A Molecular Biologist and Biochemist. Transcription factors, genomics, synthetic biology and the molecular basis of disease.
Adelaide, South Australia
Joined October 2011
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Finally out in @NatureComms thanks to all the contributors. Special thanks to Tim and Ali as well as the labs that have supported me and this work over years (none on social media). @RobsInstitute nature.com/articles/s41467-0…
Turns out progesterone receptor A doesn’t have a special role in reproduction science.org/doi/10.1126/scia…
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A novel reaction-diffusion architecture for engineering self-organized patterns in mammalian cells biorxiv.org/content/10.64898…
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Are AI DNA foundational models the new homeopathy?
In my latest column, I explain some of my reasons for being deeply skeptical about AI models that claim to understand DNA, genes, and genomes: stevensalzberg.substack.com/…
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I enjoyed this too much
AP-1 TFs control everything, example #312:
nature.com/articles/d41586-0…
nature.com/articles/s41586-0…
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Beautiful as you could only expect from Mikko’s lab….. but we are also clearly only scratching the surface re-assaying the most well characterised pathways. The juice will really come from broader more scalable iterations. Not a critique BTW, love the paper!!
Our new preprint is online! Viruses, bacteria and parasites use effector proteins to evade immunity and rewire host cell pathways. Together with @AlexanderStark8, we wondered if we could systematically map what these effectors, regardless of their origin, do in human cells. 1/8
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Great to see South Australia putting out some impactful and interesting science!! Congrats to all involved!
Our paper out today in @Nature shows the important role Bifidobacteria in the infant gut microbiota play in mediating optimal responses to vaccination.
nature.com/articles/s41586-0… @sahmriAU @Flinders @nhmrc
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Very cool stuff in this one!
🚨NEW PUBLICATION ALERT🚨: In a paper out today in @ScienceMagazine we describe a way to build synthetic phosphorylation circuits with customizable sense-and-response functions in human cells. Check it out at science.org/doi/10.1126/scie…. 🧵1/n
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I am glad that it is finally being appreciated that TF specificity is encoded by multiple intrinsic mechanisms
GHT-SELEX demonstrates unexpectedly high intrinsic sequence specificity and complex DNA binding of many human transcription factors (Jolma et al., 2024) biorxiv.org/content/10.1101/…
▶️TFs possess sufficient intrinsic specificity to independently delineate cellular targets
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want to get your plasmids (or anything) fully sequenced? Adelaide now has a dropbox for @plasmidsaurus. It is located at the rear of the Adelaide Health and Medical Sciences Building in the loading bay. Pickup is once a week on Wednesday.
This is the second time this month I’ve been absolutely flawed by the progress of machine approaches to protein design. Initially skeptical now all I want to do is change fields and turn architect.
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There is one person who has submitted 24027 jobs to the universities high performance computing node. How is that equitable access and use? Can’t submit a job now
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This is great!! …Viroid-like colonists of human microbiomes | bioRxiv. biorxiv.org/content/10.1101/…
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Growth-induced physiological hypoxia correlates with growth deceleration during normal development biorxiv.org/content/10.1101/…
Awesome!
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