List of works - Vasant Honavar

Mobile health technology evaluation: the mHealth evidence workshop

scientific article published on August 2013

Predicting linear B-cell epitopes using string kernels

scientific article published on July 2008

Predicting RNA-protein interactions using only sequence information

scientific article

RNABindR: a server for analyzing and predicting RNA-binding sites in proteins

scientific article (publication date: 8 May 2007)

Prediction of RNA binding sites in proteins from amino acid sequence

scientific article

Predicting DNA-binding sites of proteins from amino acid sequence

scientific article published on 19 May 2006

Glycosylation site prediction using ensembles of Support Vector Machine classifiers

scientific article

A two-stage classifier for identification of protein-protein interface residues

scientific article published in August 2004

Predicting flexible length linear B-cell epitopes.

scientific article

Recent advances in B-cell epitope prediction methods

scientific article

PRIDB: a Protein-RNA interface database

scientific article

Protein-RNA interface residue prediction using machine learning: an assessment of the state of the art

scientific article

Characterization of protein-protein interfaces

scientific article

HomPPI: a class of sequence homology based protein-protein interface prediction methods

scientific article

RNABindRPlus: a predictor that combines machine learning and sequence homology-based methods to improve the reliability of predicted RNA-binding residues in proteins

scientific article (publication date: 2014)

A proteomic analysis of maize chloroplast biogenesis

scientific article published in February 2004

Predicting protein-protein interface residues using local surface structural similarity

scientific article (publication date: 2012)

Computational prediction of protein interfaces: A review of data driven methods

scientific article

Exploring inconsistencies in genome-wide protein function annotations: a machine learning approach

scientific article (publication date: 2007)

Struct-NB: predicting protein-RNA binding sites using structural features

scientific article

Feature subset selection using a genetic algorithm

PlasmoSEP: Predicting surface-exposed proteins on the malaria parasite using semisupervised self-training and expert-annotated data

scientific article (publication date: December 2016)

On Evaluating MHC-II Binding Peptide Prediction Methods

scientific article (publication date: 24 September 2008)

Animal trait ontology: The importance and usefulness of a unified trait vocabulary for animal species

scientific article (publication date: June 2008)

ANEXdb: an integrated animal ANnotation and microarray EXpression database

scientific article (publication date: 20 November 2009)

Predicting binding sites of hydrolase-inhibitor complexes by combining several methods

scientific article

DockRank: Ranking docked conformations using partner-specific sequence homology-based protein interface prediction

scientific article (publication date: 17 October 2013)

Detection of gene orthology from gene co-expression and protein interaction networks

scientific article (publication date: 2010)

Methods for transcriptomic analyses of the porcine host immune response: Application to Salmonella infection using microarrays

scientific article (publication date: December 2010)

Constructive neural-network learning algorithms for pattern classification

scientific article published in January 2000

In Silico Prediction of Linear B-Cell Epitopes on Proteins

scientific article published in January 2017

Identifying interaction sites in "recalcitrant" proteins: predicted protein and RNA binding sites in rev proteins of HIV-1 and EIAV agree with experimental data

scientific article

Template-based protein-protein docking exploiting pairwise interfacial residue restraints

scientific article

PREDICTING FLEXIBLE LENGTH LINEAR B-CELL EPITOPES

article published in 2008

Identification of interface residues in protease-inhibitor and antigen-antibody complexes: a support vector machine approach

scientific article

Predicting the Binding Patterns of Hub Proteins: A Study Using Yeast Protein Interaction Networks

scientific article published on February 19, 2013

Predicting MHC-II binding affinity using multiple instance regression

scientific article

Learn++: an incremental learning algorithm for supervised neural networks

Characterization of the retinal proteome during rod photoreceptor genesis

scientific article

Ranking Docked Models of Protein-Protein Complexes Using Predicted Partner-Specific Protein-Protein Interfaces: A Preliminary Study

Building classifier ensembles for B-cell epitope prediction

scientific article

FastRNABindR: Fast and Accurate Prediction of Protein-RNA Interface Residues

scientific article (publication date: 6 July 2016)

Using a seed-network to query multiple large-scale gene expression datasets from the developing retina in order to identify and prioritize experimental targets.

