Building infrastructure for pediatric cancer sequencing

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Building a pediatric cancer sequencing infrastructure from scratch involves developing a custom lab information system as a web app, utilizing bioinformatics tools like Python and Golang, and addressing various aspects such as lab setup, personnel, space, and competition.

Python is special. It's used by the big tech companies but also by those you would rarely classify as developers. On this episode, we get a look inside how Python is being used at a Children's Hospital to speed and improve patient care. We have Dr. Somak Roy here to share how he's using Python in his day to day job to help kids get well a little bit faster.

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Links from the show

Somak Roy: linkedin.com
Cincinnati Children's Hospital: cincinnatichildrens.org
CNVkit: Genome-wide copy number: readthedocs.io
cnaplotr: github.com
hgvs: readthedocs.io
openpyxl: readthedocs.io
Hera is an Argo Python SDK: github.com
insiM: in silico Mutator software for bioinformatics: github.com
Bamsurgeon: github.com
pysam - An interface for reading and writing SAM files: readthedocs.io
Scientists rename human genes to stop Microsoft Excel from misreading them as dates: theverge.com
BioPython: biopython.org
Watch this episode on YouTube: youtube.com
Episode transcripts: talkpython.fm

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