Amelie Stein
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amelierocks.bsky.social
Amelie Stein
@amelierocks.bsky.social
1.8K followers 880 following 91 posts
Scientist. Mom. Coffee snob. Protein nerd.
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Reposted by Amelie Stein
peiferlabunc.bsky.social
One of my science heroes, Joan Brugge, talks about how science funding cuts are slowing their work on breast cancer prevention--share this widely
www.facebook.com/60minutes/vi...
439K views · 15K reactions | Harvard researcher Joan Brugge says her work has the potential to prevent breast cancer, but she was notified last spring that her federal funding was terminated. “It was ...
Harvard researcher Joan Brugge says her work has the potential to prevent breast cancer, but she was notified last spring that her federal funding was terminated. “It was just like a gut punch. My...
www.facebook.com
November 10, 2025 at 11:12 AM
amelierocks.bsky.social
Fall is beautiful, even on gray days 🍂 🍁
Path by a creek strewn with leaves Ducks on the creek
November 8, 2025 at 12:08 PM
Reposted by Amelie Stein
meadekrosby.bsky.social
Thinking only of Rosalind Franklin today, and what was stolen from her (and so many other female scientists alongside her).
Rosalind Franklin and the damage of gender harassment
Spurred by a recent report on sexual harassment in academia, our columnist revisits a historical case and reflects on what has changed—and what hasn’t
www.science.org
November 7, 2025 at 7:58 PM
amelierocks.bsky.social
My 11yo is more active in her Teams chats than I am in mine.
November 7, 2025 at 1:44 PM
amelierocks.bsky.social
Danish design cup
Royal Copenhagen cup filled with Lego
October 28, 2025 at 12:03 PM
Reposted by Amelie Stein
pedrobeltrao.bsky.social
Looks like OpenFold3 has been formally released in a public "preview". Not quite on parity with AlphaFold3 on a few benchmarks shown, in particular for antibody interactions. All info on the github link. I am sure we will hear more about this from the developers github.com/aqlaboratory...
GitHub - aqlaboratory/openfold-3: OpenFold3: A fully open source biomolecular structure prediction model based on AlphaFold3
OpenFold3: A fully open source biomolecular structure prediction model based on AlphaFold3 - aqlaboratory/openfold-3
github.com
October 28, 2025 at 9:30 AM
Reposted by Amelie Stein
peiferlabunc.bsky.social
The UNC Department of Biology is seeking a Director of Biology Teaching Labs, a key leadership role overseeing our undergraduate laboratory program. 1/n
Learn more and apply here: unc.peopleadmin.com/postings/308...
Director of Biology Teaching Labs
The Director of Biology Teaching Labs provides leadership and direction in the management of the Biology Department's undergraduate laboratories and will be responsible for the undergraduate laborator...
unc.peopleadmin.com
October 27, 2025 at 2:12 PM
Reposted by Amelie Stein
markhamillofficial.bsky.social
I have a very bad feeling about this...
October 27, 2025 at 4:51 PM
Reposted by Amelie Stein
laurahowes.bsky.social
Alternatively, lads, might be worth thinking about supporting the German car industry to remain viable in the future rather than locking them into a dying business model.
But sure, you go off...
katjadiehl.bsky.social Katja Diehl @katjadiehl.bsky.social · 17d
Ich schäme mich so.

"In einem Beschlusspapier der Ministerpräsidentenkonferenz in Mainz heißt es, das starre Verbot der Verbrennertechnologie ab dem Jahr 2035 gefährde die Wettbewerbsfähigkeit des Automobilstandortes Deutschland."

