List of works - Kengo Sato

A Machine Learning Based Approach to de novo Sequencing of Glycans from Tandem Mass Spectrometry Spectrum

scientific article published on November 2015

A NON-PARAMETRIC BAYESIAN APPROACH FOR PREDICTING RNA SECONDARY STRUCTURES

A Non-parametric Bayesian Approach for Predicting RNA Secondary Structures

Adaptive seeds tame genomic sequence comparison

scientific article

An extended genovo metagenomic assembler by incorporating paired-end information

scientific article published on 31 October 2013

CENTROIDFOLD: a web server for RNA secondary structure prediction

scientific article published on 12 May 2009

COPICAT: a software system for predicting interactions between proteins and chemical compounds

scientific article published on 17 January 2012

CentroidAlign: fast and accurate aligner for structured RNAs by maximizing expected sum-of-pairs score

scientific article

CentroidHomfold-LAST: accurate prediction of RNA secondary structure using automatically collected homologous sequences

scientific article

DAFS: simultaneous aligning and folding of RNA sequences via dual decomposition

scientific article

Directed acyclic graph kernels for structural RNA analysis

scientific article

Fast and accurate clustering of noncoding RNAs using ensembles of sequence alignments and secondary structures

scientific article

Genome-wide searching with base-pairing kernel functions for noncoding RNAs: computational and expression analysis of snoRNA families in Caenorhabditis elegans.

scientific article published on 07 January 2009

IPknot: fast and accurate prediction of RNA secondary structures with pseudoknots using integer programming

scientific article

Improved measurements of RNA structure conservation with generalized centroid estimators

scientific article published on 31 August 2011

Improved prediction of transcription binding sites from chromatin modification data

Improving the accuracy of predicting secondary structure for aligned RNA sequences

scientific article

MetaVelvet-SL: an extension of the Velvet assembler to a de novo metagenomic assembler utilizing supervised learning

scientific article

PSSMTS: position specific scoring matrices on tree structures

scientific article published on 7 July 2007

Pair stochastic tree adjoining grammars for aligning and predicting pseudoknot RNA structures

scientific article published on 22 March 2005

Prediction of Gene Structures from RNA-seq Data Using Dual Decomposition

article

Prediction of RNA secondary structure by maximizing pseudo-expected accuracy

scientific article

Prediction of RNA secondary structure using generalized centroid estimators

scientific article

Predictions of RNA secondary structure by combining homologous sequence information

scientific article

RNA secondary structural alignment with conditional random fields

scientific article

RactIP: fast and accurate prediction of RNA-RNA interaction using integer programming

scientific article

Resequencing of the common marmoset genome improves genome assemblies and gene-coding sequence analysis

scientific article

Robust and accurate prediction of noncoding RNAs from aligned sequences

scientific article

Rtips: fast and accurate tools for RNA 2D structure prediction using integer programming

scientific article (publication date: July 2012)

SHARAKU: an algorithm for aligning and clustering read mapping profiles of deep sequencing in non-coding RNA processing

scientific article

Software.ncrna.org: web servers for analyses of RNA sequences

scientific article published on 25 April 2008

Stem kernels for RNA sequence analyses

scientific article published in October 2007

Using binding profiles to predict binding sites of target RNAs

scientific article published in December 2011

Whole genome complete resequencing of Bacillus subtilis natto by combining long reads with high-quality short reads

scientific article

Whole-Genome Sequencing and Comparative Genome Analysis of Bacillus subtilis Strains Isolated from Non-Salted Fermented Soybean Foods

scientific article published on 27 October 2015

List of works by Kengo Sato

A Machine Learning Based Approach to de novo Sequencing of Glycans from Tandem Mass Spectrometry Spectrum

A NON-PARAMETRIC BAYESIAN APPROACH FOR PREDICTING RNA SECONDARY STRUCTURES

A Non-parametric Bayesian Approach for Predicting RNA Secondary Structures

Adaptive seeds tame genomic sequence comparison

An extended genovo metagenomic assembler by incorporating paired-end information

CENTROIDFOLD: a web server for RNA secondary structure prediction

COPICAT: a software system for predicting interactions between proteins and chemical compounds

CentroidAlign: fast and accurate aligner for structured RNAs by maximizing expected sum-of-pairs score

CentroidHomfold-LAST: accurate prediction of RNA secondary structure using automatically collected homologous sequences

DAFS: simultaneous aligning and folding of RNA sequences via dual decomposition

Directed acyclic graph kernels for structural RNA analysis

Fast and accurate clustering of noncoding RNAs using ensembles of sequence alignments and secondary structures

Genome-wide searching with base-pairing kernel functions for noncoding RNAs: computational and expression analysis of snoRNA families in Caenorhabditis elegans.

IPknot: fast and accurate prediction of RNA secondary structures with pseudoknots using integer programming

Improved measurements of RNA structure conservation with generalized centroid estimators

Improved prediction of transcription binding sites from chromatin modification data

Improving the accuracy of predicting secondary structure for aligned RNA sequences

MetaVelvet-SL: an extension of the Velvet assembler to a de novo metagenomic assembler utilizing supervised learning

PSSMTS: position specific scoring matrices on tree structures

Pair stochastic tree adjoining grammars for aligning and predicting pseudoknot RNA structures

Prediction of Gene Structures from RNA-seq Data Using Dual Decomposition

Prediction of RNA secondary structure by maximizing pseudo-expected accuracy

Prediction of RNA secondary structure using generalized centroid estimators

Predictions of RNA secondary structure by combining homologous sequence information

RNA secondary structural alignment with conditional random fields

RactIP: fast and accurate prediction of RNA-RNA interaction using integer programming

Resequencing of the common marmoset genome improves genome assemblies and gene-coding sequence analysis

Robust and accurate prediction of noncoding RNAs from aligned sequences

Rtips: fast and accurate tools for RNA 2D structure prediction using integer programming

SHARAKU: an algorithm for aligning and clustering read mapping profiles of deep sequencing in non-coding RNA processing

Software.ncrna.org: web servers for analyses of RNA sequences

Stem kernels for RNA sequence analyses

Using binding profiles to predict binding sites of target RNAs

Whole genome complete resequencing of Bacillus subtilis natto by combining long reads with high-quality short reads

Whole-Genome Sequencing and Comparative Genome Analysis of Bacillus subtilis Strains Isolated from Non-Salted Fermented Soybean Foods