> Tag > Links tagged with 'protein databases'

Links tagged with 'protein databases'

RSS Feed Compact View Sort by Links Directory Index
downloadList as XML List as JSON List as TSV List as CSV

Found 353 links

Displaying 8 links

Hide Resources (9)Hide Databases (208)Hide Tools (136)

VirHostnetDatabase Content

http://pbildb1.univ-lyon1.fr/virhostnet/login.php [open in a new window]

Share This Link
Model Organisms > Microbes
Protein > Networks & Interactions, Pathways and Enzymes

Virus-Host Network is a knowledge-base system dedicated to the curation, the integration, the management and the analysis of virus-host molecular (mainly protein-protein) interaction networks as well as their functional annotation (molecular functions, cellular pathways, protein domains). VirHostNet contains high quality and up-to-date information gathered and curated from public databases.

links directory index: 30
TitlePublication YearGoogle Scholar Citation Count
VirHostNet: a knowledge base for the management and the analysis of proteome-wide virus-host interaction networks200930
downloadLink as XML Link as JSON Link as TSV Link as CSV
user feedback
0
tagshost-pathogen interactions protein databases protein interaction mapping proteome viral proteins virus diseases virus physiological phenomena

VisANTTool Content

http://visant.bu.edu/ [open in a new window]

Share This Link
Expression > Gene Set Analysis
Expression > Networks
Expression > Protein Expression
Expression > Transcript Expression Analysis
Protein > Networks & Interactions, Pathways and Enzymes

VisANT is an integrative visual analysis tool for biological networks and pathways that contains modules for querying and integrating KEGG pathways with expression data. VisANT is java-based, and can be run as a java applet, as a java web application, or downloaded and run locally. New functions in VisANT 3.5 allow determination of over-representation and expression enrichment.

links directory index: 372
TitlePublication YearGoogle Scholar Citation Count
VisANT 3.5: multi-scale network visualization, analysis and inference based on the gene ontology200947
Towards zoomable multidimensional maps of the cell200749
VisANT 3.0: new modules for pathway visualization, editing, prediction and construction200754
VisANT: data-integrating visual framework for biological networks and modules2005107
VisANT: an online visualization and analysis tool for biological interaction data2004115
NAR Web Server Issue 2005NAR Web Server Issue 2007NAR Web Server Issue 2009
downloadLink as XML Link as JSON Link as TSV Link as CSV
user feedback
0
tagsalgorithms animals biological models caenorhabditis elegans cell cycle computational biology computer simulation database management systems drosophila fungal genes gene expression profiling gene expression regulation gene regulatory networks genetic databases genetic models genetic transcription genome helminth genes helminth proteins humans macromolecular substances metabolism mice protein databases protein interaction mapping proteome saccharomyces cerevisiae saccharomyces cerevisiae proteins signal transduction software design systems integration three-dimensional imaging transcription factors two-hybrid system techniques

VKCDBDatabase Content

http://vkcdb.biology.ualberta.ca [open in a new window]

Share This Link
DNA > Databases
Protein > Databases

The Voltage-gated K(+) Channel DataBase (VKCDB) contains full-length or nearly full-length unique channel sequences from Bacteria, Archaea and Eukaryotes. Corresponding nucleotide sequences of the open reading frames corresponding to the amino acid sequences are now available and can be extracted in parallel with sets of protein sequences. Channels are categorized into subfamilies by phylogenetic analysis and by using hidden Markov model analyses. The retrieval function of the web interface allows retrieval of entries that contain a substantial fraction of the core structural elements of VKCs, fragmentary entries, or both. The full database can be downloaded as either a MySQL dump or as an XML dump from the web site.

links directory index: 1
TitlePublication YearGoogle Scholar Citation Count
VKCDB: voltage-gated K+ channel database updated and upgraded20111
NAR Database Issue 2011
downloadLink as XML Link as JSON Link as TSV Link as CSV
user feedback
0
tagsarchaeal proteins bacterial proteins open reading frames phylogeny protein databases protein sequence analysis voltage-gated potassium channels

