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iPTREE-STAB specifications


Unique identifier OMICS_07146
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Publication for iPTREE-STAB

iPTREE-STAB citations


Accurate prediction of functional, structural, and stability changes in PITX2 mutations using in silico bioinformatics algorithms

PMCID: 5903617
PMID: 29664915
DOI: 10.1371/journal.pone.0195971

[…] for structure predictions of pitx2, sequence in fasta format was obtained from ncbi database (np_001191327.1)., eight different protein stability programs (duet, sdm, mcsm i-mutant3.0, mupro, iptree-stab, cupsat, and istable) were used to predict the effects of missense mutations on the stability of pitx2 protein. duet is a web server that uses integrated computational approach to predict […]


Influence of protein fold stability on immunogenicity and its implications for vaccine design

PMCID: 5490637
PMID: 28290225
DOI: 10.1080/14760584.2017.1306441

[…] but in general are rather runtime-intensive. thus, they are restricted to investigate only a comparably small number of mutations. machine learning methods are either sequence based (e.g. mustab, iptree-stab, inps) or structure based (e.g. inps3d, mcsm, popmusic). they provide good prediction accuracy and in general are faster than the aforementioned methods. hence, they are better suited […]


Computational and Experimental Approaches to Reveal the Effects of Single Nucleotide Polymorphisms with Respect to Disease Diagnostics

PMCID: 4100115
PMID: 24886813
DOI: 10.3390/ijms15069670

[…] machine learning approaches to decipher the stability changes due to mutations. namely, these servers are eslpred [], svmprot [], svmprat [,], automute [,], fish [,], ond-crf [], prosms, protsrf, iptree-stab [], mupro, scide [,], scpred [], mustab [,], popmusic, pmut [,,], snap [], snps and gene ontology (snps&go) [], parepro [], canpredict [], nssnpanalyzer [,,], mutpred [], hansa [,], […]


An In Silico Evaluation of Deleterious Nonsynonymous Single Nucleotide Polymorphisms in the ErbB3 Oncogene

PMCID: 3666215
PMID: 23741632
DOI: 10.1089/biores.2013.0007

[…] of both sequence homology–based (sift) and structural homology–based (polyphen) algorithms. thereafter, we computed the stability of mutants in units of free energy using i-mutant 3.0, mustab, and iptree-stab programs and identified seven crucial point mutations (v89m, v105g, c290y, i418n, r669c, i744t, and a1131t) in epidermal growth factor receptor 3 that are manifested as nssnps. […]


Genetic diversity of tyrosine hydroxylase (TH) and dopamine β hydroxylase (DBH) genes in cattle breeds

PMCID: 3389531
PMID: 22888292
DOI: 10.1590/S1415-47572012000300009

[…] (l12407) and canis familiaris (q68ci2) dbh sequences were aligned using clustalx 2.0.8. the possible effects of the amino acid substitutions introduced by the eight nssnps were predicted using the iptree-stab server (). this software predicted the stability of the mutant proteins produced by the eight nssnps. the parameters used for the iptree-stab server included a ph of 7 and a temperature […]


Bioinformatic Analysis of Pathogenic Missense Mutations of Activin Receptor Like Kinase 1 Ectodomain

PMCID: 3196573
PMID: 22028876
DOI: 10.1371/journal.pone.0026431

[…] analyzed using sift , polyphen , pmut , and phd-snp . the effects of mutations on protein stability were predicted by scpred , scide , sride , popmusic , foldx , dmutant , cupsat , imutant , mupro , iptree-stab and eris . instead of modelling the mutations manually as described by thusberg and vihinen , the buildmodel option of foldx version 3.0 beta, whose force field is detailed in , […]

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iPTREE-STAB institution(s)
Department of Computer Science and Information Engineering, Ming-Dao University, Changhua, Taiwan

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