niethammerlab.bsky.social
Cell biologist interested in how tissues sense and adapt to physical and chemical stress. Wound healing and regeneration. Quantitative imaging approaches. Nuclear mechanotransduction, ROS signaling & metabolism.
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The only thing that made me feel (slightly) good today was canceling all my Amazon subscriptions.
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A key advantage of "Logical Clustering" is its interpretability. One might view this method as an instance of "Conceptual Clustering" (Michalski, 1980), which has been rarely (ever?) used, so far, for the purpose of Gene expression analysis.
www.mli.gmu.edu/papers/79-80...
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A Mac version:
github.com/niethamp/Log...
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www.mathworks.com/matlabcentra...
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“You can build all the dick rockets you want to go to Mars while you try to leave the rest of us on the burning Earth. We’re gonna take control. This is our world, and it’s our government, and it’s our money.”
— Sara Nelson, Association of Flight Attendants president
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If the pathway is really so important, why have so few researchers studied its physiological functions before? Answer: OXER1, like many other biomedically important genes, is not conserved in our main preclinical animal model, the mouse. But zebrafish have it!
www.eurekalert.org/news-release...
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Miklos is currently testing if 5-KETE, through the mucoprotective mechanism he discovered, acts as a paracrine tumor suppressor. Interestingly, the 5-KETE receptor (OXER1) is inactivated by hotspot frameshift mutations in various mucosal tumors from patients (see below).
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Miklos then serendipitously discovered a surprising, non-immunological role for 5-KETE signaling (see 2nd preprint): It protects the gut mucosa against oxidative DNA lesions, apoptosis, leakage (see below images) and infection through inducing anti-mutagenic enzymes called "Nudix hydrolases" 🥂.
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The red box marks the KEGG ID that we now fill with a gene name. I was searching for 15 years for the molecular mechanism through which H2O2 exerts chemotaxis (Niethammer et al., 2009). With Yanan's discovery, this long & facinating journey comes to a happy end 🍾.
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5-HEDH marks a novel, "metabolic"mode of redox sensing: not via reversible thiol oxidation, but by measuring the cytosolic NADP+/NADPH ratio. Thereby, it directly links inflammation to NADPH consumption by NADPH oxidases or antioxidant defense circuits. 5-HEDH remained elusive for the past 30 years.
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5-HEDH controls 5-KETE (5-oxoETE) production. 5-KETE is a powerful leukocyte chemoattractant from fish to primates. Here we identify a novel function for this poorly studied lipid pathway in protecting the mucosal linings of the gut from oxidative damage.
www.biorxiv.org/content/10.1...
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Frightening.
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Why do you imply that the HHMI institute was at stake here? And if so, why should it not anymore be at stake now after this decision?
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The symbolism of this “strategic” move is just so disheartening - happening on the same day, almost if coordinated, with the IDC cap attack on the independent US university system.
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Well, “pushing others out of the life saving boat to protect oneself” is a “strategy”, too. One without solidarity.
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How well has appeasement worked out in recent history?
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Very soon everyone of us will find out the true cost of having values, i.e., not only in pep talks and on social media.
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Recalling my German history lessons at school, it is hard to watch this.
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Speaking truth to power…
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“…announcing the 2021 initiative, HHMI president Erin O’Shea had said, “We wanted to do something that would have an impact nationally and serve as a model for others to follow.” “
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"Oh you can't help that", said the cat, "We are all MAD here." (Lewis Caroll)
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We investigate how the presence/absence of a contiguous ER controls nuclear membrane mechanotransduction. It has been argued that the nuclear membrane can never get tense when the ER is attached. This intuition is incorrect. Green, eGFP-Sec61b (ER). Red, ALPIN (nuclear membrane tension sensor).
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Macrophages detect a wound-induced, ~ 50 um/s osmotic shock wave via the cPla2 pathway. Macrophage cPla2 adsorbs to the inner nuclear membrane almost instantly after laser injury. Ablating macrophages or cPla2 blunts rapid vessel permeabilization. Nuclear mechanobiology in vivo in real time!!!
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Our symbiotic relationship with technology also raises the question: who is (mis)-using whom? Is technology (still) a tool or, in addition, sth else entirely? What is it?
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Interesting thought: bsky.app/profile/theb...
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…until we are fed up with it, a thing that AI will never “understand “…the beauty of the human mind so to speak 🙂
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Ask your favorite chat bot 😉
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Would all journals become "the same", and only the data would shine? Would this be bad for science?