Reposted by Brad Bowles 🧬Dr. Stephanie @punkrockscience.bsky.social · 12/10/2026Interviewer: Can you explain this gap in your CV? Scientist: That’s the non-coding portion of my CV - we’re not yet sure what all of it does, but we keep discovering new reasons that it’s there. 324945
Reposted by Brad Bowles 🧬Jordan van der Hagen @thejvandy.bsky.social · 10/10/2026Listen to the Leaves Rustle. Minneapolis, Minnesota 1364
Reposted by Brad Bowles 🧬Armin Ronacher @mitsuhiko.at · 09/10/2026In the process I learned there is no good open source contrast algorithm so we're doing a survey on contrast to make one. Would be cool if you could take some minutes out of your day and do it. For science! contrastsurvey.earendil.comcontrastsurvey.earendil.comWhich grey stands out more?A five-minute experiment on how people see contrast on their own screens. 3149
Brad Bowles 🧬 @bradbowles.bsky.social · 07/10/2026(This hack also works to eliminate cybersecurity vulnerabilities) 050
Reposted by Brad Bowles 🧬Caroline Bartman @cbartman.bsky.social · 26/09/2026Are there key discoveries made with spatial RNA seq? Or what are your favorite spatial rna seq papers? Pls reski! 31816
Reposted by Brad Bowles 🧬Nic Wise @fastchicken.co.nz · 26/09/2026This is excellent - esp the "don't trust ZIRP-era advice". Not just for beginners.seangoedecke.comAdvice to a beginning software engineerIn general, you should be suspicious of engineers who are trying to give you advice. Even during ordinary times, this industry is so wide and changes so quickly… 12610
Reposted by Brad Bowles 🧬Better Things Are Possible @internethippo.bsky.social · 19/07/2025It's Friday night baby 106130152640
Reposted by Brad Bowles 🧬Rob Patro @robp.bsky.social · 16/09/2026New preprint led by Zoe Rudnick: bramble 🌿 RNA-seq quantification makes you pick a side. Align to the transcriptome and your quantifier is happy, but reads from unannotated transcripts get misassigned to annotated ones. Align to the genome and you keep discovery, but limit quantification choices. 12913
Reposted by Brad Bowles 🧬Alex Rubinsteyn @alexr.bsky.social · 20/07/2026Late 2020s going to be full of breakthroughs communicated as tweets like “lol fine tuned SlopCoder-V7 and it proved P=NP” with a link to fully correct alien math 162
Reposted by Brad Bowles 🧬J. Emory Parker 🏳️🌈 @jaspar.bsky.social · 19/08/2026BIG news this morning: Moderna and Merck say their mRNA cancer “vaccine” worked in a late-stage melanoma trial www.statnews.com/2026/08/19/m...statnews.comModerna and Merck say mRNA cancer vaccine succeeded in late-stage melanoma trialA personalized mRNA cancer vaccine succeeded in a late-stage melanoma study, results that could herald a new, powerful approach in oncology. 01306447
Reposted by Brad Bowles 🧬UCSC Genome Browser @genomebrowser.bsky.social · 17/08/2026ENCODE GRAMMAR is now on the UCSC Genome Browser! 🧬 Base-resolution deep learning predictions, sequence contribution scores & motif instances (BPNet, ChromBPNet, ProCapNet, ReporterNet) across thousands of ENCODE experiments. Explore on hg38: genome.ucsc.edu/s/Lo... 0114
Reposted by Brad Bowles 🧬Chang M. Yun @chang-m-yun.bsky.social · 06/08/2026Finally… Excited to share what I’ve been working on for the first half of my PhD! ENCODE GRAMMAR: One of the largest collections of regulatory DNA seq2func models to date (3,865 in total) trained across ENCODE, with full model interpretations and annotations tracks. Blog: tinyurl.com/3hmknhaa 1/ 13813
Reposted by Brad Bowles 🧬Sarah Aitken @s-j-aitken.bsky.social · 27/07/2026🧬NEW PAPER🧬 To what extent is cancer development deterministic? Does the germline genome affect that predictability? Find out in our #StrainDifferences paper @nature.com "Genetic background sets the trajectory of experimental cancer evolution" www.nature.com/articles/s41... 🧵[1/14]nature.comGenetic background sets the trajectory of experimental cancer evolution - NatureExperimentally replaying tumour evolution in divergent mouse strains reveals the importance of interactions between genetic ancestry and acquired cancer-driving mutations in shaping the earliest stage... 14717
Brad Bowles 🧬 @bradbowles.bsky.social · 02/08/2026I missed it at the time, but it looks like the July PyTorch 2.13 release introduced FlexAttention to Apple Silicon, which means that models with Flash Attention dependencies (for ex Evo2) have an easier path to be forked + deployed on Apple Silicon. Just a PSA for anyone else who missed this! 010
Brad Bowles 🧬 @bradbowles.bsky.social · 21/07/2026I love close.city and I used it to pick the first neighborhood I lived in when I moved to Seattle. Thanks for putting so much love into this effort @nathenry.com !close.cityClose - Travel Time MapClose travel time map. Find neighborhoods where you can walk, bike, or take public transit to the amenities that matter most to you. 142
Reposted by Brad Bowles 🧬Memento (spooky) Morty 🌙 @mementomorty.bsky.social · 18/07/2026i think all raccoons should be shaped like that actually 2146536
Reposted by Brad Bowles 🧬The Great Pumpkin Papers 🎃🎃🎃 @professormusgrave.bsky.social · 17/06/2026Yes, self promotion sucks, academics, but if you don’t do it nobody will find out about your work. The point is to publish and be read, not publish and hope you are discovered by fate, lifted out of a humble and pure obscurity so that you may be both famous and retiring 1451569
