Profile
I am a Principal Scientist-II at THSTI, Faridabad, with a Ph.D. in Biotechnology (Computational Biology) from IGIB, which I earned in 2013. During my Ph.D., I developed MassWiz, India's first peptide identification algorithm for mass spectrometry data, and Proteome Analyst, an integrated analysis suite that was recognized by the MIT-TR35 award in 2013. Since joining THSTI in 2013, I have focused on post-translational modifications (PTMs) and big data in translational health sciences, creating innovative tools like QuantWiz-IQ, HyperQuant, and ModST for large-scale proteomics and PTMs analysis. My research interests encompass protein-protein interactions (PPIs), biological networks, and computational analysis in metabolic disoeases like NAFLD and CVDs. I have received several prestigious grants, including the DBT-IYBA, DBT-Big Data Initiative, SERB-SUPRA, and DBT-National Network Project. I am also an elected Executive Council Member of the Proteomics Society of India. My research is currently focussed on creation of a proteogenomic reference map of the human liver to study non-alcoholic fatty liver disease (NAFLD) progression.
Current Focus Areas
Proteogenomics and NAFLD: My primary focus is on proteogenomics, where I am leading a project to create a proteogenomic reference map of the human liver. This project aims to understand the progression of non-alcoholic fatty liver disease (NAFLD) by integrating genomics and proteomics data.
Computational Proteomics Tools: I am developing advanced computational tools for quantitative proteomics, including QuantWiz-IQ for iTRAQ and TMT labeling analysis, HyperQuant for high-order multiplexing, and ModST for large-scale automated identification of post-translational modifications (PTMs). These tools enable a deeper understanding of protein functions and interactions.
Protein-Protein Interactions (PPIs): I study protein-protein interactions (PPIs) and their roles in biological networks, focusing on how they influence health and disease. I investigate the crosstalk between PTMs and how these modifications drive protein activity, thereby affecting the evolution of biological networks over time.
Selected Publications
Raj, A., Aggarwal, S., Singh, P., Yadav, A. K., & Dash, D. (2024). PgxSAVy: A tool for comprehensive evaluation of variant peptide quality in proteogenomics–catching the (un) usual suspects. Computational and Structural Biotechnology Journal, 23, 711-722.
Aggarwal, S., Raj, A., Kumar, D., Dash, D., & Yadav, A. K. (2022). False discovery rate: the Achilles’ heel of proteogenomics. Briefings in bioinformatics, 23(5), bbac163.
Aggarwal, S., Banerjee, S. K., Talukdar, N. C., & Yadav, A. K. (2020). Post-translational modification crosstalk and hotspots in sirtuin interactors implicated in cardiovascular diseases. Frontiers in genetics, 11, 519883.
Aggarwal, S., Kumar, A., Jamwal, S., Midha, M. K., Talukdar, N. C., & Yadav, A. K. (2020). HyperQuant—a computational pipeline for higher order multiplexed quantitative proteomics. ACS omega, 5(19), 10857-10867.
Tolani, P., Gupta, S., Yadav, K., Aggarwal, S., & Yadav, A. K. (2021). Big data, integrative omics and network biology. Advances in protein chemistry and structural biology, 127, 127-160.