Sign in

Ira Zibbu

@coolscootre.bsky.social
118 followers 141 following 97 posts

Evolution enthusiast/ Computer Nerd/ Molecular wizard-in-training. PhD student watching 80,000 generations of bacterial evolution @ Barrick Lab, Michigan State University. Enjoyer of all things post-modern and in the zeitgeist.

PostsRepliesMedia
Ira Zibbu @coolscootre.bsky.social · 07/10/2026
with the hopes that exposure and education can help them understand. What we should not do is let those stances drive the agenda of liberal movements.
000
Ira Zibbu @coolscootre.bsky.social · 07/10/2026
More importantly trans people and women and other minorities are not to be treated as sacrificial lambs. I'm not talking about purity testing individuals; we can let people with imperfect stances and politics into the movement,
100
Ira Zibbu @coolscootre.bsky.social · 07/10/2026
Reminds me of that maddening time when Ezra Klein suggested liberals should give up on abortion rights when running candidates in certain states. Why the hell would people vote for your diet misogyny when you can have full on misogyny?
110
Ira Zibbu @coolscootre.bsky.social · 07/10/2026
I've never understood the logic of "if we just make XYZ trans issue palatable in ABC manner, we will gain our rights." Why the hell would they go for your offering of diet transphobia when they have just have full on transphobia?
100
Ira Zibbu @coolscootre.bsky.social · 07/10/2026
They ask me to contact the city police, but at this point I don't even care anymore. Neither was willing to even make a report. They will punt you around because they fundamentally view you as a nuisance & a liability.
191
Ira Zibbu @coolscootre.bsky.social · 07/10/2026
I filed a report with the Title IX office, but they said since it happened off campus they could not help me. They asked me to contact campus police, and I call them, but they said it happened off campus so they could not help me.
161
Ira Zibbu @coolscootre.bsky.social · 07/10/2026
I've had this happen to me. Got street harrassed by two college-aged men who were clearly students. I had their license plate, a description of their appearance, and the date and time of the event.
151
Ira Zibbu @coolscootre.bsky.social · 07/10/2026
"Before her death, she reported her killer for stalking and other abuse both to campus police and the Salt Lake City Police Department. But because some of it occurred on campus and some off campus, because she lived on campus but he didn’t, neither police jurisdiction would take her case."
171
Ira Zibbu @coolscootre.bsky.social · 07/10/2026
"If the violence happened on campus, you are going to have a very hard time with your city’s police department due to jurisdiction and vice versa. This happened with Lauren McCluskey, a University of Utah student who was murdered by her ex-boyfriend in 2018..."
12110
Ira Zibbu @coolscootre.bsky.social · 07/10/2026
It's making the rounds in our journal club!
010
Reposted by Ira Zibbu
Dolphin Pilot @theamitie.bsky.social · 06/10/2026
It’s so weird Rowling is anti-trans when she’s written a book with a man’s pseudonym
2172
Ira Zibbu @coolscootre.bsky.social · 02/10/2026
I've always wondered by Lorenz has normal progressive beliefs but is willing to die on this weird (and unscientific hill) about social media. In hindsight the answer is obvious now that you point it out
110
Ira Zibbu @coolscootre.bsky.social · 02/10/2026
thewire.in/history/reme...
thewire.in
Remembering Bhagat Singh as One of India's Foremost 'Dimaagi Naxals'
The revolutionary's legacy rests as much in his commitment to reason, secularism and socialism as in the martyrdom he is most remembered for.
000
Reposted by Ira Zibbu
Simons Foundation @simonsfoundation.org · 01/10/2026
We're committing $23M over 5 years to support research excellence at HBCUs through two new grants: the HBCU Centers of Excellence Program and the HBCU Faculty Fellowship Program. Now accepting applications: bit.ly/4zu6OdB #science #math #funding
bit.ly
Apply Now: New Grants to Support HBCU Faculty and Research Excellence
Apply Now: New Grants to Support HBCU Faculty and Research Excellence on Simons Foundation
02715
Ira Zibbu @coolscootre.bsky.social · 30/09/2026
Thank you rant over
010
Ira Zibbu @coolscootre.bsky.social · 30/09/2026
- The right edge is unsafe or reasonably unusable because of things like debris, poor pavement, drain grates, parked/moving vehicles, pedestrians, animals, etc. - You're in a right-turn lane but going straight through the intersection.
111
Ira Zibbu @coolscootre.bsky.social · 30/09/2026
Also! If you live in Michigan, there is NOT A SINGLE PIECE OF LAW that prohibits a cyclist from being in the main road (and not in the bike lane if one is present). In fact, here is a non-exhaustive list of reasons why: - Passing another cyclist or vehicle. - Preparing to turn left.
120
Ira Zibbu @coolscootre.bsky.social · 30/09/2026
I was once pulled up to an intersection on my bike and a man rolled his window down from his car and told me I shouldn't be in that lane but instead in the bike lane. Ladies and gents there is no bike lane in that 50ft stretch on northbound Abbot Rd south of Saginaw in East Lansing.
