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Links tagged with 'cluster analysis'

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Found 57 links

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AcromineTool Content

http://www.nactem.ac.uk/software/acromine/

Literature > Text Mining and Semantics

Acromine is an tool that finds full forms of acronyms that appear in MEDLINE.

This content is being maintained by pthompson.

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tagsalgorithms automatic acronym expansion bibliographic databases cluster analysis computational biology dictionaries as topic medline natural language processing polymerase chain reaction reproducibility of results statistical models x-ray computed tomography
setsUniversity of Manchester

Acromine DisambiguatorTool Content

http://www.nactem.ac.uk/software/acromine_disambiguation/

Literature > Text Mining and Semantics

Given a biomedical text, Acromine Disambiguator correctly predicts expanded full forms of acronoyms appearing in the text. As acronyms appearing in biomedical texts are often ambiguous, such a disambiguation process is important to ensure the correct interpretation of the text.

This content is being maintained by pthompson.

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tagsalgorithms automatic acronym disambiguation automatic acronym expansion bibliographic databases cluster analysis computational biology dictionaries as topic medline natural language processing polymerase chain reaction reproducibility of results statistical models x-ray computed tomography
setsUniversity of Manchester

AMIC@Tool Content

http://bioalgo.iit.cnr.it/amica

Expression > Transcript Expression Analysis

The All Microarray Clustering @ once (AMIC@) web application provides users with a range of microarray gene expression data clustering algorithms. Algorithms can be run concurrently on the same data sets. Data can be visualized by heat maps and downloaded as a standard clustered data file for further analysis.

NAR Web Server Issue 2008
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tagsalgorithms cluster analysis gene expression profiling oligonucleotide array sequence analysis

ArrayXPathTool Content

http://www.snubi.org/software/ArrayXPath/

Expression > Transcript Expression Analysis
Protein > Interactions, Pathways, Enzymes

ArrayXPath is a web-based service for matching microarray gene-expression profiles with known biological pathways. Input is a clustered gene-expression profile in a tab-delimited text format. Output includes pathway diagrams.

NAR Web Server Issue 2004NAR Web Server Issue 2005
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tagscluster analysis gene expression profiling genetic databases genetic predisposition to disease medical subject headings oligonucleotide array sequence analysis signal transduction statistical data interpretation systems integration

AsteriasTool Content

http://asterias.bioinfo.cnio.es/

DNA > Annotations
Expression > Transcript Expression Analysis

Asterias is a set of tools for the analyses of high throughput genomic data that includes applications for microarray data normalization, filtering, detection of differential gene expression, class and survival prediction model building, and analysis of array CGH data. Most applications use parallel computing resulting in significant increases in speed.

This content is being maintained by rdiaz02.

NAR Web Server Issue 2007
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tagsalgorithms animals automated pattern recognition automation cluster analysis computational biology computer simulation database management systems dna sequence analysis gene expression profiling genetic models genomics humans nucleic acid hybridization oligonucleotide array sequence analysis programming languages sequence alignment statistical models

AutoClass@IJMTool Content

http://www.ijm.fr/en/ijm/resources/bioinformatics/

Expression > Gene Set Analysis
Expression > Protein Expression
Expression > Transcript Expression Analysis
Human Genome > Genomics
Protein > Protein Expression

AutoClass is an unsupervised Bayesian classification system. AutoClass@IJM provides a web interface for this clustering algorithm.

NAR Web Server Issue 2009
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tagsalgorithms bayes theorem classification cluster analysis gene expression profiling oligonucleotide array sequence analysis

BAR-PLUSTool Content

http://bar.biocomp.unibo.it/bar2.0

Protein > Annotation and Function

BAR-PLUS is a web tool for functional and structural annotation of protein sequences based on a large scale genome cross comparison and a non-hierarchical clustering procedure. Sequence annotation is derived from UniProtKB, GO, Pfam and PDB.

