About me

I'm a Bioinformatician from Uganda, Africa, mostly working with large-scale pathogen genomic data.

My job is to develop automated bioinformatics tools and workflows, analyses and interprete genomics data, develop and manage genomics databases and portals using modern methods and technologies.

What i'm doing

  • design icon

    Tools & Workflows

    Automating bioinformatics analysis pipelines - significantly improving reporting times and reproducibilty.

  • Web development icon

    Data portals & Dashboards

    Develpoing user-friendly tools for managing large scale genomics data and associated metadata.

  • mobile app icon

    Genomics data analysis

    Analysing multi-omics data: Viral genomics, metagenomics, transcriptomics, proteomics and metabolomics datasets.

  • camera icon

    ML for Bioinformatics

    Exploring applications of ML in Bioinformatics. Currently working on predicting HIV-1 drug resistance using ML.

Daniel lewis
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Daniel lewis

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Resume

Education

  1. Makerere University

    Ongoing

    Ph.D. in Bioinformatics.

  2. University of Glasgow

    2016 — 2017

    MSc. in Bioinformatics, Polyomics and Systems Biology.

  3. African Institute for Mathematical Sciences

    2015 — 2016

    MSc. in Mathematical Sciences

  4. Makerere University

    2011 — 2014

    BSc. with Education (Mathematics major)

Experience

  1. Bioinformatician | ABBOTT - UVRI

    October 2022 — Present

    Key activities: Developing and maintaining an in-house metagenomics analysis pipeline; Managing a database of NGS data and conducting data transfers/sharing with partners; Analyzing genomic data for HIV-1, SARS-CoV-2 and Mpox virus (MPXV); Contributing to scientific papers.

  2. Bioinformatics Associate | eLwazi-ODSP - UVRI

    October 2021 — Present

    Key activities: Developing an in-house pipeline for analysis of RNA-Seq data; Providing bioinformatics support to students and researchers working on pathogen and Human genomics data; Integrating microbiome, metabolomics, demographics, and clinical history data; Contributing to scientific papers; Coordinating the introduction to bioinformatics training.

  3. Bioinformatics Associate | H3ABioNet - UVRI

    April 2018 — June 2021

    Key activities: Contributed to the development of the African Genomics Medicine and the African Microbiome Portals; Developed an in-house pipeline for analysis of 16S rRNA microbiome data; Analyzing genomic data for HIV-1, SARS-CoV-2 ; Teaching assistant on several iterations of the introduction to bioinformatics training and the intermediate bioinformatics training; Participated as teaching assistance on the MSc. Bioinformatics program at Makerere University.

Skills

  1. Python, R and Bash scripting

    Workflow management (Nextflow)

    Database management (SQL)

    Code version control and documentation (Git/GitHub)

    Containerization (Docker, Docker compose, Singularity)

    High performance computing and cloud computing (AWS)

    Web development (Django)

    Scientific writing, technical report writing and presentation

    Collaboration and teamwork among culturally and professionally diverse teams

Blog