PLMLA specifications

Information


Unique identifier OMICS_18512
Name PLMLA
Interface Web user interface
Restrictions to use None
Input data One or multiple human or other species protein sequences.
Input format FASTA
Computer skills Basic
Stability Stable
Maintained No

Maintainer


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Publication for PLMLA

PLMLA in publications

 (5)
PMCID: 5378888
PMID: 26202727
DOI: 10.1038/srep12403

[…] optimization algorithm (iaco). later, another predictor, pmes constructed by shi et al., improved predictions based on an enhanced feature scheme and svm. shi et al. also presented a method called plmla that incorporated protein sequence information, secondary structure and amino acid properties to predict methyllysine sites. xu et al. proposed a predictor based on the conditional random field […]

PMCID: 4164654
PMID: 25222670
DOI: 10.1371/journal.pone.0107464

[…] that the most important sites in determining whether a peptide would be sumoylated were the 7th, 4th, 1st, 2nd, and 3rd sites . shi et al. used −6∼+6 region surrounding the center lysine to develop plmla to predict acetylated lysine residues. gnad et al. used 2 to 8 amino acids upstream and downstream of the center lysine to predict acetylation sites. it has been shown in structural studies […]

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

[…] [], scansite [], musite [], ppsp [], and gps 2.0 []. additionally, 3d phosphorylation prediction was performed using phos3d []. 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 […]

PMCID: 4104576
PMID: 25042424
DOI: 10.1038/srep05765

[…] and functional levels., both 5-fold cross-validation and independent tests were conducted to compare the performance of our method with other previously published methods, including phosida, brabsb, plmla, lysacet, ensemblepail and pskacepred. phosida and pskacepred used the binary encoding features of amino acids as input features of the model. brabsb was a svm-based human-specific lysine […]

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

[…] 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 structures of proteins were modeled using protein homology/analogy recognition engine v2.0 via the phyre2 server […]


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PLMLA institution(s)
Department of Chemistry, Nanchang University, Nanchang, China; Department of Mathematics, Nanchang University, Nanchang, China
PLMLA funding source(s)
Supported by grants from the National Natural Science Foundation of China (21175064, 21163014 and 21065006).

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