PEIMAN 1.0: Post-translational modification Enrichment, Integration and Matching ANalysis

Payman Nickchi, Mohieddin Jafari, Shiva Kalantari
2015 Database: The Journal of Biological Databases and Curation  
Conventional proteomics has discovered a wide gap between protein sequences and biological functions. The third generation of proteomics was provoked to bridge this gap. Targeted and untargeted post-translational modification (PTM) studies are the most important parts of today's proteomics. Considering the expensive and time-consuming nature of experimental methods, computational methods are developed to study, analyze, predict, count and compute the PTM annotations on proteins. The enrichment
more » ... nalysis softwares are among the common computational biology and bioinformatic software packages. The focus of such softwares is to find the probability of occurrence of the desired biological features in any arbitrary list of genes/proteins. We introduce Post-translational modification Enrichment Integration and Matching Analysis (PEIMAN) software to explore more probable and enriched PTMs on proteins. Here, we also represent the statistics of detected PTM terms used in enrichment analysis in PEIMAN software based on the latest released version of UniProtKB/Swiss-Prot. These results, in addition to giving insight to any given list of proteins, could be useful to design targeted PTM studies for identification and characterization of special chemical groups.
doi:10.1093/database/bav037 pmid:25911152 pmcid:PMC4408379 fatcat:tuk3pzhvbfd2howlfupczhmjhq