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Cascleave specifications

Information


Unique identifier OMICS_01670
Name Cascleave
Alternative names Caspase substrate cleavage site prediction, Cascleave2
Software type Package/Module
Interface Graphical user interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Java
Computer skills Medium
Version 2.0
Stability No
Maintained No

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Publications for Caspase substrate cleavage site prediction

Cascleave citations

 (6)
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

[…] eases. Other methods are available as well, but tend to focus 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 divers […]

library_books

Transcriptomic analysis of human norovirus NS1 2 protein highlights a multifunctional role in murine monocytes

2017
BMC Genomics
PMCID: 5217272
PMID: 28056773
DOI: 10.1186/s12864-016-3417-4

[…] identified in GII.4 and GIII (DLxD*xWLS; probability 0.8), between the two GII.4 proteins (EMWD*GEIY; probability 0.7), and the two GI proteins (SARD*GVxx; probability 0.76) (Fig. ), as determined by Cascleave 2.0 []. The GV MNV NS1-2 has functional caspase-3 cleavage sites at residues 118 (DxxD*APSH) and 128 (DAMD*AKEP) []. The norovirus NS1-2 proteins also share the H-box and NC motifs (Fig. ) o […]

library_books

Antisense oligonucleotide mediated exon skipping as a strategy to reduce proteolytic cleavage of ataxin 3

2016
Sci Rep
PMCID: 5059676
PMID: 27731380
DOI: 10.1038/srep35200

[…] xpanded ataxin-3. Whether caspase-mediated ataxin-3 cleavage is indeed a major contributor to SCA3 pathogenesis remains to be determined through future in vivo experiments.In silico predictions using Cascleave software for Δ88aa ataxin-3 did not reveal generation of novel caspase cleavage motifs. In line with the increased resistance to caspase cleavage, we expected Δ88aa ataxin-3 to be less prone […]

library_books

Identification of Caspase Cleavage Sites in KSHV Latency Associated Nuclear Antigen and Their Effects on Caspase Related Host Defense Responses

2015
PLoS Pathog
PMCID: 4517896
PMID: 26218605
DOI: 10.1371/journal.ppat.1005064

[…] The webserver CasCleave was used to identify potential caspase cleavage sites in the LANA amino acid sequence. Three peptides containing one likely caspase cleavage site from the LANA sequence, were synthesized (Ne […]

library_books

PROSPER: An Integrated Feature Based Tool for Predicting Protease Substrate Cleavage Sites

2012
PLoS One
PMCID: 3510211
PMID: 23209700
DOI: 10.1371/journal.pone.0050300

[…] ssue is that only PeptideCutter , PoPS and SitePrediction were implemented to model and predict substrate cleavage sites for more than one protease family. For instance, CasPredictor , GraBCas and Cascleave can only be used to predict cleavage sites of caspases/granzyme B, but it is not feasible to apply them to predict cleavage sites of other proteases. The third issue is how to characterize […]

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 randomly exclude […]

Citations

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Cascleave institution(s)
National Engineering Laboratory for Industrial Enzymes and Key Laboratory of Systems Microbial Biotechnology, Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin308, Department of Computer Science, School of Electronics and Information Engineering, Tongji University, Shanghai, China; Department of Biochemistry and Molecular Biology, Monash University, Melbourne, Victoria, Australia; Bioinformatics Center, Institute for Chemical Research, Kyoto University, Uji, Kyoto, Japan; ARC Centre of Excellence for Structural and Functional Microbial Genomics, Monash University, Melbourne, Victoria, Australia
Cascleave funding source(s)
Supported by Major Inter-disciplinary Research Project Grant awarded by Monash University, Hundred Talents Program of the Chinese Academy of Sciences (CAS), National Natural Science Foundation of China (91130032, 61103075, 61202167, 61303169), Innovation Program of Shanghai Municipal Education Commission (13ZZ072), National Health and Medical Research Council of Australia (NHMRC) (490989) and Australian Research Council (ARC) (LP110200333); by the National Natural Science Foundation of China (91130032, 61103075), Innovation Program of Shanghai Municipal Education Commission (13ZZ072) and Shanghai Pujiang Program (13PJD032); by a NHMRC Peter Doherty Fellow and Recipient of the Hundred Talents Program of CAS; by Chinese Academy of Sciences Visiting Professorship for Senior International Scientists (2011T2S34) and by an ARC Federation Fellow and NHMRC Senior Principal Research Fellow.

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