140
Ira Zibbu @coolscootre.bsky.social · 29/09/2026
Ah, the age old question: do grades matter for graduate school applications and beyond? No. But also yes. irazibbu.substack.com/p/do-grades-...
irazibbu.substack.com
Do Grades Matter for Graduate School?
Short answer: No. But also yes.
032
Ira Zibbu @coolscootre.bsky.social · 24/09/2026
I'm so excited!!
020
Reposted by Ira Zibbu
Tatta Bio @tattabio.bsky.social · 23/09/2026
In our preprint released last Friday, we show that evolutionary sequence information learned by our genomic language model, gLM2, can be used to design complex, multi-domain enzymes and expand their chemistry beyond their natural repertoire. 🧵 Preprint: www.biorxiv.org/content/10.6...
biorxiv.org
Generative Design of New-to-nature Biosynthetic Assembly Lines with Genomic Language Modeling
Reprogramming biosynthetic assembly lines can extend biosynthesis beyond the chemical space explored by nature. However, this remains difficult because assembly-line function depends on coordinated in...
143
Reposted by Ira Zibbu
Jesse Raab @jraab.bsky.social · 24/09/2026
Can't decide if this is hilarious or depressing substack.com/home/post/p-...
substack.com
Opinion: I Miss When The NIH Payline Was 40% And We All Mouth-Pipetted Phenol
By Dr. Douglas R. Waverly, Professor Emeritus of Biochemistry, Yale University
3186
Ira Zibbu @coolscootre.bsky.social · 24/09/2026
en.wikipedia.org/wiki/Shankar... You can hardly read a paper in molecular/cellular biology that does not have some kind of next-gen sequencing.
en.wikipedia.org
Shankar Balasubramanian - Wikipedia
030
Ira Zibbu @coolscootre.bsky.social · 24/09/2026
www.asimov.press/p/theory-bio...
asimov.press
On the Role of Theory in Biology
Biology is often seen as an experimental science, with theory serving to generalize patterns from empirical data. But history reveals that theory plays a more generative role in discovery itself.
0116
Ira Zibbu @coolscootre.bsky.social · 16/09/2026
Snakemake has this flag `--keep-going` which tells it to keep running the workflow even if some steps/samples fail. And unironically when I am having a bad day I just say `--keep-going` to myself.
010
Reposted by Ira Zibbu
Karen Lloyd @karenlloyd.bsky.social · 16/09/2026
I wrote a blog post about aeornophiles for Small Things Considered. smallthingsconsidered.blog/schaechter/2...
smallthingsconsidered.blog
Aeonophiles
by Karen G. Lloyd — The story behind some extremely long-lived microbial cells.
22612
Ira Zibbu @coolscootre.bsky.social · 14/09/2026
this panel 1 one rearrangement away from loss
010
Reposted by Ira Zibbu
Tami Lieberman @contaminatedsci.bsky.social · 08/09/2026
Two announcements regarding AccuSNV, which calls high precision SNVs across microbial genomes: Version 1.1 is now incredibly easy to install, run, and perform downstream analyses with (see image of typical output!). The manuscript was also published this summer in Genome Research! Links next...
15725
Ira Zibbu @coolscootre.bsky.social · 08/09/2026
I think you all deserve a little Weber and Baudrillard as a treat
000
Ira Zibbu @coolscootre.bsky.social · 08/09/2026
www.nature.com/articles/s41... fork found in kitchen
nature.com
How contemporary academic structures constrain scientific creativity and hold back early-career researchers - Nature Human Behaviour
In this Perspective, Haubrock et al. argue that today’s scientific structures constrain creativity and that strategic conformity is a rational response. They discuss how this holds back early-career researchers from reaching their full potential as scientists.
051
Ira Zibbu @coolscootre.bsky.social · 02/09/2026
How do you make the decision do to a PhD? I had some succinct thoughts: irazibbu.substack.com/p/how-did-i-...
irazibbu.substack.com
How did I know I wanted to do a PhD?
Some thoughts on how to make a crucial decision.
000
Reposted by Ira Zibbu
Sean Carroll @seanmcarroll.bsky.social · 29/08/2026
Ever wonder what "information" really means? Here's our new paper, led by @frosas.bsky.social, that lays out the multiple ways the term is used in natural science. rdcu.be/fCDGv
A chart describing four faces of information: Engineering, Statistical, Thermodynamic, and Ontological.
1325566
Ira Zibbu @coolscootre.bsky.social · 31/08/2026
The fact that this time of "poorly understood" nonsense statements proliferate funding applications and papers is beyond me. It is opium for any critical evaluation of impact. The opposite of an intuition pump (say an intuition drain clog).
100
Ira Zibbu @coolscootre.bsky.social · 31/08/2026
If you say, "Oh we don't understand X." and I say, "Here is this study about X." Then you can, "Oh, that just shows X.1 to be true, but we don't know anything about X.2" where X.1 and X.2 are some sub-statements of X. We can play this game ad infinitum.
