Deepti J Kundu

The paper analyzes proteomics dataset reuse using PRIDE download statistics and a semi-supervised LLM-based framework to classify download sources.

This study analyzes rice phosphoproteomics data to identify phosphosite variations across the rice pan-genome and their functional implications.

The paper reanalyzes 24 public proteomics datasets to assess baseline protein abundance in 31 human organs and integrates the results into the Expression Atlas for combined proteomics and transcriptomics analysis.

The paper reanalyzes proteomics datasets from mouse and rat tissues to compare baseline protein expression across species and organs, finding high correlation among orthologs in brain, kidney, heart, and liver.

The paper introduces a standardized metadata format for proteomics datasets to improve reusability and integration across public repositories.

This study compiles a proteomics resource for cancer cell lines and tumour samples, finding that protein abundance in cell lines often reflects tumours but fails to capture subtype-specific variations.