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jPHYDIT: a JAVA-based integrated environment for molecular phylogeny of ribosomal RNA sequences

Bioinformatics, 2005-07, Vol.21 (14), p.3171-3173

2005

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MpTheory Java library: a multi-platform Java library for systems biology based on the Metabolic P theory

Bioinformatics, 2015-04, Vol.31 (8), p.1328-1330

2015

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HALO—a Java framework for precise transcript half-life determination

Bioinformatics, 2010-05, Vol.26 (9), p.1264-1266

2010

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jSquid: a Java applet for graphical on-line network exploration

Bioinformatics, 2008-06, Vol.24 (12), p.1467-1468

2008

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C.U.R.R.F. (Codon Usage regarding Restriction Finder): A Free Java®-Based Tool to Detect Potential Restriction Sites in Both Coding and Non-Coding DNA Sequences

Molecular biotechnology, 2012-10, Vol.52 (2), p.123-128

2012

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The GlycomeAtlas tool for visualizing and querying glycome data

Bioinformatics, 2012-11, Vol.28 (21), p.2849-2850

2012

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Ontologizer 2.0—a multifunctional tool for GO term enrichment analysis and data exploration

Bioinformatics, 2008-07, Vol.24 (14), p.1650-1651

2008

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ARACNe-AP: gene network reverse engineering through adaptive partitioning inference of mutual information

Bioinformatics (Oxford, England), 2016-07, Vol.32 (14), p.2233-2235

2016

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BMRF-Net: a software tool for identification of protein interaction subnetworks by a bagging Markov random field-based method

Bioinformatics, 2015-07, Vol.31 (14), p.2412-2414

2015

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ABNER: an open source tool for automatically tagging genes, proteins and other entity names in text

Bioinformatics, 2005-07, Vol.21 (14), p.3191-3192

SETTLES, Burr

2005

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Using chemical organization theory for model checking

Bioinformatics, 2009-08, Vol.25 (15), p.1915-1922

2009

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KAnalyze: a fast versatile pipelined k-mer toolkit

Bioinformatics (Oxford, England), 2014-07, Vol.30 (14), p.2070-2072

2014

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MutationFinder: a high-performance system for extracting point mutation mentions from text

Bioinformatics, 2007-07, Vol.23 (14), p.1862-1865

2007

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The GCTx format and cmap{Py, R, M, J} packages: resources for optimized storage and integrated traversal of annotated dense matrices

Bioinformatics, 2019-04, Vol.35 (8), p.1427-1429

2019

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Correction of sequencing errors in a mixed set of reads

Bioinformatics, 2010-05, Vol.26 (10), p.1284-1290

SALMELA, Leena

2010

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Lipid Data Analyzer: unattended identification and quantitation of lipids in LC-MS data

Bioinformatics (Oxford, England), 2011-02, Vol.27 (4), p.572-577

2011

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CLICK and EXPANDER: a system for clustering and visualizing gene expression data

Bioinformatics, 2003-09, Vol.19 (14), p.1787-1799

2003

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SPECTRE: a suite of phylogenetic tools for reticulate evolution

Bioinformatics, 2018-03, Vol.34 (6), p.1056-1057

2018

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The automation of Nested Clade Phylogeographic Analysis

Bioinformatics, 2007-02, Vol.23 (4), p.509-510

Panchal, Mahesh

2007

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GenomeVISTA--an integrated software package for whole-genome alignment and visualization

Bioinformatics (Oxford, England), 2014-09, Vol.30 (18), p.2654-2655

2014

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Genomes as documents of evolutionary history: a probabilistic macrosynteny model for the reconstruction of ancestral genomes

Bioinformatics (Oxford, England), 2017-07, Vol.33 (14), p.i369-i378

2017

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A novel motif-discovery algorithm to identify co-regulatory motifs in large transcription factor and microRNA co-regulatory networks in human

Bioinformatics, 2015-07, Vol.31 (14), p.2348-2355

2015

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Combo: a whole genome comparative browser

Bioinformatics, 2006-07, Vol.22 (14), p.1782-1783

2006

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baobabLUNA: the solution space of sorting by reversals

Bioinformatics, 2009-07, Vol.25 (14), p.1833-1835

Braga, Marília D. V

2009

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PiNGO: a Cytoscape plugin to find candidate genes in biological networks

Bioinformatics, 2011-04, Vol.27 (7), p.1030-1031

2011

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jPHYDIT: a JAVA-based integrated environment for molecular phylogeny of ribosomal RNA sequences

MpTheory Java library: a multi-platform Java library for systems biology based on the Metabolic P theory

HALO—a Java framework for precise transcript half-life determination

jSquid: a Java applet for graphical on-line network exploration

C.U.R.R.F. (Codon Usage regarding Restriction Finder): A Free Java®-Based Tool to Detect Potential Restriction Sites in Both Coding and Non-Coding DNA Sequences

The GlycomeAtlas tool for visualizing and querying glycome data

Ontologizer 2.0—a multifunctional tool for GO term enrichment analysis and data exploration

ARACNe-AP: gene network reverse engineering through adaptive partitioning inference of mutual information

BMRF-Net: a software tool for identification of protein interaction subnetworks by a bagging Markov random field-based method

ABNER: an open source tool for automatically tagging genes, proteins and other entity names in text

Using chemical organization theory for model checking

KAnalyze: a fast versatile pipelined k-mer toolkit

MutationFinder: a high-performance system for extracting point mutation mentions from text

The GCTx format and cmap{Py, R, M, J} packages: resources for optimized storage and integrated traversal of annotated dense matrices

Correction of sequencing errors in a mixed set of reads

Lipid Data Analyzer: unattended identification and quantitation of lipids in LC-MS data

CLICK and EXPANDER: a system for clustering and visualizing gene expression data

SPECTRE: a suite of phylogenetic tools for reticulate evolution

The automation of Nested Clade Phylogeographic Analysis

GenomeVISTA--an integrated software package for whole-genome alignment and visualization

Genomes as documents of evolutionary history: a probabilistic macrosynteny model for the reconstruction of ancestral genomes

A novel motif-discovery algorithm to identify co-regulatory motifs in large transcription factor and microRNA co-regulatory networks in human

Combo: a whole genome comparative browser

baobabLUNA: the solution space of sorting by reversals

PiNGO: a Cytoscape plugin to find candidate genes in biological networks

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