UniprotR: Retrieving and visualizing protein sequence and functional information from Universal Protein Resource (UniProt knowledgebase).

UniprotR: Retrieving and visualizing protein sequence and functional information from Universal Protein Resource (UniProt knowledgebase). J Proteomics. 2019 Dec 13;:103613 Authors: Soudy M, Anwar A, Ahmed EA, Osama A, Ezzeldin S, Mahgoub S, Magdeldin S Abstract UniprotR is a software package designed to easily retrieve, cluster and visualize protein data from UniProt knowledgebase (UniProtKB) using R language. The package is implemented mainly to process, parse and illustrate proteomics data in a handy and time-saving approach allowing researchers to summarize all required protein information available at UniProtKB in a readable data frame, Excel CSV file, and/or graphical output. UniprotR generates a set of graphics including gene ontology, chromosomal location, protein scoring and status, protein networking, sequence phylogenetic tree, and physicochemical properties. In addition, the package supports clustering of proteins based on primary gene name or chromosomal location, facilitating additional downstream analysis. SIGNIFICANCE: In this work, we implemented a robust package for retrieving and visualizing information from multiple sources such UniProtKB, SWISS-MODEL, and STRING. UniprotR Contains functions that able to retrieve and cluster data in a handy way and visualize data in publishable graphs to facilitate researcher's work and fulfill their needs. UniprotR will aid in saving time for downstream data analysis instead of ma...
Source: Journal of Proteomics - Category: Biochemistry Authors: Tags: J Proteomics Source Type: research