:: DESCRIPTION
The MODPEP server is to generate the conformation of protein-bound peptides.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation:
Yan Y, Zhang D, Huang SY.
Efficient conformational ensemble generation of protein-bound peptides.
J Cheminform. 2017 Nov 22;9(1):59. doi: 10.1186/s13321-017-0246-7. PMID: 29168051; PMCID: PMC5700017.
:: DESCRIPTION
Providing TuRF-E program for SNP interaction filtering.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: MORE INFORMATION
Citation
BMC Bioinformatics. 2011 Feb 15;12 Suppl 1:S10. doi: 10.1186/1471-2105-12-S1-S10.
Gene-gene interaction filtering with ensemble of filters.
Yang P1, Ho JW, Yang YH, Zhou BB.
:: DESCRIPTION
DTECD is a decision tree-based SNP interaction detection tool.
::DEVELOPER
Computational Biology lab @ Case (CBC)
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
:: DESCRIPTION
miREE is a novel microRNA target prediction tool consisting of two parts entailing complementary but integrated roles in the prediction.
::DEVELOPER
EDA (Electronic Design Automation Group)
:: SCREENSHOTS
N/A
::REQUIREMENTS
:: DOWNLOAD
NO
:: MORE INFORMATION
Citation
miREE: miRNA recognition elements ensemble.
Reyes-Herrera PH, Ficarra E, Acquaviva A, Macii E.
BMC Bioinformatics. 2011 Nov 24;12:454. doi: 10.1186/1471-2105-12-454.
:: DESCRIPTION
PREDDIMER reconstructs putative dimer conformations for given sequences of transmembrane protein fragments, which are considered as ideal α-helices.
::DEVELOPER
Laboratory of biomolecular modeling.
:: SCREENSHOTS
N/A
::REQUIREMENTS
:: DOWNLOAD
NO
:: MORE INFORMATION
Citation
Bioinformatics. 2014 Mar 15;30(6):889-90. doi: 10.1093/bioinformatics/btt645.
PREDDIMER: a web server for prediction of transmembrane helical dimers.
Polyansky AA1, Chugunov AO, Volynsky PE, Krylov NA, Nolde DE, Efremov RG.
:: DESCRIPTION
ELASPIC constructs homology models of domains and domain-domain interactions, and uses those models, together with sequential and other features, to predict the energetic impact of a mutation on the stability of a single domain or the affinity between two domains.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
ELASPIC web-server: proteome-wide structure based prediction of mutation effects on protein stability and binding affinity.
Witvliet D, Strokach A, Giraldo-Forero AF, Teyra J, Colak R, Kim PM.
Bioinformatics. 2016 Jan 21. pii: btw031.
:: DESCRIPTION
The web-server pSuc-Lys used to predict the lysine succinylation in protein.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
NO
:: MORE INFORMATION
Citation
pSuc-Lys: Predict lysine succinylation sites in proteins with PseAAC and ensemble random forest approach.
Jia J, Liu Z, Xiao X, Liu B, Chou KC.
J Theor Biol. 2016 Jan 22. pii: S0022-5193(16)00053-9. doi: 10.1016/j.jtbi.2016.01.020
:: DESCRIPTION
mRMRe contains a set of function to compute mutual information matrices from continuous, categorical and survival variables. It also contains function to perform feature selection with minimum Redundancy, Maximum Relevance (mRMR) and a new ensemble mRMR technique.
::DEVELOPER
Princess Margaret Bioinformatics and Computational Genomics Laboratory
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation:
Bioinformatics. 2013 Sep 15;29(18):2365-8. doi: 10.1093/bioinformatics/btt383. Epub 2013 Jul 3.
mRMRe: an R package for parallelized mRMR ensemble feature selection.
De Jay N, Papillon-Cavanagh S, Olsen C, El-Hachem N, Bontempi G, Haibe-Kains B.
:: DESCRIPTION
CARNA is a tool for multiple alignment of RNA molecules. CARNA requires only the RNA sequences as input and will compute base pair probability matrices and align the sequences based on their full ensembles of structures.
::DEVELOPER
Chair for Bioinformatics Freiburg
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
NO
:: MORE INFORMATION
Citation
Dragos A. Sorescu, Mathias Moehl, Martin Mann, Rolf Backofen, and Sebastian Will
CARNA – alignment of RNA structure ensembles
Nucleic Acids Reseach, 40 no. W1 pp. W49-W53, 2012
:: DESCRIPTION
TRaCE is a new framework and algorithms for the ensemble inference of GRNs (gene regulatory networks).
:: DEVELOPER
Chemical and Biological Systems Engineering Laboratory
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Ud-Dean, SMM., and Gunawan, R.
Ensemble Inference and Inferability of Gene Regulatory Networks.
PLoS ONE, 9(8), e103812 (2014)