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<p>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.</p>

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Assessment of plasma derived microbiome profiles in lung cancer using targeted and whole exome sequencing

  • 期刊论文

  • 出版模式：

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  • 发表日期：

    2025年6月7日

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  • 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

摘要

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.