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Max Stammnitz @maxstammnitz.bsky.social Profile picture
Max Stammnitz @maxstammnitz.bsky.social
@maxi_prep
Postdoc @CRGenomica, previously PhD @Cambridge_Uni Genomics | Biodiversity | Evolution
Apr 18, 2024 • 22 tweets • 7 min read
Q: What could GO WRONG with a major cancer genomics study in which tumours are sequenced to only 15x depth?

A: An awful LOT! 😟

Our detailed reanalysis now out in @RSocPublishing:


🧵👇 (1/18) tinyurl.com/RSOSrebuttal
Image In 2020, the Storfer lab reported an analysis of the evolution of devil facial tumour disease () – a severe conservation threat.

Working on DFT, but coming to very different conclusions, we decided to dig deep into their DNA sequencing data. 🧑‍💻

🧵 (2/18) tinyurl.com/Tasdevils2020
Image
Apr 20, 2023 • 16 tweets • 10 min read
NOW OUT @ScienceMagazine 🧬🐾🤓

“The evolution of two transmissible cancers in Tasmanian devils”

A 🧵 on our deep DNA sequencing dive into the startling genetic history of contagious tumours (1/n)

👇

doi.org/10.1126/scienc… Image The mystery: two independent, contagious, highly lethal facial tumour epidemics in the same species 😱!? WOOT⁉️

We reconstructed both cancers’ phylogeny by analysing ~200k somatic mutations from 78 and 41 tumour biopsies (median 83X WGS), collected throughout Tasmania…

2/n ImageImageImage