100
Ira Zibbu @coolscootre.bsky.social · 31/08/2026
It is not a statement that can be falsified, hence it is "always true". It's the *performance* of epistemic value, not a demonstration of actual value. It's a rhetorical chess move that has no counter move because you can always move the goal post.
100
Ira Zibbu @coolscootre.bsky.social · 31/08/2026
Every time I read the statement "XYZ is poorly understood" it pisses me off. It is a non-statement! Everyone says that about their own research. You can always construct a a gap and the sell yourself as the one to fill it. Anything can be "poorly understood."
130
Ira Zibbu @coolscootre.bsky.social · 28/08/2026
This has to be ragebait right?
040
Ira Zibbu @coolscootre.bsky.social · 27/08/2026
arxiv.org/abs/2608.16753 I think it is very important for a field like bioinformatics to reckon with generative AI in the same way. Thank you Terry Tao for this
arxiv.org
Mathematics in the age of AI
An essay, based on a public lecture delivered at the 2026 International Congress of Mathematicians, on how the mathematical community might respond to the arrival of artificial intelligence tools that...
0113
Ira Zibbu @coolscootre.bsky.social · 27/08/2026
he was a ctrl+F boy i said see your l8r boy he wasn't `grep` enough 4 me
000
Reposted by Ira Zibbu
Carolyn Bertozzi @carolynbertozzi.bskyverified.social · 27/08/2026
🙏 #Dolly www.nature.com/articles/d41...
nature.com
Dolly Parton dies aged 80 — researchers celebrate her contributions to science
The country singer was an advocate for vaccines, public health, literacy and marginalized communities.
0568
Reposted by Ira Zibbu
Rahawa Haile @rahawahaile.bsky.social · 27/08/2026
I wrote about Dolly and Appalachia for this week’s Scratch. www.talkscratch.com/dolly-parton...
talkscratch.com
Dolly Parton Loved Being Dolly Parton
It was one of the most important aspects of her art.
113245
Reposted by Ira Zibbu
Sarah McAnulty, Ph.D. @sarahmackattack.bsky.social · 25/08/2026
We need YOU to spread the word about @skypeascientist.bsky.social - our *free* program that matches scientists w/classrooms & more! When educators sign up, they can tell us who told them about us. We'll hold a monthly drawing for $150 of science supplies* from the referrers! SkypeAScientist.com
a praying mantis is on the telephone and excited to hear someone on the phone say "Skype a Scientist has a new referral program"
5146123
Ira Zibbu @coolscootre.bsky.social · 21/08/2026
thanks AI
020
Reposted by Ira Zibbu
BejaLabTechnion @bejalab.bsky.social · 19/08/2026
Pervasive phosphorylation by phage T7 kinase disarms bacterial defences www.nature.com/articles/s41...
nature.com
Pervasive phosphorylation by phage T7 kinase disarms bacterial defences - Nature
The T7 bacteriophage deactivates bacterial defence systems through T7K phosphorylation of nearly all host and phage proteins during infection.
0165
Ira Zibbu @coolscootre.bsky.social · 14/08/2026
Most PhD application advice is either (1) generic advice without examples (2) sample materials without explanation. Here I tried to bridge the gap between these two. If you know somebody applying this cycle and may benefit, please share this! ✨ irazibbu.substack.com/p/a-realisti...
irazibbu.substack.com
A Realistic Guide to Writing a Good PhD Application Essay
I revisit, breakdown and explain my own essay to show you what works (and what doesn't).
095
Ira Zibbu @coolscootre.bsky.social · 14/08/2026
A lovely read Rich. Reminds me that the time horizon for my work is not this month, this year, or even this decade, but this lifetime.
120
Reposted by Ira Zibbu
derek guy @dieworkwear.bsky.social · 13/08/2026
I enjoyed this. ordinaryabundance.com
ordinaryabundance.com
Ordinary Abundance
A walk through a modern apartment, through the eyes of the people for whom everything in it was new.
753426910
Ira Zibbu @coolscootre.bsky.social · 12/08/2026
I take great pains to never refer to Claude with gendered pronouns, and today it assumed I am a man😔
Screenshot of a terminal that says several
000
Reposted by Ira Zibbu
Claus Wilke @clauswilke.com · 12/08/2026
A new paper challenges how we have used protein language models (pLMs) for protein engineering. It suggests that using pLMs as antipredictors (try mutations the model thinks are bad) can generate the best leads for engineering novel function. blog.genesmindsmachines.com/p/protein-la...
blog.genesmindsmachines.com
Protein language models are overly constrained by covariation
Why good performance on one set of goals can lead to poor performance on another
14812
Ira Zibbu @coolscootre.bsky.social · 11/08/2026
My personal nightmare is joining a company/institute that forces me to use Windows/macOS on my work laptop and yells at me when I eventually boot whatever linux distro is scratching my itch at that time
020