Lista de obras - Hiroshi Mamitsuka - Dominio Público Uruguay

A Community Challenge for Inferring Genetic Predictors of Gene Essentialities through Analysis of a Functional Screen of Cancer Cell Lines

artículo científico publicado en 2017

A framework for determining outlying microarray experiments.

artículo científico publicado en 2008

A hidden Markov model-based approach for identifying timing differences in gene expression under different experimental factors

artículo científico publicado en 2007

A hierarchical mixture of Markov models for finding biologically active metabolic paths using gene expression and protein classes

scientific article published on 01 January 2004

A learning method of hidden Markov models for sequence discrimination

artículo científico publicado en 1996

A probabilistic model for mining implicit 'chemical compound-gene' relations from literature

artículo científico publicado en 2005

A probabilistic model for mining labeled ordered trees: capturing patterns in carbohydrate sugar chains

article by N. Ueda et al published August 2005 in IEEE Transactions on Knowledge and Data Engineering

A review of statistical methods for prediction of proteolytic cleavage ⬇️

artículo científico publicado el 2 de diciembre de 2011

Active pathway identification and classification with probabilistic ensembles

artículo científico publicado en 2010

An in silico model for interpreting polypharmacology in drug-target networks

artículo científico publicado en 2013

Annotating gene functions with integrative spectral clustering on microarray expressions and sequences.

artículo científico publicado en 2010

Application of a new probabilistic model for mining implicit associated cancer genes from OMIM and medline

artículo científico publicado en 2007

Application of a new probabilistic model for recognizing complex patterns in glycans

artículo científico publicado en 2004

BMExpert: Mining MEDLINE for Finding Experts in Biomedical Domains Based on Language Model

article

Boosted network classifiers for local feature selection

artículo científico publicado en 2012

CaMPDB: a resource for calpain and modulatory proteolysis.

artículo científico publicado en 2010

Calpain cleavage prediction using multiple kernel learning.

artículo científico publicado en 2011

Classification of Promoters Based on the Combination of Core Promoter Elements Exhibits Different Histone Modification Patterns.

artículo científico publicado en 2016

Computational intelligence in solving bioinformatics problems

artículo científico publicado en 2005

Computational recognition for long non-coding RNA (lncRNA): Software and databases.

artículo científico publicado en 2016

Convex Coupled Matrix and Tensor Completion

artículo científico publicado en 2018

Current status and prospects of computational resources for natural product dereplication: a review

artículo científico publicado en 2015

DeepMeSH: deep semantic representation for improving large-scale MeSH indexing

artículo científico publicado en 2016

Detecting Differentially Coexpressed Genes from Labeled Expression Data: A Brief Review.

artículo científico publicado en 2014

Discriminative graph embedding for label propagation

artículo científico publicado en 2011

DrugE-Rank: Predicting Drug-Target Interactions by Learning to Rank

artículo científico publicado en 2018

DrugE-Rank: improving drug-target interaction prediction of new candidate drugs or targets by ensemble learning to rank

artículo científico publicado en 2016

Efficient Semisupervised MEDLINE Document Clustering With MeSH-Semantic and Global-Content Constraints

artículo científico

Efficient tree-matching methods for accurate carbohydrate database queries.

artículo científico publicado en 2003

Efficiently finding genome-wide three-way gene interactions from transcript- and genotype-data

artículo científico publicado en 2009

Enhancing MEDLINE document clustering by incorporating MeSH semantic similarity

artículo científico

Ensemble approaches for improving HLA class I-peptide binding prediction.

artículo científico publicado en 2010

Essential latent knowledge for protein-protein interactions: analysis by an unsupervised learning approach

artículo científico publicado en 2005

Evaluation of serum-based cancer biomarkers: a brief review from a clinical and computational viewpoint.

artículo científico

Exploring phenotype patterns of breast cancer within somatic mutations: a modicum in the intrinsic code

artículo científico publicado en 2016

Finding the biologically optimal alignment of multiple sequences

artículo científico publicado en 2005

Finding the maximum common subgraph of a partial k-tree and a graph with a polynomially bounded number of spanning trees

article published in 2004

GOLabeler: Improving Sequence-based Large-scale Protein Function Prediction by Learning to Rank

artículo científico publicado en 2018

Generalized Sparse Learning of Linear Models Over the Complete Subgraph Feature Set.

