> Tag > Links tagged with 'statistical data interpretation'

Links tagged with 'statistical data interpretation'

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Found 23 links

Displaying 15 links

Resources (0) Databases (0) Tools (23)

ArrayXPathTool Content

http://www.snubi.org/software/ArrayXPath/ [open in a new window]

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Expression > Transcript Expression Analysis
Protein > Networks & Interactions, Pathways and 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.

links directory index: 111
TitlePublication YearGoogle Scholar Citation Count
ArrayXPath II: mapping and visualizing microarray gene-expression data with biomedical ontologies and integrated biological pathway resources using Scalable Vector Graphics200543
ArrayXPath: mapping and visualizing microarray gene-expression data with integrated biological pathway resources using Scalable Vector Graphics200468
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

ASIANTool Content

http://eureka.cbrc.jp/asian/ [open in a new window]

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Expression > Transcript Expression Analysis

ASIAN (Automatic System for Inferring a Network) is a server for inferring regulatory networks from gene expression profiles that combines cluster analysis, regression analysis, and graphical Gaussian modeling.

links directory index: 287
TitlePublication YearGoogle Scholar Citation Count
ASIAN: a web server for inferring a regulatory network framework from gene expression profiles200523
ASIAN: a website for network inference200417
Inference of a genetic network by a combined approach of cluster analysis and graphical Gaussian modeling2002186
Statistical estimation of cluster boundaries in gene expression profile data200161
NAR Web Server Issue 2005
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tagsanalysis of variance bayes theorem biological models cluster analysis computational biology computer simulation factual databases fungal genes gene expression gene expression profiling gene expression regulation genetic models oligonucleotide array sequence analysis proteome regression analysis saccharomyces cerevisiae signal transduction statistical data interpretation statistical models

CorGenTool Content

http://corgen.molgen.mpg.de [open in a new window]

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DNA > Structure and Sequence Feature Detection

CorGenmeasures long-range correlations in DNA sequences and can generate random sequences with the same (or user-specified) correlation and composition parameters.

links directory index: 11
TitlePublication YearGoogle Scholar Citation Count
CorGen--measuring and generating long-range correlations for DNA sequence analysis200611
NAR Web Server Issue 2006
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tagsalgorithms base composition computational biology cytosine dna sequence analysis genomics guanine humans sequence alignment statistical data interpretation

DAVID Bioinformatics ResourcesTool Content

http://david.abcc.ncifcrf.gov/home.jsp [open in a new window]

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DNA > Annotations
Expression > Gene Regulation
Human Genome > Annotations
Protein > Networks & Interactions, Pathways and Enzymes
Sequence Comparison > Comparative Genomics

The Database for Annotation, Visualization and Integrated Discovery (DAVID) provides a comprehensive set of functional annotation tools for investigators to understand biological meaning behind large list of genes.

links directory index: 3468
TitlePublication YearGoogle Scholar Citation Count
DAVID Bioinformatics Resources: expanded annotation database and novel algorithms to better extract biology from large gene lists2007161
DAVID: Database for Annotation, Visualization, and Integrated Discovery20033307
NAR Web Server Issue 2007
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tagsalgorithms automated pattern recognition computational biology gene expression profiling genetic databases genomics hiv-1 humans macrophages mononuclear leukocytes nucleic acid databases oligonucleotide array sequence analysis statistical data interpretation

DHcLTool Content

http://sitron.bccs.uib.no/dhcl/ [open in a new window]

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Protein > Domains and Motifs

DHcL provides analysis of the hierarchy of protein domain structures. DHcL detects closed loops and van der Waals locks, and outputs domain decomposition at different levels of protein domain structure hierarchy.

links directory index: 10
TitlePublication YearGoogle Scholar Citation Count
Domain Hierarchy and closed Loops (DHcL): a server for exploring hierarchy of protein domain structure200810
NAR Web Server Issue 2008
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tagsmolecular models statistical data interpretation tertiary protein structure x-ray crystallography

fastSCOPTool Content

http://gemdock.life.nctu.edu.tw/fastSCOP/ [open in a new window]

