Michael P.H. Stumpf
@theosysbio
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Life Scientist & Mathematician. I use mathematics, inference, and systems biology to study cell fate decision making. IncreasingIy: @[email protected]
Melbourne, Victoria
Joined September 2009
I first learned about lattice animals in the great Annette Zippelius’s advanced stat mech lecture. Hypergraph animals owe a huge debt to her. They’ve been fun to explore and more do: https://t.co/pzlCeutHrq Thanks to @SeanVittadello and @leopmdiaz for helpful discussions
journals.aps.org
Here we introduce simple structures for the analysis of complex hypergraphs, hypergraph animals. These structures are designed to describe the local node neighborhoods of nodes in hypergraphs. We...
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New preprint with @vinaya_sn! https://t.co/JdKpuTexQK We explored the war between colorectal cancers and the immune system and how CRCs change the epigenome, microenvironment and genetics to win it. The highlights:
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So Long, and Thanks for All the Fish! You can find me on Mastodon (on https://t.co/COFIYtH3Rv) and BlueSky always as @theosysbio You can still follow @MacsysCoe to adventures into whole cell modelling.
mathstodon.xyz
A Mastodon instance for maths people. We have LaTeX rendering in the web interface!
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This speech by @FareedZakaria is a litany of misinformation. There is much to improve at US universities, but his claims are false and unhelpful. A rebuttal: 1/🧵
America’s top universities should abandon their long misadventure into politics, retrain their gaze on their core strengths and rebuild their reputations as centers of research and learning. My take:
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Join us for our @MacsysCoe webinar with John Glass on: “Design, Construction, and Analysis of a Synthetic Minimal Bacterial Cell” All welcome, please just register to obtain the zoom link https://t.co/sIsI3et4c0
theoryoflivingsystems.org
Design, Construction, and Analysis of a Synthetic Minimal Bacterial Cell
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Our next @MacsysCoe is this week: Prof Markus Covert will speak about The E coli whole cell modelling project Please register here: https://t.co/wCWxygs6Yo
theoryoflivingsystems.org
The E. coli whole-cell modelling project
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I’m very much looking forward to talking at the Elixir meeting about our work on the topological prope of the protein universe. Tuesday 5th of December at 10:00 CET. https://t.co/7dOPr9jdMM
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Please RT: new @MacsysCoe & @TheoryLivingSys webinar by Prof. Bas Teusink https://t.co/PmkYo0SAFz on Wednesday 22nd of November at 3:30pm AEDT (GMT+11 - Syd/Mel/Can). Very much looking forward to our first whole cell modelling seminar.
theoryoflivingsystems.org
Optimality and microbial growth strategies
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Please RT: new @MacsysCoe & @TheoryLivingSys webinar by Prof. Bas Teusink https://t.co/PmkYo0SAFz on Wednesday 22nd of November at 3:30pm AEDT (GMT+11 - Syd/Mel/Can). Very much looking forward to our first whole cell modelling seminar.
theoryoflivingsystems.org
Optimality and microbial growth strategies
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There’s been plenty of “Physics of Life” postdoc ads recently— high profile places like Max Planck, MIT, Cambridge… Sounds good, right? Well… can you surf there? 🏄♂️ 👇Only 1 day left to apply!👇
**JOB ALERT — Please RT** Postdoc openings x2, now available in my group! Apply here: https://t.co/bNtOKxdFo9 Or read-on to find out what we do, and why you should join… (1/n)
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I’ve always admired Angela MacLean. Her sharpness, knowledge, wit, and outspokenness win me over every time. https://t.co/oAdW2ZnGsn
theguardian.com
Comment by Dame Angela McLean in message during meeting was apparently in reference to ‘eat out to help out’ scheme
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This just shows how important education is - nothing is more effective. https://t.co/NcwN3r5un2
abc.net.au
Scratch the surface of the Voice referendum results, and a more complicated picture emerges.
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Such a catastrophic lack of compassion and understanding. At a complete and utter loss.
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Great and important piece by @LaidlawZoe on the troubled histories of Australian Universities, including @UniMelb and its attempt to confront its legacy of First Nations’ dispossession. https://t.co/s9539VtRbe
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In this new preprint I consider a general theory of function-based hypergraph transformations on families of hypergraphs. These transformations can model dynamic changes, and their form allows for their incorporation into larger mathematical structures. https://t.co/EtD8FEW4PD
arxiv.org
We present a new general theory of function-based hypergraph transformations on finite families of finite hypergraphs. A function-based hypergraph transformation formalises the action of...
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New preprint "The Topological Properties of the Protein Universe". Work carried on by PhD student @DegnbolMadsen, and with @syzmath, @theosysbio @DrDouglasPires and others https://t.co/CluLvS8KLr
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The Topological Properties of the Protein Universe: new biology from new mathematics. We determine topology generators for the whole of AlphaFold2 and show their relationship to global protein features, thermodynamics, and disease mutations.
biorxiv.org
Deep learning methods have revolutionized our ability to predict protein structures, allowing us a glimpse into the entire protein universe. As a result, our understanding of how protein structure...
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Getting some unexpected help with revisions of the hypergraph animals manuscript: https://t.co/c9G7lhCHk0
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Building a solid research profile takes time. We want to support exactly that in #theoreticalbiology and offer *two* long-term postdoc positions. Details and application procedure is here
tecoevo.github.io
Open positions in the group
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