MMFPh specifications

Information


Unique identifier OMICS_09517
Name MMFPh
Alternative name Maximal Motif Finder for Phosphoproteomics datasets
Software type Package/Module
Interface Command line interface
Restrictions to use Academic or non-commercial use
Input data MMFPh takes as input a foreground dataset of phosphorylated peptides, along with a corresponding background set of phosphorylatable peptides.
Operating system Unix/Linux
Programming languages Java
Computer skills Advanced
Stability Stable
Maintained Yes

Versioning


No version available

Maintainer


  • person_outline Chris Bailey-Kellogg

Information


Unique identifier OMICS_09517
Name MMFPh
Alternative name Maximal Motif Finder for Phosphoproteomics datasets
Interface Web user interface
Restrictions to use Academic or non-commercial use
Input data MMFPh takes as input a foreground dataset of phosphorylated peptides, along with a corresponding background set of phosphorylatable peptides.
Programming languages Java
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Chris Bailey-Kellogg

Publication for Maximal Motif Finder for Phosphoproteomics datasets

MMFPh citations

 (2)
library_books

Phosphorylation of plastoglobular proteins in Arabidopsis thaliana

2016
J Exp Bot
PMCID: 4915526
PMID: 26962209
DOI: 10.1093/jxb/erw091

[…] rylate their peptide substrates by recognizing linear motifs that typically consist of a few key residues surrounding the target amino acid. In our recent meta-analysis and application of motif-x and MMFPH prediction algorithms, we identified several motif families for pS and pT sites, which could be divided into more specific types (). A subset of these motifs were enriched in chloroplasts/plasti […]

library_books

Comparison of phosphorylation patterns across eukaryotes by discriminative N gram analysis

2015
BMC Bioinformatics
PMCID: 4520095
PMID: 26224486
DOI: 10.1186/s12859-015-0657-2

[…] We investigated whether there were significant differences between the scores produced by the two most commonly used motif generators, Motif-x and MMFPh, by analyzing our recently published P. infestans phosphopeptide dataset []. By Friedman test, significant differences between both methods were found among the binomial probabilities of the two […]

MMFPh institution(s)
Department of Computer Science, Dartmouth College, Hanover, NH; Department of Genetics, Dartmouth Medical School and Department of Biochemistry, Dartmouth Medical School, Lebanon, NH, USA
MMFPh funding source(s)
NSF grant IIS-0905206 (in part) and NIH grant P20-RR018787 (in part) for the IDeA Program of the National Center for Research Resources

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