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CASVM specifications

Information


Unique identifier OMICS_01671
Name CASVM
Interface Web user interface
Restrictions to use None
Programming languages Perl
Computer skills Basic
Stability No
Maintained No

Publication for CASVM

CASVM citations

 (8)
library_books

VPS34 stimulation of p62 phosphorylation for cancer progression

2017
Oncogene
PMCID: 5735303
PMID: 28846113
DOI: 10.1038/onc.2017.295

[…] ps34 was inhibited by both zVAD and IETD, but not LEDH in MCF-7 cells (). To verify the cleavage site of Vps34 by active caspase 8, eight Vps34 mutants were constructed according to the prediction of CASVM, in which certain aspartic acid residues (D) were substituted with glutamic acid (E) in different regions, except the catalytic domain as shown in the illustration (-lower), and all Vps34 mutant […]

library_books

Knowledge transfer learning for prediction of matrix metalloprotease substrate cleavage sites

2017
Sci Rep
PMCID: 5515926
PMID: 28720874
DOI: 10.1038/s41598-017-06219-7

[…] s on prediction of substrate-cleavage sites for specific families or types of proteases. For example, several computational methods such as Cascleave (v1.0 and v2.0), Pripper, CasPredictor, GrasBCas, CASVM, and PCCS, were developed to predict the cleavage sites of caspases and/or granzyme B. Consequently, the accurate prediction of diverse MMP substrate-cleavage sites remains an outstanding need a […]

library_books

Global profiling of co and post translationally N myristoylated proteomes in human cells

2014
Nat Commun
PMCID: 4200515
PMID: 25255805
DOI: 10.1038/ncomms5919

[…] e classified as post-translationally myristoylated-low confidence. The unique peptides detected for each protein were mapped to the protein sequences (see ). The cleavage site was predicted using the CASVM server (see Bioinformatics). […]

library_books

Mutating RBF Can Enhance Its Pro Apoptotic Activity and Uncovers a New Role in Tissue Homeostasis

2014
PLoS One
PMCID: 4121136
PMID: 25089524
DOI: 10.1371/journal.pone.0102902

[…] We have used the CASVM web server to scan the full length RBF for potential caspase cleavage sites predicted by the support vector machines (SVM) algorithm . This was done with the P14P10′ window (tetrapeptide cleava […]

library_books

Dose and Time Dependent Apoptosis Induced by Avian H9N2 Influenza Virus in Human Cells

2013
Biomed Res Int
PMCID: 3784084
PMID: 24106708
DOI: 10.1155/2013/524165

[…] aspartic acid (D) at the P1 position []. It has been previously shown that NS1 protein of H7N1 avian influenza virus possesses caspase cleavage motifs LDID55/T and DESD74/E []. In this study, we used CASVM web server for support vector machine-based prediction of caspase substrates cleavage sites []. More variations were found in the tetrapeptide subsequences which were predicted to be cleavage si […]

library_books

Developing a powerful In Silico tool for the discovery of novel caspase 3 substrates: a preliminary screening of the human proteome

2012
BMC Bioinformatics
PMCID: 3324375
PMID: 22269041
DOI: 10.1186/1471-2105-13-14

[…] A performance comparison was carried out for CAT3 versus two recently published prediction tools, namely CASVM and Cascleave [,]. The aim of the test was to assess how accurate the three tools were in predicting caspase-3 cleavage sites. The comparison was made on 16 caspase-3 substrates that were random […]

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CASVM institution(s)
Department of Biochemistry, Yong Loo Lin School of Medicine, National University of Singapore, Singapore

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