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Nucleic Acids Research, ISSN 0305-1048, 07/2019, Volume 47, Issue W1, pp. W295 - W299
MS²PIP is a data-driven tool that accurately predicts peak intensities for a given peptide's fragmentation mass spectrum. Since the release of the MS²PIP web... 
Web Server Issue
Journal Article
Nucleic acids research, ISSN 0305-1048, 05/2019, Volume 47, Issue W1, pp. W357 - W364
SwissTargetPrediction is a web tool, on-line since 2014, that aims to predict the most probable protein targets of small molecules. Predictions are based on... 
Web Server Issue
Journal Article
International Journal of Pure and Applied Mathematics, ISSN 1311-8080, 2018, Volume 119, pp. 2017 - 2022
Journal Article
Nucleic Acids Research, ISSN 0305-1048, 07/2018, Volume 46, Issue W1, pp. W486 - W494
Abstract We present a new update to MetaboAnalyst (version 4.0) for comprehensive metabolomic data analysis, interpretation, and integration with other omics... 
METAANALYSIS | DATABASE | WEB-BASED TOOL | SERVER | BIOCHEMISTRY & MOLECULAR BIOLOGY | WORKFLOW | Web Server Issue
Journal Article
Nucleic Acids Research, ISSN 0305-1048, 07/2018, Volume 46, Issue W1, pp. W537 - W544
Abstract Galaxy (homepage: https://galaxyproject.org, main public server: https://usegalaxy.org) is a web-based scientific analysis platform used by tens of... 
FRAMEWORK | BIOINFORMATICS | RNA | WEB | BIOCHEMISTRY & MOLECULAR BIOLOGY | TOOLS | Web Server Issue
Journal Article
Nucleic Acids Research, ISSN 0305-1048, 07/2017, Volume 45, Issue 1, pp. W130 - W137
Functional enrichment analysis has played a key role in the biological interpretation of high-throughput omics data. As a long-standing and widely used web... 
BIOCHEMISTRY & MOLECULAR BIOLOGY | WEB SERVER | FUNCTIONAL INTERPRETATION | Index Medicus | Web Server Issue
Journal Article
Nucleic acids research, ISSN 0305-1048, 07/2017, Volume 45, Issue W1, pp. W470 - W477
Short linear motifs (SLiMs) in proteins are self-sufficient functional sequences that specify interaction sites for other molecules and thus mediate a... 
Life Sciences | Web Server Issue
Journal Article
Nucleic Acids Research, ISSN 0305-1048, 07/2018, Volume 46, Issue W1, pp. W296 - W303
Abstract Homology modelling has matured into an important technique in structural biology, significantly contributing to narrowing the gap between known... 
FERREDOXIN | BIOCHEMISTRY & MOLECULAR BIOLOGY | SEQUENCE | ENVIRONMENT | HYPERVARIABLE REGION | FRAMEWORK | INFORMATION-DRIVEN | OLIGOMERIZATION | IDENTIFICATION | STRUCTURE PREDICTION | CONFORMATIONS | Web Server Issue
Journal Article
Bioinformation, ISSN 0973-2063, 2016, Volume 12, Issue 2, pp. 78 - 81
Identifying interactions between proteins in a complex is essential to analyze their role in various cellular activities and structural stability. Therefore,... 
Journal Article
Nucleic Acids Research, ISSN 0305-1048, 07/2018, Volume 46, Issue W1, pp. W282 - W288
Abstract The small subunit ribosomal RNA gene (16S rRNA) has been successfully used to catalogue and study the diversity of prokaryotic species and communities... 
SEQUENCES | BIOCHEMISTRY & MOLECULAR BIOLOGY | Web Server Issue
Journal Article
Bioinformation, ISSN 0973-2063, 2016, Volume 12, Issue 1, pp. 9 - 11
Protein-protein interactions are essential for the basic biological machinery of the cell. This is important for processes like protein synthesis, enzyme... 
Journal Article
Nucleic acids research, 07/2018, Volume 46, Issue W1, p. W133
The recent accumulation of gene expression data in the form of RNA sequencing creates unprecedented opportunities to study gene regulation and function.... 
Journal Article
Nucleic acids research, ISSN 0305-1048, 2015, Volume 43, Issue 1, pp. W389 - W394
JPred4 (http://www.compbio.dundee.ac.uk/jpred4) is the latest version of the popular JPred protein secondary structure prediction server which provides... 
FOLD-RECOGNITION | PROFILES | DATABASE | ANNOTATION | BIOCHEMISTRY & MOLECULAR BIOLOGY | 3-DIMENSIONAL STRUCTURES | ACCURACY | Software | Algorithms | Internet | Protein Structure, Secondary | Solvents - chemistry | Index Medicus | Web Server issue
Journal Article
Nucleic Acids Research, ISSN 0305-1048, 07/2017, Volume 45, Issue 1, pp. W30 - W35
IslandViewer (http://www.pathogenomics.sfu.ca/islandviewer/) is a widely-used webserver for the prediction and interactive visualization of genomic islands... 
VISUALIZATION | PATHOGENICITY | DATABASE | BIOCHEMISTRY & MOLECULAR BIOLOGY | ACQUISITION | ANTIBIOTIC-RESISTANCE | IDENTIFICATION | CURATION | Index Medicus | Web Server Issue
Journal Article
Nucleic Acids Research, ISSN 0305-1048, 07/2018, Volume 46, Issue W1, pp. W363 - W367
Abstract Geometric and topological properties of protein structures, including surface pockets, interior cavities and cross channels, are of fundamental... 
VISUALIZATION | POCKETS | BIOCHEMISTRY & MOLECULAR BIOLOGY | GEOMETRY | Web Server Issue
Journal Article
Nucleic Acids Research, ISSN 0305-1048, 07/2017, Volume 45, Issue 1, pp. W122 - W129
The agriGO platform, which has been serving the scientific community for >10 years, specifically focuses on gene ontology (GO) enrichment analyses of plant and... 
GENOME SEQUENCE | GENE SET ENRICHMENT | DATABASE | REJECTIVE MULTIPLE TEST | DRAFT GENOME | ANNOTATION | BIOCHEMISTRY & MOLECULAR BIOLOGY | COMPLEXITY | ONTOLOGY | EXPRESSION | SEMANTIC SIMILARITY | Index Medicus | Web Server Issue
Journal Article
Nucleic acids research, ISSN 0305-1048, 2015, Volume 43, Issue 1, pp. W566 - W570
The Principal Component Analysis (PCA) is a widely used method of reducing the dimensionality of high-dimensional data, often followed by visualizing two of... 
GENE | PACKAGE | BIOCHEMISTRY & MOLECULAR BIOLOGY | Computer Graphics | Multivariate Analysis | Gene Expression Profiling | Software | Internet | Principal Component Analysis | Index Medicus | Web Server issue
Journal Article
Nucleic acids research, ISSN 0305-1048, 2015, Volume 43, Issue 1, pp. W251 - W257
MetaboAnalyst (www.metaboanalyst.ca) is a web server designed to permit comprehensive metabolomic data analysis, visualization and interpretation. It supports... 
VISUALIZATION | DAIRY-COWS | IDENTIFY | PROFILE | MICROARRAY | METABOLISM | DATABASE | BIOCHEMISTRY & MOLECULAR BIOLOGY | POWER | WEB-BASED TOOL | CANCER | Sample Size | Biomarkers - analysis | ROC Curve | Gene Expression Profiling | Software | Internet | Metabolomics - methods | Index Medicus | Web Server issue
Journal Article