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PredictProtein

http://www.predictprotein.org/

Description :
PredictProtein is a protein sequence analysis and structure prediction tool. Users provide a protein sequence, and PredictProtein reports similar sequences, PROSITE sequence motifs, and various types of structure prediction information. You can also use META PredictProtein to submit a sequence to one web form and query several other servers at once, retrieving the results by e-mail.

PROFEAT

http://jing.cz3.nus.edu.sg/cgi-bin/prof/prof.cgi

Description :
Protein Features (PROFEAT) is a tool for computing commonly-used structural and physicochemical features of proteins and peptides from amino acid sequence.

Protinfo

http://protinfo.compbio.washington.edu/

Description :
Protinfo takes a protein sequence as input and returns the atomic coordinates for a prediction of tertiary structure for that protein. Predictions can be made by comparative or de novo modelling.

Spritz

http://distill.ucd.ie/spritz/

Description :
Spritz is a tool for the prediction of disordered regions of proteins.

NRSAS

http://www.receptors.org/NR/servers/html/

Description :
Nuclear Receptor Structure Analysis Server (NRSAS) is a multi-purpose collection of tools for the analyses of nuclear hormone receptors.

TarO

http://www.compbio.dundee.ac.uk/taro

Description :
TarO is a collection of tools for protein target optimization analysis. Tools include those for annotation of putative orthologues and homologues, searches against the PDB with PSIBLAST, generation of annotated multiple sequence alignments and presentation of integrated results.

FFPred

http://bioinf.cs.ucl.ac.uk/ffpred/

Description :
Using a machine learning approach, FFPred server predicts protein function using protein features scanned against a library of over 300 Gene Ontology annotation terms. FFPred has the capacity to annotate distant homologues and orphan protein sequences.

SCANPS

http://www.compbio.dundee.ac.uk/www-scanps

Description :
SCANPS is a web server for iterative protein sequence database searching by dynamic programming. Sensitivity and selectivity outperform PSI-BLAST. The server allows a range of different protein sequence databases to be searched including the SCOP database of protein domains.

DSHIFT

http://www.chem.cuhk.edu.hk/DSHIFT/

Description :
DSHIFT is a web server for predicting chemical shifts of DNA sequences in random coil form or double helical B-form.

EMBOSS

http://cbrmain.cbr.nrc.ca/EMBOSS/

Description :
Diverse suite of tools for sequence analysis; many programs analagous to GCG; context-sensitive help for each tool.

FeatureScan

http://gnaweb.gbf.de/cgi-bin/FeatureScan/FeatureScan.pl

Description :
FeatureScan searches for sequence similarity by comparing physico-chemical properties of DNA such as charge, melting enthalpy, conformational parameters, etc.

GenomeTraFaC

http://genometrafac.cchmc.org/genome-trafac/index.jsp

Description :
GenomeTraFaC is a comparative genomics based resource for initial characterization of gene models andthe identification of putative cis-regulatory regions of RefSeq gene orthologs.

IsoFinder

http://bioinfo2.ugr.es/IsoF/isofinder.html

Description :
IsoFinder is a tool for the prediction of isochores for a user-supplied sequence.

LowComplexity

http://wwwmgs.bionet.nsc.ru/mgs/programs/low_complexity/

Description :
LowComplexity is a tool that searches for low complexity regions of DNA or protein sequences. Using LowComplexity you can search long sequences (chromosomes, genomes) or a set of aligned sequences. This resource also contains links to other algorithms for evaluating the complexity of sequences.

MaskerAid

http://blast.wustl.edu/maskeraid/

Description :
MaskerAid is an enhancement to RepeatMasker which can effect about a 30-fold increase in the speed of RepeatMasker while maintaining sensitivity.

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