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BPB-PPMS specifications


Unique identifier OMICS_10728
Interface Web user interface
Restrictions to use None
Input data A single protein sequence or multiple protein sequences
Input format FASTA
Computer skills Basic
Stability No
Maintained No


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Publication for BPB-PPMS

BPB-PPMS citations


Evidence supporting a critical contribution of intrinsically disordered regions to the biochemical behavior of full length human HP1γ

PMCID: 4683166
PMID: 26680990
DOI: 10.1007/s00894-015-2874-z

[…] diphos [], phosphosvm [], scansite, musite [], and ppsp []. acetylation sites were predicted using pail [], aseb [], brabsb-phka [], lysacet [], and lacep []. methylation sites were predicted using bpb-ppms [] and masa []. ubiquitination sites were predicted using bdm-pub [], cksaap ubsite [], and ubpred []. sumoylation sites were predicted using gps-sumo [] and sumoplot […]


Position specific prediction of methylation sites from sequence conservation based on information theory

PMCID: 5378888
PMID: 26202727
DOI: 10.1038/srep12403

[…] intrinsically disordered regions. chen et al. designed the webserver memo, which utilized an orthogonal binary coding scheme to represent sequence fragments. shao et al. developed a predictor called bpb-ppms, which combined bi-profile bayes feature extraction with svm. further, shien et al. proposed masa, which considers both sequence information and structural characteristics […]


Evidence supporting the existence of a NUPR1 like family of helix loop helix chromatin proteins related to, yet distinct from, AT hook containing HMG proteins

PMCID: 4139591
PMID: 25056123
DOI: 10.1007/s00894-014-2357-7

[…] []. acetylation sites were predicted using pail [], predmod [], aseb [], plmla [], pskacepred [], brabsb-phka [], lysacet [], and ensemblepail []. methylation sites were predicted using pmes [], bpb-ppms [], plmla [], and cksaap metsite []. sumoylation sites were predicted using sumosp [], sumoplot [], sumohydro [], pci-sumo [], gps-sbm 1.0 [], and elm []. ubiquitination sites were predicted […]


Uncovering the Protein Lysine and Arginine Methylation Network in Arabidopsis Chloroplasts

PMCID: 3991674
PMID: 24748391
DOI: 10.1371/journal.pone.0095512

[…] (http://bioinfo3.noble.org/atsubp/?dowhat=atsubp) , and chlorop (http://www.cbs.dtu.dk/services/chlorop/) . we used the following predictors for searching lys and arg methylation sites: memo v2.0 , bpb-ppms (http://www.bioinfo.bio.cuhk.edu.hk/bpbppms/index.jsp) , masa (http://masa.mbc. nctu. edu.tw/index.html) , pmes , and plmla (http://bioinfo.ncu.edu.cn/inquiries _plmla. aspx) ., the 3d […]


Computational Identification and Modeling of Crosstalk between Phosphorylation, O β glycosylation and Methylation of FoxO3 and Implications for Cancer Therapeutics

PMCID: 3317383
PMID: 22489133
DOI: 10.3390/ijms13032918

[…] yin yang sites with high potential for both modifications., for the prediction of methylation potential at arg and lys residues, we used a combination of three prediction algorithms; memo v2.0 [], bpb-ppms [] and masa []. bpb-ppms is based on bi-profile bayes combined with support vector machines (svms), whereas masa predictions are calculated on the basis of accessible surface area […]


Bioinformatic Analysis and Post Translational Modification Crosstalk Prediction of Lysine Acetylation

PMCID: 3229533
PMID: 22164248
DOI: 10.1371/journal.pone.0028228

[…] as well as 3,625 neighboring sites., similarly, we extended our crosstalk analysis to examine the effects of lysine acetylation on ubiquitination and methylation ( and ). to accomplish this, we used bpb-ppms, an in silico tool for methylation prediction and ubpred, a predictor of potential ubiquitination sites . we compared the predicted methylation and ubiquination sites around acetylated […]

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BPB-PPMS institution(s)
Department of Biology, the Chinese University of Hong Kong, Hong Kong, China
BPB-PPMS funding source(s)
A grant from the University Grants Committee of the Hong Kong Special Administrative Region, China (Project No. AoE/B-07/99)

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