www.deutschlandfunk.de/ministerprae...
Mainz - Ministerpräsidenten gegen Verbrenner-Aus 2035 - Söder: Klimaziele in Europa gefährden Wohlstand
Die Bundesländer fordern eine Neuregelung des Verkaufsverbots in der EU für Autos mit Verbrennermotoren.
www.deutschlandfunk.de
October 25, 2025 at 8:52 AM
amelierocks.bsky.social
Airplane sunrise is the reward for early departures.
Looking forward to European RosettaCon 2025!
Blazing colourful sunrise seen through an airplane window
October 20, 2025 at 6:38 AM
amelierocks.bsky.social
Kiel
Kiel Marina, sail boats Planters along the marina Threemaster behind a large tree
October 13, 2025 at 2:18 PM
Reposted by Amelie Stein
ijayas.bsky.social
Ah, a classic moment of @nature.com recognizing the scientific contributions of both genders: man and machine.
profannawatts.bsky.social Prof Anna Watts @profannawatts.bsky.social · Oct 9
Lol the Nobels can't even acknowledge women's contribution to discovery. But sure let's acknowledge The Machines.
Headline from an article in Nature this week that states "Prizes must recognize machine contributions to discovery. The future of science will be written by humans and machines together. Awards should reflect that reality."
October 9, 2025 at 7:40 PM
Reposted by Amelie Stein
madic.bsky.social
You can get MSAs directly from AlphaFold DB now (alphafold.ebi.ac.uk). I also missed the FoldSeek implementation, which lets you search for structurally similar proteins direktly.

This saves some clicking around. Neat!
October 7, 2025 at 2:54 PM
Reposted by Amelie Stein
evoneuro.bsky.social
As I tell my students, if you arrived at a simple answer in biology you have done one of two things: arrived at the wrong answer or asked the wrong question
clauswilke.com Claus Wilke @clauswilke.com · Oct 7
Biology is much more complicated than most non-biologists can imagine. And AI is not going to change this anytime soon.
blog.genesmindsmachines.com/p/we-still-c...
We still can’t predict much of anything in biology
Biology is hard. Yes, even for AI.
blog.genesmindsmachines.com
October 9, 2025 at 2:38 PM
amelierocks.bsky.social
Kindergarten teacher asks what I teach (biological sequence analyses), I try to explain.
She turns to the 3yo and asks „What do you want to be when you grow up?“

Prompt and confident answer: „A butterfly 🦋!“
October 9, 2025 at 4:19 PM
Reposted by Amelie Stein
lindorfflarsen.bsky.social
The proteasome-substrate-shuttle protein UBQLN2 contains—like other quality control system proteins—a long region devoid of lysine (a lysine desert)

Martin Grønbæk-Thygesen (from @rhp-lab.bsky.social) et al show that introducing K here causes ubiquitylation and degradation

doi.org/10.1101/2025...
Fig. 1 – UBQLN2 is a conserved lysine-depleted protein. (A) Sequence comparison of UBQLN2 orthologs in the indicated species. Intrinsically disordered regions in human UBQLN2 based on MobiDB are shown as a blue bar. The domain organization based on the SMART database is marked. Lysine residues are marked as black squares. (B) ESM-2 predictions of all possible single amino acid substitutions of human UBQLN2 presented as a heat map. The wild-type residues are marked in blue. ESM-2 scores close to zero (light yellow colors) indicate that the amino acid substitution is compatible with the ESM-2 language model, whereas negative scores (dark orange colors) indicate that the variant is incompatible with the ESM-2 model. The domain organization (based on SMART) is aligned above the map. Note that substitutions to lysine or cysteine in general appear detrimental, in particular downstream of the UBL domain. (C) The AlphaFold2 predicted structured of human UBQLN2 (AF-Q9UHD9-F1) (left panel). The UBL domain is colored blue, and the UBA domain is colored orange and the STI1 regions green. Zoom in on the UBL domain (right panel) with the lysine residues highlighted as stick representations and colored based on the relative accessible surface area (rASA, dark red exposed; grey, buried).
October 7, 2025 at 9:20 PM
Reposted by Amelie Stein
lizbwood.bsky.social
For every Nobel that goes to a criminally under-recognized woman scientist (Brunkow, Karikó), or fails to go (Candy Lee), a week of mourning and reform for an academic system wherein you can do Nobel-prize-worthy-work and still end up without a conceivable path to being a professor.
nature.com Nature @nature.com · Oct 6
BREAKING: The Nobel Prize in Physiology or Medicine has been awarded jointly to Mary E. Brunkow, Fred Ramsdell, and Shimon Sakaguchi "for their discoveries concerning peripheral immune tolerance"

