks.
Proceedings of the Advances in Neural Information Processing Systems 4, 1991

Calculation of the Learning Curve of Bayes Optimal Classification Algorithm for Learning a Perceptron With Noise.
Proceedings of the Fourth Annual Workshop on Computational Learning Theory, 1991

1990
Boolean Feature Discovery in Empirical Learning.
Mach. Learn., 1990

Decision Theoretic Generalizations of the PAC Learning Model.
Proceedings of the Algorithmic Learning Theory, First International Workshop, 1990

Probably Approximately Correct Learning.
Proceedings of the 8th National Conference on Artificial Intelligence. Boston, Massachusetts, USA, July 29, 1990

1989
A General Lower Bound on the Number of Examples Needed for Learning
Inf. Comput., September, 1989

Learning Decision Trees from Random Examples
Inf. Comput., September, 1989

What Size Net Gives Valid Generalization?
Neural Comput., 1989

Learning Conjunctive Concepts in Structural Domains.
Mach. Learn., 1989

Learnability and the Vapnik-Chervonenkis dimension.
J. ACM, 1989

Average sizes of suffix trees and DAWGs.
Discret. Appl. Math., 1989

Two Algorithms That Learn DNF by Discovering Relevant Features.
Proceedings of the Sixth International Workshop on Machine Learning (ML 1989), 1989

Generalizing the PAC Model: Sample Size Bounds From Metric Dimension-based Uniform Convergence Results
Proceedings of the 30th Annual Symposium on Foundations of Computer Science, Research Triangle Park, North Carolina, USA, 30 October, 1989

Informed Parsimonious Inference of Prototypical Genetic Sequences.
Proceedings of the Second Annual Workshop on Computational Learning Theory, 1989

1988
A new distance metric on strings computable in linear time.
Discret. Appl. Math., 1988

Quantifying Inductive Bias: AI Learning Algorithms and Valiant's Learning Framework.
Artif. Intell., 1988

Predicting {0,1}-Functions on Randomly Drawn Points (Extended Abstract)
Proceedings of the 29th Annual Symposium on Foundations of Computer Science, 1988

Predicting {0, 1}-Functions on Randomly Drawn Points.
Proceedings of the First Annual Workshop on Computational Learning Theory, 1988

1987
Applications of an Infinite Square-Free CO-CFL.
Theor. Comput. Sci., 1987

New Theoretical Directions in Machine Learning.
Mach. Learn., 1987

Complete inverted files for efficient text retrieval and analysis.
J. ACM, 1987

Occam's Razor.
Inf. Process. Lett., 1987

epsilon-Nets and Simplex Range Queries.
Discret. Comput. Geom., 1987

Partitioning and Geometric Embedding of Range Spaces of Finite Vapnik-Chervonenkis Dimension.
Proceedings of the Third Annual Symposium on Computational Geometry, 1987

1986
Sequence landscapes.
Nucleic Acids Res., 1986

The complexity of cells in three-dimensional arrangements.
Discret. Math., 1986

Classifying Learnable Geometric Concepts with the Vapnik-Chervonenkis Dimension (Extended Abstract)
Proceedings of the 18th Annual ACM Symposium on Theory of Computing, 1986

Quantifying the Inductive Bias in Concept Learning (Extended Abstract).
Proceedings of the 5th National Conference on Artificial Intelligence. Philadelphia, 1986

1985
On Total Regulators Generated by Derivation Relations.
Theor. Comput. Sci., 1985

The Smallest Automaton Recognizing the Subwords of a Text.
Theor. Comput. Sci., 1985

Another generalization of Higman's well quasi order result on Sigma<sup>*</sup>.
Discret. Math., 1985

Applications of an Infinite Squarefree CO-CFL.
Proceedings of the Automata, 1985

1984
On the Complexity of Iterated Shuffle.
J. Comput. Syst. Sci., 1984

On Ambiguity in Dos Systems.
RAIRO Theor. Informatics Appl., 1984

Building a Complete Inverted File for a Set of Text Files in Linear Time
Proceedings of the 16th Annual ACM Symposium on Theory of Computing, April 30, 1984

Building the Minimal DFA for the Set of all Subwords of a Word On-line in Linear Time.
Proceedings of the Automata, 1984

1983
On Regularity of Context-Free Languages.
Theor. Comput. Sci., 1983

Insertion languages.
Inf. Sci., 1983

Linear size finite automata for the set of all subwords of a word - an outline of results.
Bull. EATCS, 1983

1982
Conditions Enforcing Regularity of Context-Free Languages.
Proceedings of the Automata, 1982

1980
Very Special Languages and Representations of Recursively Enumerable Languages via Computation Histories
Inf. Control., December, 1980


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