Asa Ben-Hur

Publication Activity (10 Years)

Years Active: 1998-2023
Publications (10 Years): 15

Top Topics

Protein Interaction

Rna Secondary Structure Prediction

Comprehensive Evaluation

Negative Examples

Top Venues

Frontiers Bioinform.

Publications

Soumyadip Roy, Asa Ben-Hur
Protein quality assessment with a loss function designed for high-quality decoys. Frontiers Bioinform. 3 (2023)
Don Neumann, Soumyadip Roy, Fayyaz ul Amir Afsar Minhas, Asa Ben-Hur
On the choice of negative examples for prediction of host-pathogen protein interactions. Frontiers Bioinform. 2 (2022)
Don Neumann, Anireddy S. N. Reddy, Asa Ben-Hur
RODAN: a fully convolutional architecture for basecalling nanopore RNA sequencing data. BMC Bioinform. 23 (1) (2022)
Adiba Yaseen, Imran Amin, Naeem Akhter, Asa Ben-Hur, Fayyaz A. Minhas
Insights into performance evaluation of com-pound-protein interaction prediction methods. CoRR (2022)
Fayyaz ul Amir Afsar Minhas, Amina Asif, Asa Ben-Hur
Ten ways to fool the masses with machine learning. CoRR (2019)
Ameni Trabelsi, Mohamed Chaabane, Asa Ben-Hur
Comprehensive Evaluation of Deep Learning Architectures for Prediction of DNA/RNA Sequence Binding Specificities. CoRR (2019)
Ameni Trabelsi, Mohamed Chaabane, Asa Ben-Hur
Comprehensive evaluation of deep learning architectures for prediction of DNA/RNA sequence binding specificities. Bioinform. 35 (14) (2019)
Basir Shariat, Don Neumann, Asa Ben-Hur
BLRM: A Basic Linear Ranking Model for Protein Interface Prediction. BIBM (2018)
Wajid Arshad Abbasi, Amina Asif, Asa Ben-Hur, Fayyaz ul Amir Afsar Minhas
Learning protein binding affinity using privileged information. BMC Bioinform. 19 (1) (2018)
Alex Fout, Jonathon Byrd, Basir Shariat, Asa Ben-Hur
Protein Interface Prediction using Graph Convolutional Networks. NIPS (2017)
Indika Kahanda, Asa Ben-Hur
GOstruct 2.0: Automated Protein Function Prediction for Annotated Proteins. BCB (2017)
Fayyaz ul Amir Afsar Minhas, Eric D. Ross, Asa Ben-Hur
Amino acid composition predicts prion activity. PLoS Comput. Biol. 13 (4) (2017)
Amina Asif, Wajid Arshad Abbasi, Farzeen Munir, Asa Ben-Hur, Fayyaz ul Amir Afsar Minhas
pyLEMMINGS: Large Margin Multiple Instance Classification and Ranking for Bioinformatics Applications. CoRR (2017)
Upulee Kanewala, James M. Bieman, Asa Ben-Hur
Predicting metamorphic relations for testing scientific software: a machine learning approach using graph kernels. Softw. Test. Verification Reliab. 26 (3) (2016)
Cameron Tolooee, Sangmi Lee Pallickara, Asa Ben-Hur
Mendel: A Distributed Storage Framework for Similarity Searching over Sequencing Data. IPDPS (2016)
Christopher S. Funk, Indika Kahanda, Asa Ben-Hur, Karin M. Verspoor
Evaluating a variety of text-mined features for automatic protein function prediction with GOstruct. J. Biomed. Semant. 6 (2015)
Milana Frenkel-Morgenstern, Alessandro Gorohovski, Vincent Lacroix, Mark F. Rogers, Kristina Ibáñez, Cesar Boullosa, Eduardo Andrés León, Asa Ben-Hur, Alfonso Valencia
ChiTaRS: a database of human, mouse and fruit fly chimeric transcripts and RNA-sequencing data. Nucleic Acids Res. 41 (Database-Issue) (2013)
Mark F. Rogers, Christina Boucher, Asa Ben-Hur
SpliceGrapherXT: From Splice Graphs to Transcripts Using RNA-Seq. BCB (2013)
Artem Sokolov, Christopher S. Funk, Kiley Graim, Karin Verspoor, Asa Ben-Hur
Combining heterogeneous data sources for accurate functional annotation of proteins. BMC Bioinform. 14 (S-3) (2013)
Fayyaz ul Amir Afsar Minhas, Asa Ben-Hur
Multiple instance learning of Calmodulin binding sites. Bioinform. 28 (18) (2012)