VOMBATTool Content

https://www2.informatik.uni-halle.de:8443/VOMBAT/faces/pages/choose.jsp [open in a new window]

Share This Link
DNA > Structure and Sequence Feature Detection
Expression > Gene Regulation

VOMBAT predicts transcription factor binding sites (TFBS) and other motifs in sequence data based on Variable Order Markov models and variable order BAyesian Trees.

links directory index: 99
TitlePublication YearGoogle Scholar Citation Count
VOMBAT: prediction of transcription factor binding sites using variable order Bayesian trees20069
Identification of transcription factor binding sites with variable-order Bayesian networks200590
NAR Web Server Issue 2006
downloadLink as XML Link as JSON Link as TSV Link as CSV
user feedback
0
tagsalgorithms artificial intelligence bayes theorem binding sites chemical models computer simulation genomics markov chains molecular models protein binding protein databases protein sequence analysis sequence alignment statistical models structure-activity relationship transcription factors transcriptional regulatory elements

WDACTool Content

http://pat.kobic.re.kr/wdac/index.htm [open in a new window]

Share This Link
Protein > Domains and Motifs
Protein > Sequence Comparison

The WDAC (Weighted Domain Architecture Comparison Tool) is a web-based server to perform protein homology search by comparing protein domain architectures, defined as a sequential order of domains in a protein.

links directory index: 16
TitlePublication YearGoogle Scholar Citation Count
Protein comparison at the domain architecture level20098
DAhunter: a web-based server that identifies homologous proteins by comparing domain architecture20088
NAR Web Server Issue 2008
downloadLink as XML Link as JSON Link as TSV Link as CSV
user feedback
0
tagscomputational biology protein databases protein sequence analysis protein structural homology proteins tertiary protein structure

WoLF PSORTTool Content

http://wolfpsort.org/ [open in a new window]

Share This Link
Protein > Localization and Targeting

WoLF PSORT is an extension of the PSORT II program for protein subcellular location prediction.

links directory index: 463
TitlePublication YearGoogle Scholar Citation Count
WoLF PSORT: protein localization predictor2007463
NAR Web Server Issue 2007
downloadLink as XML Link as JSON Link as TSV Link as CSV
user feedback
0
tagsarabidopsis computational biology humans membrane proteins programming languages protein databases protein sequence analysis protein sorting signals proteins reproducibility of results secondary protein structure statistical models

WormBaseDatabase Content

http://www.wormbase.org [open in a new window]

Share This Link
Model Organisms > Databases
Model Organisms > Worm

WormBase is a data repository for nematode biology. WormBase has expanded to include the complete genomic sequence, gene predictions and orthology assignments from a range of related nematodes.

links directory index: 103
TitlePublication YearGoogle Scholar Citation Count
WormBase 2012: more genomes, more data, new website20124
WormBase: a comprehensive resource for nematode research201099
NAR Database Issue 2010
downloadLink as XML Link as JSON Link as TSV Link as CSV
user feedback
0
external linksLink on Twitter Link on Wikipedia
tagsalleles animals caenorhabditis caenorhabditis elegans computational biology genetic databases nucleic acid databases phenotype protein databases tertiary protein structure transcription factors

WormBaseDatabase Content

http://www.wormbase.org/ [open in a new window]

Share This Link
Model Organisms > Worm

Repository of mapping, sequencing and phenotypic information about C. elegans and C. briggsae.

links directory index: 206
TitlePublication YearGoogle Scholar Citation Count
WormBase: a comprehensive resource for nematode research201099
WormBase: a cross-species database for comparative genomics2003107
downloadLink as XML Link as JSON Link as TSV Link as CSV
user feedback
0
external linksLink on Twitter Link on Wikipedia
tagsalleles animals base sequence caenorhabditis caenorhabditis elegans computational biology data collection expressed sequence tags gene expression genetic databases genomics helminth dna helminth genes helminth rna high-throughput nucleotide sequencing information storage and retrieval intergenic dna internet molecular sequence annotation neurons nucleic acid databases nucleic acid sequence homology open reading frames phenotype protein databases quality control rna interference single nucleotide polymorphism software tertiary protein structure transcription factors

Associated Tag Cloud