artículo científico publicado en 2016

Genome-wide integration on transcription factors, histone acetylation and gene expression reveals genes co-regulated by histone modification patterns.

artículo científico publicado en 2011

Glycoinformatics: Data Mining-based Approaches ⬇️

artículo científico publicado el 1 de enero de 2011

Graph mining: procedure, application to drug discovery and recent advances ⬇️

artículo científico publicado el 5 de agosto de 2012

HAMSTER: visualizing microarray experiments as a set of minimum spanning trees.

artículo científico publicado en 2009

Identification of endocrine disruptor biodegradation by integration of structure-activity relationship with pathway analysis.

artículo científico publicado en 2007

Identifying neighborhoods of coordinated gene expression and metabolite profiles

artículo científico publicado en 2012

Identifying pathways of coordinated gene expression

artículo científico publicado en 2013

Improving MHC binding peptide prediction by incorporating binding data of auxiliary MHC molecules

artículo científico publicado en 2006

In Silico Predictions of Human Skin Permeability using Nonlinear Quantitative Structure-Property Relationship Models.

artículo científico publicado en 2015

Integrated view of the human chromosome X-centric proteome project

artículo científico publicado en 2012

Introduction to the special issue on GIW 2016

artículo científico publicado en 2016

KCaM (KEGG Carbohydrate Matcher): a software tool for analyzing the structures of carbohydrate sugar chains

artículo científico publicado en 2004

Latent feature kernels for link prediction on sparse graphs

artículo científico publicado en 2012

MeSHLabeler and DeepMeSH: Recent Progress in Large-Scale MeSH Indexing

artículo científico publicado en 2018

MeSHLabeler: improving the accuracy of large-scale MeSH indexing by integrating diverse evidence

artículo científico publicado en 2015

MeSHSim: An R/Bioconductor package for measuring semantic similarity over MeSH headings and MEDLINE documents

artículo científico

MetaMHC: a meta approach to predict peptides binding to MHC molecules.

artículo científico publicado en 2010

MetaMHCpan, A Meta Approach for Pan-Specific MHC Peptide Binding Prediction

artículo científico publicado en 2016

Mining metabolic pathways through gene expression

artículo científico publicado en 2010

Mining new protein-protein interactions. Using a hierarchical latent-variable model to determine the function of a functionally unknown protein

artículo científico publicado en 2005

Mining significant substructure pairs for interpreting polypharmacology in drug-target network

artículo científico publicado en 2011

Mining significant tree patterns in carbohydrate sugar chains.

artículo científico publicado en 2008

Multiple graph label propagation by sparse integration

artículo científico publicado en 2013

NMRPro: an integrated web component for interactive processing and visualization of NMR spectra

artículo científico publicado en 2016

NetPathMiner: R/Bioconductor package for network path mining through gene expression

artículo científico publicado en 2014

On the performance of methods for finding a switching mechanism in gene expression.

artículo científico publicado en 2010

PURE: a PubMed article recommendation system based on content-based filtering.

artículo científico publicado en 2007

Predicting location and structure of beta-sheet regions using stochastic tree grammars.

artículo científico publicado en 1994

Predicting peptides that bind to MHC molecules using supervised learning of hidden Markov models

artículo científico publicado en 1998

Prediction of MHC class I binding peptides by a query learning algorithm based on hidden markov models ⬇️

artículo científico publicado el 1 de junio de 2002

Predictions of Cleavability of Calpain Proteolysis by Quantitative Structure-Activity Relationship Analysis Using Newly Determined Cleavage Sites and Catalytic Efficiencies of an Oligopeptide Array

artículo científico publicado en 2016

Probabilistic path ranking based on adjacent pairwise coexpression for metabolic transcripts analysis

artículo científico publicado en 2007

ProfilePSTMM: capturing tree-structure motifs in carbohydrate sugar chains

artículo científico publicado en 2006

ROS-DET: robust detector of switching mechanisms in gene expression ⬇️

artículo científico publicado el 1 de abril de 2011

Recent advances and prospects of computational methods for metabolite identification: a review with emphasis on machine learning approaches

artículo científico publicado en 2019

Representing inter-residue dependencies in protein sequences with probabilistic networks

artículo científico publicado en 1995

SIMPLE: Sparse Interaction Model over Peaks of moLEcules for fast, interpretable metabolite identification from tandem mass spectra.

