Praveen Kumar

This paper evaluates six metaproteomics tools for functional annotation using GO terms, finding differences in sensitivity and specificity, and integrates two into Galaxy for broader accessibility.

The paper evaluates and implements two label-free quantification tools in the Galaxy platform for proteomics and multi-omics analysis.

The paper introduces a sectioning method to improve peptide spectrum matching in large genome-guided protein sequence databases by increasing sensitivity while maintaining acceptable false discovery rates.

The paper introduces a Galaxy plugin for proteogenomic data visualization and exploration, enabling interactive analysis and sharing of results.

The paper introduces PMD-FDR, a Bayesian confidence measure to filter high-scoring but likely false peptide-spectrum matches in proteomics, improving accuracy in standard, proteogenomics, and metaproteomics datasets.