PONGO: a web server for multiple predictions of all-alpha transmembrane proteins
Research output: Contribution to journal › Journal article › Research › peer-review
Standard
PONGO: a web server for multiple predictions of all-alpha transmembrane proteins. / Amico, M.; Finelli, M.; Rossi, I.; Zauli, A.; Elofsson, A.; Viklund, H.; Heijne, G. von; Joes, D.; Krogh, A.; Fariselli, P.; Luigi, Martelli P.; Casadio, R.
In: Nucleic Acids Research, Vol. 34, 2006, p. W169-72.Research output: Contribution to journal › Journal article › Research › peer-review
Harvard
APA
Vancouver
Author
Bibtex
}
RIS
TY - JOUR
T1 - PONGO: a web server for multiple predictions of all-alpha transmembrane proteins
AU - Amico, M.
AU - Finelli, M.
AU - Rossi, I.
AU - Zauli, A.
AU - Elofsson, A.
AU - Viklund, H.
AU - Heijne, G. von
AU - Joes, D.
AU - Krogh, A.
AU - Fariselli, P.
AU - Luigi, Martelli P.
AU - Casadio, R.
PY - 2006
Y1 - 2006
N2 - The annotation efforts of the BIOSAPIENS European Network of Excellence have generated several distributed annotation systems (DAS) with the aim of integrating Bioinformatics resources and annotating metazoan genomes (http://www.biosapiens.info/). In this context, the PONGO DAS server (http://pongo.biocomp.unibo.it/) provides the annotation on predictive basis for the all-alpha membrane proteins in the human genome, not only through DAS queries, but also directly using a simple web interface. In order to produce a more comprehensive analysis of the sequence at hand, this annotation is carried out with four selected and high scoring predictors: TMHMM2.0, MEMSAT, PRODIV and ENSEMBLE1.0. The stored and pre-computed predictions for the human proteins can be searched and displayed in a graphical view. However the web service allows the prediction of the topology of any kind of putative membrane proteins, regardless of the organism and more importantly with the same sequence profile for a given sequence when required. Here we present a new web server that incorporates the state-of-the-art topology predictors in a single framework, so that putative users can interactively compare and evaluate four predictions simultaneously for a given sequence. Together with the predicted topology, the server also displays a signal peptide prediction determined with SPEP. The PONGO web server is available at http://pongo.biocomp.unibo.it/pongo.
AB - The annotation efforts of the BIOSAPIENS European Network of Excellence have generated several distributed annotation systems (DAS) with the aim of integrating Bioinformatics resources and annotating metazoan genomes (http://www.biosapiens.info/). In this context, the PONGO DAS server (http://pongo.biocomp.unibo.it/) provides the annotation on predictive basis for the all-alpha membrane proteins in the human genome, not only through DAS queries, but also directly using a simple web interface. In order to produce a more comprehensive analysis of the sequence at hand, this annotation is carried out with four selected and high scoring predictors: TMHMM2.0, MEMSAT, PRODIV and ENSEMBLE1.0. The stored and pre-computed predictions for the human proteins can be searched and displayed in a graphical view. However the web service allows the prediction of the topology of any kind of putative membrane proteins, regardless of the organism and more importantly with the same sequence profile for a given sequence when required. Here we present a new web server that incorporates the state-of-the-art topology predictors in a single framework, so that putative users can interactively compare and evaluate four predictions simultaneously for a given sequence. Together with the predicted topology, the server also displays a signal peptide prediction determined with SPEP. The PONGO web server is available at http://pongo.biocomp.unibo.it/pongo.
U2 - 10.1093/nar/gkl208
DO - 10.1093/nar/gkl208
M3 - Journal article
C2 - 16844984
VL - 34
SP - W169-72
JO - Nucleic Acids Research
JF - Nucleic Acids Research
SN - 0305-1048
ER -
ID: 1100847