artículo científico publicado en 2018

Semi-supervised graph partitioning with decision trees

artículo científico publicado en 2008

SiBIC: A Tool for Generating a Network of Biclusters Captured by Maximal Frequent Itemset Mining

artículo científico publicado en 2018

SiBIC: a web server for generating gene set networks based on biclusters obtained by maximal frequent itemset mining

artículo científico publicado en 2013

TAP Hunter: a SVM-based system for predicting TAP ligands using local description of amino acid sequence ⬇️

artículo científico publicado el 27 de septiembre de 2010

TEPITOPEpan: extending TEPITOPE for peptide binding prediction covering over 700 HLA-DR molecules

artículo científico publicado en 2012

The evolutionary repertoires of the eukaryotic-type ABC transporters in terms of the phylogeny of ATP-binding domains in eukaryotes and prokaryotes

artículo científico publicado en 2004

Toward more accurate pan-specific MHC-peptide binding prediction: a review of current methods and tools.

artículo científico publicado en 2011

Understanding the substrate specificity of conventional calpains.

artículo científico publicado en 2012

alpha-Helix region prediction with stochastic rule learning

artículo científico publicado en 1995

Lista de obras de Hiroshi Mamitsuka

A Community Challenge for Inferring Genetic Predictors of Gene Essentialities through Analysis of a Functional Screen of Cancer Cell Lines

A framework for determining outlying microarray experiments.

A hidden Markov model-based approach for identifying timing differences in gene expression under different experimental factors

A hierarchical mixture of Markov models for finding biologically active metabolic paths using gene expression and protein classes

A learning method of hidden Markov models for sequence discrimination

A probabilistic model for mining implicit 'chemical compound-gene' relations from literature

A probabilistic model for mining labeled ordered trees: capturing patterns in carbohydrate sugar chains

A review of statistical methods for prediction of proteolytic cleavage ⬇️

Active pathway identification and classification with probabilistic ensembles

An in silico model for interpreting polypharmacology in drug-target networks

Annotating gene functions with integrative spectral clustering on microarray expressions and sequences.

Application of a new probabilistic model for mining implicit associated cancer genes from OMIM and medline

Application of a new probabilistic model for recognizing complex patterns in glycans

BMExpert: Mining MEDLINE for Finding Experts in Biomedical Domains Based on Language Model

Boosted network classifiers for local feature selection

CaMPDB: a resource for calpain and modulatory proteolysis.

Calpain cleavage prediction using multiple kernel learning.

Classification of Promoters Based on the Combination of Core Promoter Elements Exhibits Different Histone Modification Patterns.

Computational intelligence in solving bioinformatics problems

Computational recognition for long non-coding RNA (lncRNA): Software and databases.

Convex Coupled Matrix and Tensor Completion

Current status and prospects of computational resources for natural product dereplication: a review

DeepMeSH: deep semantic representation for improving large-scale MeSH indexing

Detecting Differentially Coexpressed Genes from Labeled Expression Data: A Brief Review.

Discriminative graph embedding for label propagation

DrugE-Rank: Predicting Drug-Target Interactions by Learning to Rank

DrugE-Rank: improving drug-target interaction prediction of new candidate drugs or targets by ensemble learning to rank

Efficient Semisupervised MEDLINE Document Clustering With MeSH-Semantic and Global-Content Constraints

Efficient tree-matching methods for accurate carbohydrate database queries.

Efficiently finding genome-wide three-way gene interactions from transcript- and genotype-data

Enhancing MEDLINE document clustering by incorporating MeSH semantic similarity

Ensemble approaches for improving HLA class I-peptide binding prediction.