Stay tuned for more.
#NobelPrize
A photo of a Nobel medal
October 6, 2025 at 10:13 AM
amelierocks.bsky.social
Fun & action the local science museum

#experimentarium
Small child standing by a goods transport model (essentially a very large rolling ball sculpture), next to a sign labelled København, putting orange balls onto the rails.
October 5, 2025 at 1:27 PM
Reposted by Amelie Stein
irinabezsonova.bsky.social
This October I’m drawing one molecule a day inspired by proteins in pdb @rcsbpdb.bsky.social

Day 2/31
Prompt WEAVE

N-terminal domain of a Fibrion - a building block of silk fiber produced by silkworms.

Pdb: 3UA0

Next prompt is CROWN and I would love your suggestions!
October 3, 2025 at 3:29 AM
amelierocks.bsky.social
Some interesting thoughts on the Perspective Harper Raiken and I wrote over the summer
philipcball.bsky.social Philip Ball @philipcball.bsky.social · Oct 2
We can identify genetic associations with disease, but the hard part is figuring out what effects the variants at those loci actually do, including how penetrant they are. This is hard. But one phrase in this piece struck me in particular... /1
www.science.org/doi/10.1126/...
Penetrance and variant consequences—Two sides of the same coin?
To get more out of genome sequences, the effects of variants need to be quantified
www.science.org
October 3, 2025 at 8:39 AM
Reposted by Amelie Stein
jensfoell.de
I don’t know who wrote this, but it’s absolutely perfect
• X-Men is about civil rights. If you didn't get that, you didn't get X-Men. • Black Panther is about civil rights. If you didn't get that, you didn't get Black Panther. • Captain America literally fought the Nazis. He is the embodiment of fighting the alt-right. If you didn't get that, you didn't get Captain America. • The Empire in Star Wars is fascist. The Rebel alliance is Anti-Fascist. If you didn't get that, you didn't get Star Wars. • The Punisher isn't meant to be a role model for police or armed forces. So much so that the writers of The Punisher made him actively speak out against it in a comic. If you didn't get that, you didn't get The Punisher. • Deadpool is queer. He's pansexual. Fact. If you didn't get that you didn't get Deadpool. • Star Trek is about equality for all genders, races, and sexualities. As early as the mid-60s it was taking a pro-choice stance and defending women's right to choose. One of its clearest themes is accepting different cultures and appearances
March 23, 2024 at 10:09 AM
Reposted by Amelie Stein
sarahshammas.bsky.social
Why are transcription factors disordered? Come join us in Oxford as a postdoc and we'll find out together!

Help publish 3 mature projects, AND develop cool new single molecule fluorescence binding assays!

biophysics
transcription
protein:DNA interactions

my.corehr.com/pls/uoxrecru...
October 1, 2025 at 4:30 PM
amelierocks.bsky.social
Recruiting the next generation of bioinformatics students
Small child wearing a large blue t-shirt with “Bioinformatik” in big letters. Face covered with a heart for privacy.
October 1, 2025 at 1:57 PM
Reposted by Amelie Stein
victorgreiff.bsky.social
We’re recruiting a PhD Fellow in Computational Systems Immunology. Work on large-scale immune receptor datasets and develop computational models in close collaboration with experimental labs. Apply here: www.jobbnorge.no/en/available...
PhD Fellowship in Computational Systems Immunology (286608) | University of Oslo
Job title: PhD Fellowship in Computational Systems Immunology (286608), Employer: University of Oslo, Deadline: Wednesday, October 15, 2025
www.jobbnorge.no
September 28, 2025 at 11:55 AM
Reposted by Amelie Stein
napaaqtuk.bsky.social
Interesting episode of short wave about the origin of endometriosis. I really appreciate that they end with how uncertainty in NIH funding affects the future of their work.

www.npr.org/2025/09/26/n...
What causes endometriosis? Scientists are closer to finding out : Short Wave
Since the age of nine or ten, Katie Burns has had debilitating pain from endometriosis, a condition where tissue resembling the uterine lining grows outside the uterus. For years, Katie was in the dar...
www.npr.org
September 27, 2025 at 9:30 AM