Assessment of plasma derived microbiome profiles in lung cancer using targeted and whole exome sequencing
Year: 2025
Type: article
Study design: Observational Study
Abstract: Microbial infections contribute to ~20% of malignancy. Plasma-derived cell-free DNA presents a promising avenue for non-invasive cancer diagnostics, capturing microbial signatures. We analyzed 261 plasma from 50 patients with lung adenocarcinoma by targeted and whole exome sequencing at 10,000 × and 340 × depth, respectively. Comparative analyses of Kraken 2 and IPD2 reveal substantial discrepancies, highlighting challenges in microbial DNA quantification and the need for stringent bioinformatics approaches to ensure accurate cancer microbiome profiling.
Authors: Vichitra Behel, Supriya Hait, Vanita Noronha, Aniket Chowdhury, Pratik Chandrani, Vijay Patil, Nandini Menon, Rohit Mishra, Bhargavi Bawaskar, Ganesh Dahimbekar, Minit Shah, Rajiv Kaushal, Vidya Veldore, Hitesh Goswami, Atul Bharde, Jayant Khandare, Gowhar Shafi, Anuradha Choughule, Neetu Tyagi, Sanket Desai, Kumar Prabhash, Amit Dutt
Institutions: Homi Bhabha National Institute, Tata Memorial Hospital, Advanced Centre for Treatment, Research and Education in Cancer, Institute of Bioinformatics, Institute of Bioinformatics and Applied Biotechnology, Kalpavriksh, Maharashtra Institute of Medical Education and Research, University of Delhi
Language: English
Subfield: Cancer Research
Domain: Life Sciences
Open Access status: gold
Estimated APC paid: $3,490
Award: G4573124741
OpenAlex ID: W4411118489