Asa Ben-Hur

According to our database, Asa Ben-Hur authored at least 50 papers between 1998 and 2023.

Collaborative distances:

• Dijkstra number of three.
• Erdős number of three.

2023

Protein quality assessment with a loss function designed for high-quality decoys.

Soumyadip Roy, Asa Ben-Hur

Frontiers Bioinform., May, 2023

2022

On the choice of negative examples for prediction of host-pathogen protein interactions.

Don Neumann, Soumyadip Roy, Fayyaz ul Amir Afsar Minhas, Asa Ben-Hur

Frontiers Bioinform., 2022

Insights into performance evaluation of com-pound-protein interaction prediction methods.

Adiba Yaseen, Imran Amin, Naeem Akhter, Asa Ben-Hur, Fayyaz A. Minhas

CoRR, 2022

RODAN: a fully convolutional architecture for basecalling nanopore RNA sequencing data.

Don Neumann, Anireddy S. N. Reddy, Asa Ben-Hur

BMC Bioinform., 2022

2019

Ten ways to fool the masses with machine learning.

Fayyaz ul Amir Afsar Minhas, Amina Asif, Asa Ben-Hur

CoRR, 2019

Comprehensive evaluation of deep learning architectures for prediction of DNA/RNA sequence binding specificities.

Ameni Trabelsi, Mohamed Chaabane, Asa Ben-Hur

Bioinform., 2019

2018

Learning protein binding affinity using privileged information.

Wajid Arshad Abbasi, Amina Asif, Asa Ben-Hur, Fayyaz ul Amir Afsar Minhas

BMC Bioinform., 2018

BLRM: A Basic Linear Ranking Model for Protein Interface Prediction.

Basir Shariat, Don Neumann, Asa Ben-Hur

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2018

2017

Amino acid composition predicts prion activity.

Fayyaz ul Amir Afsar Minhas, Eric D. Ross, Asa Ben-Hur

PLoS Comput. Biol., 2017

pyLEMMINGS: Large Margin Multiple Instance Classification and Ranking for Bioinformatics Applications.

Amina Asif, Wajid Arshad Abbasi, Farzeen Munir, Asa Ben-Hur, Fayyaz ul Amir Afsar Minhas

CoRR, 2017

Protein Interface Prediction using Graph Convolutional Networks.

Alex Fout, Jonathon Byrd, Basir Shariat, Asa Ben-Hur

Proceedings of the Advances in Neural Information Processing Systems 30: Annual Conference on Neural Information Processing Systems 2017, 2017

GOstruct 2.0: Automated Protein Function Prediction for Annotated Proteins.

Indika Kahanda, Asa Ben-Hur

Proceedings of the 8th ACM International Conference on Bioinformatics, 2017

2016

Predicting metamorphic relations for testing scientific software: a machine learning approach using graph kernels.

Upulee Kanewala, James M. Bieman, Asa Ben-Hur

Softw. Test. Verification Reliab., 2016

Mendel: A Distributed Storage Framework for Similarity Searching over Sequencing Data.

Cameron Tolooee, Sangmi Lee Pallickara, Asa Ben-Hur

Proceedings of the 2016 IEEE International Parallel and Distributed Processing Symposium, 2016

2015

Evaluating a variety of text-mined features for automatic protein function prediction with GOstruct.

Christopher S. Funk, Indika Kahanda, Asa Ben-Hur, Karin M. Verspoor

J. Biomed. Semant., 2015

2013

ChiTaRS: a database of human, mouse and fruit fly chimeric transcripts and RNA-sequencing data.

Milana Frenkel-Morgenstern, Alessandro Gorohovski, Vincent Lacroix, Mark F. Rogers, Kristina Ibáñez, Cesar Boullosa, Eduardo Andrés León, Asa Ben-Hur, Alfonso Valencia

Nucleic Acids Res., 2013

Combining heterogeneous data sources for accurate functional annotation of proteins.

Artem Sokolov, Christopher S. Funk, Kiley Graim, Karin Verspoor, Asa Ben-Hur

BMC Bioinform., 2013

SpliceGrapherXT: From Splice Graphs to Transcripts Using RNA-Seq.

Mark F. Rogers, Christina Boucher, Asa Ben-Hur

Proceedings of the ACM Conference on Bioinformatics, 2013

2012

Multiple instance learning of Calmodulin binding sites.

Fayyaz ul Amir Afsar Minhas, Asa Ben-Hur

Bioinform., 2012

2011

Multi-view prediction of protein function.

Artem Sokolov, Asa Ben-Hur

Proceedings of the ACM International Conference on Bioinformatics, 2011

Kernel methods for Calmodulin binding and binding site prediction.

Michael Hamilton, A. S. N. Reddy, Asa Ben-Hur

Proceedings of the ACM International Conference on Bioinformatics, 2011

2010

Hierarchical Classification of Gene Ontology Terms Using the Gostruct Method.

Artem Sokolov, Asa Ben-Hur

J. Bioinform. Comput. Biol., 2010

2009

The use of gene ontology evidence codes in preventing classifier assessment bias.

Mark F. Rogers, Asa Ben-Hur

Bioinform., 2009

2008

Dexter.