Essential latent knowledge for protein-protein interactions: analysis by an unsupervised learning approach

Evaluation of serum-based cancer biomarkers: a brief review from a clinical and computational viewpoint.

Exploring phenotype patterns of breast cancer within somatic mutations: a modicum in the intrinsic code

Finding the biologically optimal alignment of multiple sequences

Finding the maximum common subgraph of a partial k-tree and a graph with a polynomially bounded number of spanning trees

GOLabeler: Improving Sequence-based Large-scale Protein Function Prediction by Learning to Rank

Generalized Sparse Learning of Linear Models Over the Complete Subgraph Feature Set.

Genome-wide integration on transcription factors, histone acetylation and gene expression reveals genes co-regulated by histone modification patterns.

Glycoinformatics: Data Mining-based Approaches ⬇️

Graph mining: procedure, application to drug discovery and recent advances ⬇️

HAMSTER: visualizing microarray experiments as a set of minimum spanning trees.

Identification of endocrine disruptor biodegradation by integration of structure-activity relationship with pathway analysis.

Identifying neighborhoods of coordinated gene expression and metabolite profiles

Identifying pathways of coordinated gene expression

Improving MHC binding peptide prediction by incorporating binding data of auxiliary MHC molecules

In Silico Predictions of Human Skin Permeability using Nonlinear Quantitative Structure-Property Relationship Models.

Integrated view of the human chromosome X-centric proteome project

Introduction to the special issue on GIW 2016

KCaM (KEGG Carbohydrate Matcher): a software tool for analyzing the structures of carbohydrate sugar chains

Latent feature kernels for link prediction on sparse graphs

MeSHLabeler and DeepMeSH: Recent Progress in Large-Scale MeSH Indexing

MeSHLabeler: improving the accuracy of large-scale MeSH indexing by integrating diverse evidence

MeSHSim: An R/Bioconductor package for measuring semantic similarity over MeSH headings and MEDLINE documents

MetaMHC: a meta approach to predict peptides binding to MHC molecules.

MetaMHCpan, A Meta Approach for Pan-Specific MHC Peptide Binding Prediction

Mining metabolic pathways through gene expression

Mining new protein-protein interactions. Using a hierarchical latent-variable model to determine the function of a functionally unknown protein

Mining significant substructure pairs for interpreting polypharmacology in drug-target network

Mining significant tree patterns in carbohydrate sugar chains.

Multiple graph label propagation by sparse integration

NMRPro: an integrated web component for interactive processing and visualization of NMR spectra

NetPathMiner: R/Bioconductor package for network path mining through gene expression

On the performance of methods for finding a switching mechanism in gene expression.

PURE: a PubMed article recommendation system based on content-based filtering.

Predicting location and structure of beta-sheet regions using stochastic tree grammars.

Predicting peptides that bind to MHC molecules using supervised learning of hidden Markov models

Prediction of MHC class I binding peptides by a query learning algorithm based on hidden markov models ⬇️

Predictions of Cleavability of Calpain Proteolysis by Quantitative Structure-Activity Relationship Analysis Using Newly Determined Cleavage Sites and Catalytic Efficiencies of an Oligopeptide Array

Probabilistic path ranking based on adjacent pairwise coexpression for metabolic transcripts analysis

ProfilePSTMM: capturing tree-structure motifs in carbohydrate sugar chains

ROS-DET: robust detector of switching mechanisms in gene expression ⬇️

Recent advances and prospects of computational methods for metabolite identification: a review with emphasis on machine learning approaches

Representing inter-residue dependencies in protein sequences with probabilistic networks

SIMPLE: Sparse Interaction Model over Peaks of moLEcules for fast, interpretable metabolite identification from tandem mass spectra.

Semi-supervised graph partitioning with decision trees

SiBIC: A Tool for Generating a Network of Biclusters Captured by Maximal Frequent Itemset Mining

SiBIC: a web server for generating gene set networks based on biclusters obtained by maximal frequent itemset mining