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Protein > 3-D Structure Comparison
Protein > Domains and Motifs
Sequence Comparison > Similarity Searching and Classification

fastSCOP identifies structural domains and determines evolutionary superfamilies of a query protein structure using 3D-BLAST to scan SCOP and MAMMOTH to create a structural alignment for refining domain boundaries.

links directory index: 16
TitlePublication YearGoogle Scholar Citation Count
fastSCOP: a fast web server for recognizing protein structural domains and SCOP superfamilies200716
NAR Web Server Issue 2007
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tagsamino acid sequence amino acid sequence homology computational biology molecular evolution molecular models molecular sequence data protein conformation protein databases protein sequence analysis protein structural homology proteins statistical data interpretation tertiary protein structure

g:ProfilerTool Content

http://biit.cs.ut.ee/gprofiler/ [open in a new window]

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DNA > Annotations
DNA > Sequence Polymorphisms
Expression > Gene Regulation
Expression > Transcript Expression Analysis
Protein > Domains and Motifs
Protein > Networks & Interactions, Pathways and Enzymes

g:Profiler is a set of tools for functional annotation of gene lists that includes: g:GOSt, which retrieves the most significant Gene Ontology (GO) terms, KEGG and REACTOME pathways, and TRANSFAC motifs; g:Convert, for conversion between gene or protein names/IDs; g:Orth, for retrieving orthologs; and, g:Sorter, which searches for similar expression profiles. Functional analysis of SNPs and other DNA polymorphisms is also supported, as is enrichment analysis.

links directory index: 120
TitlePublication YearGoogle Scholar Citation Count
g:Profiler--a web-based toolset for functional profiling of gene lists from large-scale experiments2007120
NAR Web Server Issue 2007NAR Web Server Issue 2011
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tagsalgorithms animals computational biology dna gene expression profiling genomics humans messenger rna oligonucleotide array sequence analysis statistical data interpretation

GDAPTool Content

http://www.doe-mbi.ucla.edu/Services/GDAP [open in a new window]

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Protein > Biochemical Features
Protein > Sequence Features

The Genomic Disulfide Analysis Program (GDAP) predicts disulfide bonds for a user-supplied protein sequence. GDAP also provides access to pre-computed predictions of disulfide bonds for over 100 microbial genomes.

links directory index: 24
TitlePublication YearGoogle Scholar Citation Count
GDAP: a web tool for genome-wide protein disulfide bond prediction200424
NAR Web Server Issue 2004
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tagsarchaeal genome archaeal proteins bacterial genome bacterial proteins cysteine disulfides protein sequence analysis statistical data interpretation

GFINDerTool Content

http://www.medinfopoli.polimi.it/GFINDer/ [open in a new window]

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Expression > Transcript Expression Analysis

Genome Functional INtegrated Discoverer (GFINDer) takes a list of gene/clone IDs with classification information as input, and allows the user to characterize the different gene classes in the list using annotations of various types from several different sources.

links directory index: 115
TitlePublication YearGoogle Scholar Citation Count
GFINDer: genetic disease and phenotype location statistical analysis and mining of dynamically annotated gene lists200552
GFINDer: Genome Function INtegrated Discoverer through dynamic annotation, statistical analysis, and mining200463
NAR Web Server Issue 2004NAR Web Server Issue 2005
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tagscomputational biology controlled vocabulary gene expression profiling genetic databases genomics humans inborn genetic diseases oligonucleotide array sequence analysis phenotype proteins statistical data interpretation systems integration

JProGOTool Content

http://www.jprogo.de/index.jsp [open in a new window]

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Expression > Transcript Expression Analysis
Model Organisms > Microbes

JProGO is a tool for the functional interpretation of prokaryotic microarray data using Gene Ontology information.

links directory index: 26
TitlePublication YearGoogle Scholar Citation Count
JProGO: a novel tool for the functional interpretation of prokaryotic microarray data using Gene Ontology information200626
NAR Web Server Issue 2006
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tagsarchaea archaeal genes bacteria bacterial genes controlled vocabulary gene expression profiling oligonucleotide array sequence analysis statistical data interpretation

KOBASTool Content

http://kobas.cbi.pku.edu.cn [open in a new window]

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DNA > Annotations
Human Genome > Databases
Protein > Networks & Interactions, Pathways and Enzymes