scientific article published on February 2008

Web Service Substitution Based on Preferences Over Non-functional Attributes

article

Aligning Biomolecular Networks Using Modular Graph Kernels

iScore: a novel graph kernel-based function for scoring protein-protein docking models

scientific article published on 01 January 2020

Striking similarities in diverse telomerase proteins revealed by combining structure prediction and machine learning approaches

scientific article published on January 2008

Package-Based Description Logics

Automated data-driven discovery of motif-based protein function classifiers

article

Semi-supervised prediction of protein subcellular localization using abstraction augmented Markov models

scientific article (publication date: 2010)

List of works by Vasant Honavar

Mobile health technology evaluation: the mHealth evidence workshop

Predicting linear B-cell epitopes using string kernels

Predicting RNA-protein interactions using only sequence information

RNABindR: a server for analyzing and predicting RNA-binding sites in proteins

Prediction of RNA binding sites in proteins from amino acid sequence

Predicting DNA-binding sites of proteins from amino acid sequence

Glycosylation site prediction using ensembles of Support Vector Machine classifiers

A two-stage classifier for identification of protein-protein interface residues

Predicting flexible length linear B-cell epitopes.

Recent advances in B-cell epitope prediction methods

PRIDB: a Protein-RNA interface database

Protein-RNA interface residue prediction using machine learning: an assessment of the state of the art

Characterization of protein-protein interfaces

HomPPI: a class of sequence homology based protein-protein interface prediction methods

RNABindRPlus: a predictor that combines machine learning and sequence homology-based methods to improve the reliability of predicted RNA-binding residues in proteins

A proteomic analysis of maize chloroplast biogenesis

Predicting protein-protein interface residues using local surface structural similarity

Computational prediction of protein interfaces: A review of data driven methods

Exploring inconsistencies in genome-wide protein function annotations: a machine learning approach

Struct-NB: predicting protein-RNA binding sites using structural features

Feature subset selection using a genetic algorithm

PlasmoSEP: Predicting surface-exposed proteins on the malaria parasite using semisupervised self-training and expert-annotated data

On Evaluating MHC-II Binding Peptide Prediction Methods

Animal trait ontology: The importance and usefulness of a unified trait vocabulary for animal species

ANEXdb: an integrated animal ANnotation and microarray EXpression database

Predicting binding sites of hydrolase-inhibitor complexes by combining several methods

DockRank: Ranking docked conformations using partner-specific sequence homology-based protein interface prediction

Detection of gene orthology from gene co-expression and protein interaction networks

Methods for transcriptomic analyses of the porcine host immune response: Application to Salmonella infection using microarrays

Constructive neural-network learning algorithms for pattern classification

In Silico Prediction of Linear B-Cell Epitopes on Proteins

Identifying interaction sites in "recalcitrant" proteins: predicted protein and RNA binding sites in rev proteins of HIV-1 and EIAV agree with experimental data

Template-based protein-protein docking exploiting pairwise interfacial residue restraints

PREDICTING FLEXIBLE LENGTH LINEAR B-CELL EPITOPES

Identification of interface residues in protease-inhibitor and antigen-antibody complexes: a support vector machine approach

Predicting the Binding Patterns of Hub Proteins: A Study Using Yeast Protein Interaction Networks

Predicting MHC-II binding affinity using multiple instance regression

Learn++: an incremental learning algorithm for supervised neural networks

Characterization of the retinal proteome during rod photoreceptor genesis

Ranking Docked Models of Protein-Protein Complexes Using Predicted Partner-Specific Protein-Protein Interfaces: A Preliminary Study

Building classifier ensembles for B-cell epitope prediction

FastRNABindR: Fast and Accurate Prediction of Protein-RNA Interface Residues

Using a seed-network to query multiple large-scale gene expression datasets from the developing retina in order to identify and prioritize experimental targets.

Web Service Substitution Based on Preferences Over Non-functional Attributes

Aligning Biomolecular Networks Using Modular Graph Kernels

iScore: a novel graph kernel-based function for scoring protein-protein docking models

Striking similarities in diverse telomerase proteins revealed by combining structure prediction and machine learning approaches

Package-Based Description Logics

Automated data-driven discovery of motif-based protein function classifiers

Semi-supervised prediction of protein subcellular localization using abstraction augmented Markov models