Isabelle Guyon, Steve R. Gunn, Asa Ben-Hur, Gideon Dror

Dataset, February, 2008

Gisette.

Isabelle Guyon, Steve R. Gunn, Asa Ben-Hur, Gideon Dror

Dataset, February, 2008

Dorothea.

Isabelle Guyon, Steve R. Gunn, Asa Ben-Hur, Gideon Dror

Dataset, February, 2008

Arcene.

Isabelle Guyon, Steve R. Gunn, Asa Ben-Hur, Gideon Dror

Dataset, February, 2008

Support vector clustering.

Asa Ben-Hur

Scholarpedia, 2008

Support Vector Machines and Kernels for Computational Biology.

Asa Ben-Hur, Cheng Soon Ong, Sören Sonnenburg, Bernhard Schölkopf, Gunnar Rätsch

PLoS Comput. Biol., 2008

2007

A structural alignment kernel for protein structures.

Jian Qiu, Martial Hue, Asa Ben-Hur, Jean-Philippe Vert, William Stafford Noble

Bioinform., 2007

2006

Choosing negative examples for the prediction of protein-protein interactions.

Asa Ben-Hur, William Stafford Noble

BMC Bioinform., 2006

Design and Analysis of the NIPS2003 Challenge.

Isabelle Guyon, Steve R. Gunn, Asa Ben-Hur, Gideon Dror

Proceedings of the Feature Extraction - Foundations and Applications, 2006

Sequence Motifs: Highly Predictive Features of Protein Function.

Asa Ben-Hur, Douglas L. Brutlag

Proceedings of the Feature Extraction - Foundations and Applications, 2006

2005

Kernel methods for predicting protein-protein interactions.

Asa Ben-Hur, William Stafford Noble

Proceedings of the Proceedings Thirteenth International Conference on Intelligent Systems for Molecular Biology 2005, 2005

2004

On probabilistic analog automata.

Asa Ben-Hur, Alexander Roitershtein, Hava T. Siegelmann

Theor. Comput. Sci., 2004

CREME: Cis-Regulatory Module Explorer for the human genome.

Roded Sharan, Asa Ben-Hur, Gabriela G. Loots, Ivan Ovcharenko

Nucleic Acids Res., 2004

Identifying Protein-Protein Interaction Sites on a Genome-Wide Scale.

Haidong Wang, Eran Segal, Asa Ben-Hur, Daphne Koller, Douglas L. Brutlag

Proceedings of the Advances in Neural Information Processing Systems 17 [Neural Information Processing Systems, 2004

Result Analysis of the NIPS 2003 Feature Selection Challenge.

Isabelle Guyon, Steve R. Gunn, Asa Ben-Hur, Gideon Dror

Proceedings of the Advances in Neural Information Processing Systems 17 [Neural Information Processing Systems, 2004

2003

Probabilistic analysis of a differential equation for linear programming.

Asa Ben-Hur, Joshua Feinberg, Shmuel Fishman, Hava T. Siegelmann

J. Complex., 2003

CREME: a framework for identifying cis-regulatory modules in human-mouse conserved segments.

Roded Sharan, Ivan Ovcharenko, Asa Ben-Hur, Richard M. Karp

Proceedings of the Eleventh International Conference on Intelligent Systems for Molecular Biology, June 29, 2003

Remote homology detection: a motif based approach.

Asa Ben-Hur, Douglas L. Brutlag

Proceedings of the Eleventh International Conference on Intelligent Systems for Molecular Biology, June 29, 2003

2002

A Theory of Complexity for Continuous Time Systems.

Asa Ben-Hur, Hava T. Siegelmann, Shmuel Fishman

J. Complex., 2002

A Stability Based Method for Discovering Structure in Clustered Data.

Asa Ben-Hur, André Elisseeff, Isabelle Guyon

Proceedings of the 7th Pacific Symposium on Biocomputing, 2002

2001

Support Vector Clustering.

Asa Ben-Hur, David Horn, Hava T. Siegelmann, Vladimir Vapnik

J. Mach. Learn. Res., 2001

Computation in Gene Networks.

Asa Ben-Hur, Hava T. Siegelmann

Proceedings of the Machines, 2001

2000

Macroscopical Molecular Computation with Gene Networks.

Hava T. Siegelmann, Asa Ben-Hur

Proceedings of the Unconventional Models of Computation, 2000

A Support Vector Method for Clustering.

Asa Ben-Hur, David Horn, Hava T. Siegelmann, Vladimir Vapnik

Proceedings of the Advances in Neural Information Processing Systems 13, 2000

A Support Vector Clustering Method.

Asa Ben-Hur, Hava T. Siegelmann, David Horn, Vladimir Vapnik

Proceedings of the 15th International Conference on Pattern Recognition, 2000

1999

Noisy Neural Networks and Generalizations.

Hava T. Siegelmann, Alexander Roitershtein, Asa Ben-Hur

Proceedings of the Advances in Neural Information Processing Systems 12, [NIPS Conference, Denver, Colorado, USA, November 29, 1999

1998

A Theory of Complexity for Continuous Time Dynamics.

Hava T. Siegelmann, Asa Ben-Hur, Shmuel Fishman

Proceedings of the International Colloquium Universal Machines and Computations, 1998