Artem Sokolov, Asa Ben-Hur
Multi-view prediction of protein function. BCB (2011)
Michael Hamilton, A. S. N. Reddy, Asa Ben-Hur
Kernel methods for Calmodulin binding and binding site prediction. BCB (2011)
Artem Sokolov, Asa Ben-Hur
Hierarchical Classification of Gene Ontology Terms Using the Gostruct Method. J. Bioinform. Comput. Biol. 8 (2) (2010)
Mark F. Rogers, Asa Ben-Hur
The use of gene ontology evidence codes in preventing classifier assessment bias. Bioinform. 25 (9) (2009)
Asa Ben-Hur, Cheng Soon Ong, Sören Sonnenburg, Bernhard Schölkopf, Gunnar Rätsch
Support Vector Machines and Kernels for Computational Biology. PLoS Comput. Biol. 4 (10) (2008)
Asa Ben-Hur
Support vector clustering. Scholarpedia 3 (6) (2008)
Jian Qiu, Martial Hue, Asa Ben-Hur, Jean-Philippe Vert, William Stafford Noble
A structural alignment kernel for protein structures. Bioinform. 23 (9) (2007)
Asa Ben-Hur, William Stafford Noble
Choosing negative examples for the prediction of protein-protein interactions. BMC Bioinform. 7 (S-1) (2006)
Asa Ben-Hur, William Stafford Noble
Kernel methods for predicting protein-protein interactions. ISMB (Supplement of Bioinformatics) (2005)
Roded Sharan, Asa Ben-Hur, Gabriela G. Loots, Ivan Ovcharenko
CREME: Cis-Regulatory Module Explorer for the human genome. Nucleic Acids Res. 32 (Web-Server-Issue) (2004)
Haidong Wang, Eran Segal, Asa Ben-Hur, Daphne Koller, Douglas L. Brutlag
Identifying Protein-Protein Interaction Sites on a Genome-Wide Scale. NIPS (2004)
Isabelle Guyon, Steve R. Gunn, Asa Ben-Hur, Gideon Dror
Result Analysis of the NIPS 2003 Feature Selection Challenge. NIPS (2004)
Asa Ben-Hur, Alexander Roitershtein, Hava T. Siegelmann
On probabilistic analog automata. Theor. Comput. Sci. 320 (2-3) (2004)
Roded Sharan, Ivan Ovcharenko, Asa Ben-Hur, Richard M. Karp
CREME: a framework for identifying cis-regulatory modules in human-mouse conserved segments. ISMB (Supplement of Bioinformatics) (2003)
Asa Ben-Hur, Douglas L. Brutlag
Remote homology detection: a motif based approach. ISMB (Supplement of Bioinformatics) (2003)
Asa Ben-Hur, Joshua Feinberg, Shmuel Fishman, Hava T. Siegelmann
Probabilistic analysis of a differential equation for linear programming. J. Complex. 19 (4) (2003)
Asa Ben-Hur, Alexander Roitershtein, Hava T. Siegelmann
On probabilistic analog automata CoRR (2003)
Asa Ben-Hur, Hava T. Siegelmann, Shmuel Fishman
A Theory of Complexity for Continuous Time Systems. J. Complex. 18 (1) (2002)
Asa Ben-Hur, André Elisseeff, Isabelle Guyon
A Stability Based Method for Discovering Structure in Clustered Data. Pacific Symposium on Biocomputing (2002)
Asa Ben-Hur, David Horn, Hava T. Siegelmann, Vladimir Vapnik
Support Vector Clustering. J. Mach. Learn. Res. 2 (2001)
Asa Ben-Hur, Hava T. Siegelmann
Computation in Gene Networks. MCU (2001)
Asa Ben-Hur, Joshua Feinberg, Shmuel Fishman, Hava T. Siegelmann
Probabilistic analysis of a differential equation for linear programming CoRR (2001)
Asa Ben-Hur, David Horn, Hava T. Siegelmann, Vladimir Vapnik
A Support Vector Method for Clustering. NIPS (2000)
Hava T. Siegelmann, Asa Ben-Hur
Macroscopical Molecular Computation with Gene Networks. UMC (2000)
Asa Ben-Hur, Hava T. Siegelmann, David Horn, Vladimir Vapnik
A Support Vector Clustering Method. ICPR (2000)
Hava T. Siegelmann, Alexander Roitershtein, Asa Ben-Hur
Noisy Neural Networks and Generalizations. NIPS (1999)
Hava T. Siegelmann, Asa Ben-Hur, Shmuel Fishman
A Theory of Complexity for Continuous Time Dynamics. MCU (1) (1998)