117 From Math to Metagenomics - Titus Brown on Career Journeys and Software Solutions
Update: 2023-12-07
Description
In this episode of the Micro Binfie Podcast, Andrew Page and Lee Katz interview Titus Brown about his journey from studying math and physics as an undergrad to becoming a bioinformatician focusing on metagenomics and software development.
Topics discussed:
Titus' background in math, physics, digital evolution research, and developmental biology
His transition into bioinformatics to analyze the influx of genomic data in the 1990s
Developing early tools for comparative genomics and sequence analysis
The philosophy of creating usable software with good documentation
Work on transcriptomics, metagenomics, and k-mers at Michigan State
Digital normalization and dealing with large sequencing datasets
Moving to UC Davis and continuing work on metagenomics and software like khmer and sourmash
Thoughts on challenges around data reuse and accessibility in science.
Papers:
Spacegraphcats - https://genomebiology.biomedcentral.com/articles/10.1186/s13059-020-02066-4
Sourmash - https://www.biorxiv.org/content/10.1101/2022.01.11.475838v2
IBD exploration - https://dib-lab.github.io/2021-paper-ibd/
Topics discussed:
Titus' background in math, physics, digital evolution research, and developmental biology
His transition into bioinformatics to analyze the influx of genomic data in the 1990s
Developing early tools for comparative genomics and sequence analysis
The philosophy of creating usable software with good documentation
Work on transcriptomics, metagenomics, and k-mers at Michigan State
Digital normalization and dealing with large sequencing datasets
Moving to UC Davis and continuing work on metagenomics and software like khmer and sourmash
Thoughts on challenges around data reuse and accessibility in science.
Papers:
Spacegraphcats - https://genomebiology.biomedcentral.com/articles/10.1186/s13059-020-02066-4
Sourmash - https://www.biorxiv.org/content/10.1101/2022.01.11.475838v2
IBD exploration - https://dib-lab.github.io/2021-paper-ibd/
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