KEGG Orthology-Based Annotation System (KOBAS) annotates sequences with KEGG Orthology terms and identifies the frequently occurring (or significantly enriched) pathways among the queried sequences compared against a background distribution. 5 pathway databases are used (KEGG Pathway, PID, BioCyc, Reactome, Panther) and 5 human databases (OMIM, KEGG Disease, FunDO, GAD, NHGRI GWAS).

links directory index: 215
TitlePublication YearGoogle Scholar Citation Count
KOBAS server: a web-based platform for automated annotation and pathway identification200675
Automated genome annotation and pathway identification using the KEGG Orthology (KO) as a controlled vocabulary2005140
NAR Web Server Issue 2006NAR Web Server Issue 2011
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tagsalzheimer disease artificial intelligence biological models chromosome mapping controlled vocabulary database management systems documentation genes genetic databases hippocampus natural language processing proteins proteome sequence analysis signal transduction statistical data interpretation up-regulation

MaXIC-QTool Content

http://ms.iis.sinica.edu.tw/MaXIC-Q [open in a new window]

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Protein > Proteomics

The MaXIC-Q web server performs various quantification analyses on large-scale datasets generated from proteomics studies using isotope labeling. For input MS data, output is given in projected ion mass spectrum and extracted ion chromatograph which can be used to generate other calculations (e.g. ion abundances and peptide-protein ratios.

links directory index: 3
TitlePublication YearGoogle Scholar Citation Count
MaXIC-Q Web: a fully automated web service using statistical and computational methods for protein quantitation based on stable isotope labeling and LC-MS20093
NAR Web Server Issue 2009
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tagscomputational biology endothelial cells isotope labeling liquid chromatography mass spectrometry nitric acid peptides proteins reproducibility of results statistical data interpretation

MIDAWTool Content

http://midaw.cribi.unipd.it/dnachip/ [open in a new window]

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Expression > Transcript Expression Analysis

MIDAW (MIcroarray Data Analysis Web tool) is a data normalization and analysis tool for microarray data.

links directory index: 38
TitlePublication YearGoogle Scholar Citation Count
MIDAW: a web tool for statistical analysis of microarray data200538
NAR Web Server Issue 2005
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tagsalgorithms gene expression profiling normal distribution oligonucleotide array sequence analysis statistical data interpretation

NDB ToolsTool Content

http://ndbserver.rutgers.edu/services/ [open in a new window]

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RNA > Motifs
RNA > Structure Prediction, Visualization, and Design

The Nucleic Acid Database (NDB) Tools page includes RNAView and BPView, programs for the visualization and classification of RNA base pairs, motifs, and structures.

links directory index: 1276
TitlePublication YearGoogle Scholar Citation Count
Tools for the automatic identification and classification of RNA base pairs2003125
Geometric nomenclature and classification of RNA base pairs2001373
The nucleic acid database. A comprehensive relational database of three-dimensional structures of nucleic acids1992778
NAR Web Server Issue 2003
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tagsalgorithms base pairing base sequence chemical models dna factual databases molecular models molecular sequence data nucleic acid conformation nucleic acid databases nucleic acid sequence homology proteins restriction mapping ribosomal rna rna signal recognition particle statistical data interpretation stereoisomerism terminology as topic water

NQ-FlipperTool Content

https://flipper.services.came.sbg.ac.at/cgi-bin/flipper.php [open in a new window]

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Protein > 3-D Structure Prediction

NQ-Flipper recognizes unfavorable rotamers of Asn and Gln residues in protein structures.

links directory index: 55
TitlePublication YearGoogle Scholar Citation Count
NQ-Flipper: recognition and correction of erroneous asparagine and glutamine side-chain rotamers in protein structures200718
Self-consistent assignment of asparagine and glutamine amide rotamers in protein crystal structures200618
NQ-Flipper: validation and correction of asparagine/glutamine amide rotamers in protein crystal structures200619
NAR Web Server Issue 2007
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tagsamides asparagine computational biology crystallography escherichia coli glutamine molecular conformation molecular models protein conformation protein databases protein folding proteins reproducibility of results statistical data interpretation stereoisomerism structural models thermodynamics

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