NAR Web Server Issue 2011
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tagscluster analysis molecular sequence annotation protein conformation protein sequence analysis proteins sequence alignment

Berkeley Drosophila Genome ProjectResource Content

http://www.fruitfly.org/

Model Organisms > Fly

Good entrez to fly genome resources.

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tagsamino acid sequence animals base sequence cell line cluster analysis complementary dna dna sequence analysis drosophila melanogaster expressed sequence tags gene library genetic databases genome insect genes male membrane glycoproteins membrane proteins molecular sequence data rna sequence alignment testis

bioNMFTool Content

http://bionmf.dacya.ucm.es/

DNA > Structure and Sequence Feature Detection
Expression > Protein Expression
Expression > Transcript Expression Analysis
Literature > Text Mining and Semantics
Protein > Proteomics

A web-based tool based on nonnegative matrix factorization (NMF) that can be used to provide new information from multi-dimensional biological data sets.

NAR Web Server Issue 2008
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tagsalgorithms cluster analysis computational biology gene expression profiling

CARMAwebTool Content

https://carmaweb.genome.tugraz.at/carma/

Expression > Transcript Expression Analysis

Comprehensive R based Microarray Analysis web service (CARMAweb) is a resource for the analyses of microarray data including data preprocessing, detection for differentially expressed genes, cluster analysis, and GO analysis. Calculations are performed in R using functions provided by BioConductor.

This content is being maintained by johannes.rainer.

NAR Web Server Issue 2006
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tagscluster analysis controlled vocabulary gene expression profiling oligonucleotide array sequence analysis

ChemMine ToolsTool Content

http://chemmine.ucr.edu

Other Molecules > Small Molecules

ChemMine Tools is an online service for analyzing and clustering small molecules. A suite of cheminformatics and data mining tools for data visualization, structure comparison, similarity searching, compound clustering and prediction of chemical properties are available.

NAR Web Server Issue 2011
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tagsalgorithms cluster analysis data mining drug discovery genomics pharmaceutical preparations small molecule libraries structure-activity relationship

CLICTool Content

http://gexp2.kaist.ac.kr/clic

Expression > Transcript Expression Analysis

CLIC performs clustering analysis of large microarray datasets. Genes are first clustered in individual dimensions and then using the ordinal labels of clusters for each dimension, full dimension wide clustering is performed.

NAR Web Server Issue 2010
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tagsalgorithms cluster analysis gene expression profiling humans oligonucleotide array sequence analysis tumor cell line

ClusProTool Content

http://cluspro.bu.edu/login.php

Protein > Molecular Dynamics and Docking

ClusPro is a tool for automatically computing the docking of two protein structures supplied by the user (or as PDB IDs). The result set is a ranked list of putative complexes, ordered by clustering properties.

NAR Web Server Issue 2004
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tagsalgorithms antibodies antigens binding sites biological models chemical models cluster analysis computational biology discriminant analysis energy transfer enzyme inhibitors fourier analysis molecular dynamics simulation molecular models monte carlo method protein binding protein conformation protein interaction mapping protein multimerization proteins reproducibility of results sensitivity and specificity static electricity time factors

Cluster BusterTool Content

http://zlab.bu.edu/cluster-buster/

DNA > Structure and Sequence Feature Detection
Expression > Gene Regulation

Cluster Buster is a tool that finds clusters of pre-specified motifs in DNA sequences.

NAR Web Server Issue 2003
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tagsbinding sites cluster analysis dna sequence analysis genetic code humans nucleic acid regulatory sequences transcription factors

CPA - Comparative Pathway AnalyzerTool Content

https://www.cebitec.uni-bielefeld.de/groups/brf/software/cpa/index.html

Expression > Networks
Model Organisms > Microbes
Protein > Interactions, Pathways, Enzymes

The Comparative Pathway Analyzer (CPA) is a web tool for comparative metabolic network analysis. The differences in metabolic reaction content between two sets of organisms are computed and displayed on KEGG pathway maps.

NAR Web Server Issue 2008
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tagscluster analysis factual databases metabolic networks and pathways