Predikin statistics

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Citations per year

Number of citations per year for the bioinformatics software tool Predikin
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Tool usage distribution map

This map represents all the scientific publications referring to Predikin per scientific context
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Protocols

Predikin specifications

Information


Unique identifier OMICS_02433
Name Predikin
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Documentation


Publication for Predikin

Predikin citations

 (15)
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Analysis of the N terminal region of human MLKL, as well as two distinct MLKL isoforms, reveals new insights into necroptotic cell death

2016
Biosci Rep
PMCID: 4725247
PMID: 26704887
DOI: 10.1042/BSR20150246
call_split See protocol

[…] Phosphorylation sites were predicted using the online prediction servers NetPhos 2.0 [] and Predikin []. Predictions with Predikin were made for both MLKL isoforms as RIP3 kinase substrates. […]

library_books

Dynamic Alterations to α Actinin Accompanying Sarcomere Disassembly and Reassembly during Cardiomyocyte Mitosis

2015
PLoS One
PMCID: 4467976
PMID: 26076379
DOI: 10.1371/journal.pone.0129176

[…] s nonetheless possible that this or other residues could be phosphorylated under certain circumstances. None of the kinase prediction programs that we used included FAK, so we investigated this using Predikin 2.1, which can make predictions for protein-specific phosphorylation sites of user-provided kinase sequences []. It predicted with a high likelihood that FAK1 could phosphorylate several of t […]

library_books

Navigating the Multilayered Organization of Eukaryotic Signaling: A New Trend in Data Integration

2014
PLoS Comput Biol
PMCID: 3923657
PMID: 24550716
DOI: 10.1371/journal.pcbi.1003385

[…] d others. For example, IntAct, STRING, HPRD, BioGRID, WI8, DroID, YEASTRACT, and SGD – store curated information about protein interactions; PHOSIDA, PhosphoSitePlus, PhosphoELM, NetPhosK, NetworKIN, PREDIKIN, and Scansite – accumulate knowledge about protein phosphorylation and increasingly also about other PTMs; EdgeDB, REDfly, JASPAR, ENCODE, PAZAR, ABS, ORegAnno, and others – provide informati […]

library_books

Incorporating substrate sequence motifs and spatial amino acid composition to identify kinase specific phosphorylation sites on protein three dimensional structures

2013
BMC Bioinformatics
PMCID: 3853090
PMID: 24564522
DOI: 10.1186/1471-2105-14-S16-S2

[…] limited data for sequence and structure-based prediction of protein phosphorylation sites in eukaryotes. While one-dimensional amino acid sequence was observed to harbor most of the predictive power, Predikin [] has proposed a method that applied the structure-based information for improving the prediction of phosphorylation sites in proteins. With an increasing interest in the structural environm […]

library_books

Structure and Function of Parkin, PINK1, and DJ 1, the Three Musketeers of Neuroprotection

2013
PMCID: 3630392
PMID: 23626584
DOI: 10.3389/fneur.2013.00038

[…] ity of PINK1 substrate(s) remains a subject of much debate. Studies using artificial peptide substrates indicated that proline was the preferred amino acid at the +1 position (Woodroof et al., ), and PREDIKIN predicts a weak consensus phosphorylation site (Sim et al., ). Early studies identified the mitochondrial chaperone TRAP1 as a ligand and phosphorylation substrate of PINK1 (Pridgeon et al., […]

library_books

Identifying Protein Phosphorylation Sites with Kinase Substrate Specificity on Human Viruses

2012
PLoS One
PMCID: 3402495
PMID: 22844408
DOI: 10.1371/journal.pone.0040694

[…] ls requiring prior knowledge of experimentally verified substrates and its kinase, a method is developed to be able to predict kinase-specific phosphorylation sites based solely on protein sequence . Predikin is a method that first demonstrated the application of structure-based information for the prediction of phosphorylation sites in proteins. The method utilized by Predikin identifies signifi […]


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Predikin institution(s)
School of Molecular and Microbial Sciences, University of Queensland, Brisbane, QLD, Australia; Institute for Molecular Bioscience and Special Research Centre for Functional and Applied Genomics, University of Queensland, Brisbane, QLD, Australia
Predikin funding source(s)
Supported by Australian Research Council Federation Fellowship (FF0561371) and National Health and Medical Research Council Medical Bioinformatics, Genomics and Proteomics Program (395522).

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