:: DESCRIPTION
The SIREs (searching for IREs) web server will predict iron-responsive elements in RNA or DNA sequences based on a sequence searcher Perl program.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Nucleic Acids Res. 2010 Jul;38(Web Server issue):W360-7. doi: 10.1093/nar/gkq371. Epub 2010 May 11.
SIREs: searching for iron-responsive elements.
Campillos M1, Cases I, Hentze MW, Sanchez M.
:: DESCRIPTION
NGlycPred predicts the glycan occupancy of N-X-T/S sequons of eukaryotic proteins.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Bioinformatics. 2012 Sep 1;28(17):2249-55. doi: 10.1093/bioinformatics/bts426. Epub 2012 Jul 10.
Computational prediction of N-linked glycosylation incorporating structural properties and patterns.
Chuang GY1, Boyington JC, Joyce MG, Zhu J, Nabel GJ, Kwong PD, Georgiev I.
:: DESCRIPTION
The SVM-PB-Pred is a Protein Block (PB) prediction server based on Support Vector Machine (SVM) approach.
::DEVELOPER
Research Group of Dr.S.Parthasarathy
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Protein Pept Lett. 2014;21(8):736-42.
SVM-PB-Pred: SVM based protein block prediction method using sequence profiles and secondary structures.
Suresh V, Parthasarathy S
:: DESCRIPTION
RPI-Pred (RNA-protein interaction predictor) is a RNA-protein interaction prediction server based on Support Vector Machine (SVM).
::DEVELOPER
Center for Bioinformatics & Systems Biology, Wake Forest University
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
RPI-Pred: predicting ncRNA-protein interaction using sequence and structural information.
Suresh V, Liu L, Adjeroh D, Zhou X.
Nucleic Acids Res. 2015 Feb 18;43(3):1370-9. doi: 10.1093/nar/gkv020.
:: DESCRIPTION
PSOPIA (Prediction Server Of Protein-protein InterActions) is an AODE for predicting protein-protein interactions using three seqeucne based features; (I) sequence similarities to a known interacting protein pair, (II) statistical propensities of domain pairs observed in interacting proteins and (III) a sum of edge weights along the shortest path between homologous proteins in a PPI network.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
BMC Bioinformatics. 2014 Jun 23;15:213. doi: 10.1186/1471-2105-15-213.
Homology-based prediction of interactions between proteins using Averaged One-Dependence Estimators.
Murakami Y, Mizuguchi K.
:: DESCRIPTION
AtSubP (for Arabidopsis subcellular localization predictor) is an integrative support vector machine-based localization predictor that is based on the combinatorial presence of diverse protein features, such as its amino acid composition, sequence-order effects, terminal information, Position-Specific Scoring Matrix, and similarity search-based Position-Specific Iterated-Basic Local Alignment Search Tool information.
::DEVELOPER
The Zhao Bioinformaitcs Lab at the Samuel Roberts Noble Foundation
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Plant Physiol. 2010 Sep;154(1):36-54. doi: 10.1104/pp.110.156851. Epub 2010 Jul 20.
Combining machine learning and homology-based approaches to accurately predict subcellular localization in Arabidopsis.
Kaundal R1, Saini R, Zhao PX.
:: DESCRIPTION
The FunFOLD software is freely available as both a standalone package and a prediction server, providing competitive ligand binding site residue predictions for expert and non-expert users alike. The software provides a new fully automated approach for structure based function prediction using 3D models of proteins.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
BMC Bioinformatics. 2011 May 16;12:160. doi: 10.1186/1471-2105-12-160.
FunFOLD: an improved automated method for the prediction of ligand binding residues using 3D models of proteins.
Roche DB1, Tetchner SJ, McGuffin LJ.
:: DESCRIPTION
PFP (Protein Function Prediction) is a sequence similarity-based protein function prediction server designed to predict GO annotations for a query sequence beyond what can be found by conventional database search such as BLAST.It takes into account weakly similar sequences as well as GO term associations observed in known annotations.
ESG (Extended Similarity Group) is a sequence similarity-based protein function prediction server. It employ PSI-BLAST iteratively and essentially selects GO term annotations that appear consistently in the searches.
Combined PFP & ESG interface.
::DEVELOPER
Kihara Bioinformatics Laboratory
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
PFP/ESG: Automated protein function prediction servers enhanced with Gene Ontology visualization tool.
Khan IK, Wei Q, Chitale M, Kihara D.
Bioinformatics. 2015 Jan 15;31(2):271-2. doi: 10.1093/bioinformatics/btu646.
:: DESCRIPTION
The iLoops Server uses the loop classification as defined in ArchDB and/or the SCOP classification of domains to predict whether or not a pair of proteins interact.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Bioinformatics. 2013 Sep 15;29(18):2360-2. doi: 10.1093/bioinformatics/btt401. Epub 2013 Jul 9.
iLoops: a protein-protein interaction prediction server based on structural features.
Planas-Iglesias J1, Marin-Lopez MA, Bonet J, Garcia-Garcia J, Oliva B.
:: DESCRIPTION
CombFunc is an automated method for the prediction of protein function. Users can either submit a sequence or use a uniprot identifier.
::DEVELOPER
Structural Bioinformatics Group, Imperial College
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation:
Nucleic Acids Res. 2012 Jul;40(Web Server issue):W466-70. doi: 10.1093/nar/gks489. Epub 2012 May 27.
CombFunc: predicting protein function using heterogeneous data sources.
Wass MN, Barton G, Sternberg MJ.
