Karthick Vasudevan

This paper identifies neoantigen peptides and immune subtypes in TNBC using genomic and transcriptomic data, finding potential vaccine targets and biomarkers for immune stratification.

The paper integrates gene expression and DNA methylation data using a network-based approach to identify prognostic biomarkers for early-stage pancreatic cancer, achieving higher classification accuracy with multi-omics features.

The paper analyzes K. pneumoniae genomes to show convergence between antimicrobial resistance and hypervirulence, identifying dual-risk clones and geographic hotspots.

DeepEpitope predicts linear B-cell epitopes from cancer antigens using deep learning and ESM embeddings, achieving higher accuracy than existing tools.

VaxOptiML predicts MHC-I and MHC-II epitopes using machine learning, offering higher accuracy and usability for cancer immunotherapy.

This study analyzes the genome of Klebsiella variicola from diverse sources to identify genetic adaptations linked to human infection.

The paper analyzes S. Paratyphi A isolates to show genome degradation and gene flux drive lineage evolution, with implications for public health surveillance.

The paper identifies ompC/F mutations as key factors in E. coli's XDR phenotype and lineage defining super clones, highlighting their role in carbapenemase gene acquisition and treatment challenges.

The paper analyzes SARS-CoV-2 genetic variants to identify stabilizing and destabilizing mutations and their impact on viral protein structure and function.

The paper identifies a carboxylic acid-containing compound as a potential inhibitor of NDM-1 through virtual screening and molecular dynamics simulations, showing higher binding affinity than Captopril.

This study analyzes ceftriaxone-resistant Salmonella Typhi isolates from India, finding that resistance arises from plasmid acquisition, with IncX3 and IncN plasmids contributing to sporadic resistance while IncY plasmids are associated with outbreaks in Pakistan.

The paper characterizes nine novel multidrug-resistant hypervirulent Klebsiella pneumoniae isolates in India, which harbor mosaic plasmids containing both antimicrobial resistance and virulence genes.

The paper analyzes genomic data from Shigella species in India, showing long-term persistence of S. flexneri and recent dominance of ciprofloxacin-resistant S. sonnei clones.

The paper reports the first whole-genome analysis of multidrug-resistant E. coli isolates from bloodstream infections in India, identifying key resistance and virulence gene profiles.

The paper reports complete genomes of two clinical B. pertussis ST2 strains from India, revealing genome degradation and virulence traits compared to vaccine reference strains.