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SitePrediction specifications

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Unique identifier OMICS_06956
Name SitePrediction
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Publication for SitePrediction

SitePrediction citations

 (10)
library_books

Matrilysin/MMP 7 Cleavage of Perlecan/HSPG2 Complexed with Semaphorin 3A Supports FAK Mediated Stromal Invasion by Prostate Cancer Cells

2018
PMCID: 5940808
PMID: 29740048
DOI: 10.1038/s41598-018-25435-3

[…] value was recorded simultaneously., to predict mmp-7 mediated cleavage sites within sema3a, the free online software at site prediction was utilized (http://www.dmbr.ugent.be/prx/bioit2-public/siteprediction/). a two tailed student’s t-test was used to determine differences between groups in western blot, cell clustering activity, and cell binding assays. a p-value <0.05 was considered […]

library_books

Increased intracellular activity of MP1102 and NZ2114 against Staphylococcus aureus in vitro and in vivo

2018
PMCID: 5844868
PMID: 29523806
DOI: 10.1038/s41598-018-22245-5

[…] were prepared using an ultramicrotome, stained with 1% uranyl acetate, and visualized with a jem1400 (jedl, tokyo, japan)., the cleavable cathepsin sites in the peptides were predicted by the siteprediction website (http://www.dmbr.ugent.be/prx/bioit2-public/siteprediction/). the mics of mp1102 and nz2114 against mrsa atcc43300, mssa atcc25923 and clinical high virulent s. aureus cvcc546 […]

library_books

Behead and live long or the tale of cathepsin L

2017
PMCID: 5808862
PMID: 29044689
DOI: 10.1002/yea.3286

[…] prion sup35. in fact 20 cathepsin l cleavage sites could be predicted in sup35, one with a specificity of more than 99.9% (amino acid 429–434: nflr↓ai; http://www.dmbr.ugent.be/prx/bioit2‐public/siteprediction/)., a strain harbouring genomic integrated sup35‐gfp obtained from the yeast gfp clone collection (thermofisher scientific waltham, ma, usa; huh et al., ) was transformed with either […]

library_books

Knowledge transfer learning for prediction of matrix metalloprotease substrate cleavage sites

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

[…] proteases. it is one of the most powerful computational frameworks and is trained using support vector regression (svr) based on a variety of sequence-based features. additionally, pops and siteprediction are two versatile statistical methods that allow users to predict potential substrate-cleavage sites of many proteases. other methods are available as well, but tend to focus […]

library_books

Necrosis and apoptosis related Met cleavages have divergent functional consequences

2015
PMCID: 4669710
PMID: 25996296
DOI: 10.1038/cddis.2015.132

[…] met detected p40metcalpain but failed to detect p40metcaspase, demonstrating that calpain processing of met preserves its c-terminal end (). analysis of the putative calpain cleavage region with the siteprediction tool identified a potential cleavage site between residues t1036 and s1037 (). therefore, we produced in transfected cells expressing an appropriate construct a version of met starting […]

library_books

The Carboxy Terminal Domain of Erb1 Is a Seven Bladed ß Propeller that Binds RNA

2015
PMCID: 4400149
PMID: 25880847
DOI: 10.1371/journal.pone.0123463

[…] of erb1, was predicted to possess a pest (proline, glutamic acid, serine and threonine rich sequence) element in its central region that overlaps with the predicted nop7 binding sequence []. the siteprediction tool [] confirmed the presence of a conserved pest sequence in erb1 in the same position as for bop1. pest motifs are clusters of charged amino acids that form flexible and solvent […]


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SitePrediction institution(s)
Department for Molecular Biomedical Research, Flanders Institute for Biotechnology, Ghent, Belgium

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