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  • Johns Hopkins University Baltimore
  • USA

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deppworld/README.md

Hi there ๐Ÿ‘‹

๐Ÿ‘จโ€๐Ÿ”ฌI am Dr. Deepak Verma, a Postdoctoral Fellow at Johns Hopkins Medicine, specializing in bioinformatics, cancer genomics, and translational microbiome research. With over eight years of experience in next-generation sequencing (NGS) and high-throughput data analysis, my research focuses on understanding the molecular mechanisms underlying cancer, particularly triple-negative breast cancer (TNBC), through the integration of metagenomic, transcriptomic, and epigenomic datasets. My work spans multi-omics data integration, development of computational pipelines, and clinical applications, with active involvement in three major NIH-registered microbiome clinical trials (COIN, ANEW, and GAMMER). I bring expertise in tools such as QIIME2, Kraken2, MetaPhlAn4, HUMAnN3, RNA-Seq, scRNA-Seq, and methylation analysis, along with programming skills in R, Python, and Perl. Throughout my academic journey, including my PhD at AIIMS, New Delhi, I have collaborated with clinicians and research teams across disciplines, contributed to high-impact publications, and helped establish genomics-based diagnostic workflows. I am passionate about advancing data-driven precision medicine through translational bioinformatics and open science.

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  1. Microbiome Microbiome Public

    Microbiome Analysis using QIIME2 Humann3 and Metaphlan4

    Python 1

  2. DESeq2 DESeq2 Public

    Working script

    R

  3. microbiome_16S microbiome_16S Public

    Microbiome Analysis using DADA2 and QIIME2

  4. onewayAnova onewayAnova Public

    Examples of oneway anova using R

    R

  5. scRNA scRNA Public

  6. Mev Mev Public