Reposted by Brad Bowles 🧬Rob Patro @robp.bsky.social · 14/06/2026salmon 2.0 (the rust re-write) is now live! It's also the version you get if you install via bioconda. This is a from-scratch rewrite in rust, and the base for future development. I'll post a more detailed thread tomorrow, but you can read the docs here combine-lab.github.io/salmon/combine-lab.github.iosalmonFast, accurate transcript quantification from RNA-seq reads. 25316
Reposted by Brad Bowles 🧬Mark Peifer (He, him) @peiferlabunc.bsky.social · 02/06/2026Russell Vought, Director of the OMB, has issued a set of proposed changes that would dramatically alter federal grant funding. However, we can each take action to prevent these from taking effect. Here's how, a 🧵 🧪 1/n www.science.org/content/arti...science.orgWhite House seeks to tighten political oversight of grantmakingSweeping proposed rule, now open for comments, would also restrict foreign collaborations and remove federal funding for open-access fees 4192167
Reposted by Brad Bowles 🧬Ryan Hill @ryanhillart.bsky.social · 29/05/2026Painting Zucks megayacht on Lake Union last night 🔥 361496365
Reposted by Brad Bowles 🧬Dr. Kat Napaaqtuk❄️ @napaaqtuk.bsky.social · 30/05/2026If you are going to comment on the proposed changes to how science is done in the US, please use this guide. The rules specify that you have to mention the number associated with the proposed changes, and this blog has those. Here is where to comment: www.federalregister.gov/documents/20...federalregister.govRegulation for Federal Financial AssistanceThe Office of Management and Budget (OMB) proposes to revise the Guidance for Federal Financial Assistance to improve government- wide policies and requirements related to the management of grants, co... 2120128
Reposted by Brad Bowles 🧬Chenxin Li, PhD @chenxinli2.bsky.social · 30/05/2026Dear colleagues, PLEASE submit a comment against OMB's proposed rule. Elizabeth wrote great guide on drafting a comment. To submit it, go to www.regulations.gov/search and search for OMB-2026-0034. It will take time & effort to write a good comment, but a worthwhile effort to save our profession.regulations.govRegulations.gov 14846
Reposted by Brad Bowles 🧬Tami Gjorgjieva @tamigj.bsky.social · 18/05/2026If you are interested in volunteering as a mentor, please apply ASAP at forms.gle/mBEZs98z4XMU... and no later than Friday, May 22. (We really appreciate early applications as we are actively matching mentors to mentees based on needs/expertise.) (4/n)forms.gleMERIT Mentor Interest Form 2026Hey there, Thanks for your interest in serving as a mentor for the MERIT (Mentorship and Research Individualized Training) program between Stanford and the Tanzania Human Genetics Organization. The go... 101
Reposted by Brad Bowles 🧬Jeffrey Pullin @jeffreypullin.bsky.social · 18/05/2026tinyurl.com/reuxynmc Very excited to see this work I was a small part of published! We analysed two large scale colocalisation datasets: OpenTargets data and an analysis of immune-mediated disease GWAS/immune cell eQTLs seeking to understand the "colocalisation gap". Some highlights:journals.plos.orgDesign and interpretation of eQTL-GWAS colocalisation studies: Lessons from a large-scale evaluationAuthor summary Most of the genetic variants associated with complex traits are located outside genes, limiting functional interpretation. Genetic colocalisation helps identify candidate causal genes b... 12112
Brad Bowles 🧬 @bradbowles.bsky.social · 15/05/2026Incredibly disappointing to hear that this is even being considered. 010
Brad Bowles 🧬 @bradbowles.bsky.social · 10/05/2026using the provided README (and I’m very grateful to the authors for this). Thank you @yeqinglin.bsky.social ! 010
Brad Bowles 🧬 @bradbowles.bsky.social · 10/05/2026@chenxinli2.bsky.social I’m recalling a post where you were interested in more efficient design of DNA binders and, while this is still a CLI tool, I’ve found this tool much easier to use and set up than other recent packages. For example, I was able to Dockerize genie3 pretty quickly … (1/2) 110
Reposted by Brad Bowles 🧬Christine Mayr @christinemayr.bsky.social · 08/05/2026If you want to know what 3′UTRs with long conserved sequence stretches do, check out our BioRxiv preprint doi.org/10.64898/202.... They form functional intermolecular 3′UTR-3′UTR interactions that enable co-folding of proteins to rapidly induce transcriptional programs. 513956
Reposted by Brad Bowles 🧬Adam Auton @adamauton.bsky.social · 07/05/2026Population geneticists! Come work at 23andMe! New role just posted. 23andme.wd5.myworkdayjobs.com/23/job/Palo-...23andme.wd5.myworkdayjobs.comScientist, Population Genetics23andMe is looking for a quantitative scientist with extensive experience in population genetics and statistical modeling of human genetics data to join our R&D team. You will leverage your expert... 01213
Reposted by Brad Bowles 🧬Ali Seleit @aliseleit.bsky.social · 05/05/2026(1/15) Thrilled to share new Evo-Devo work where we address the molecular, cellular & morphometric basis of an extreme axis segmentation program in the Japanese eel — an animal that forms 120 vertebrae.biorxiv.org 1412446
Reposted by Brad Bowles 🧬Erik Sontheimer 🇺🇸💙🇺🇦 @eriksontheimer.bsky.social · 29/04/2026Site-specific, multi-kilobase insertions and over-writes in mammalian cells, without DSBs, HDR, recombinases, integrases, transposases, or active cell cycling? Using fully or predominantly single-stranded DNA donors? 1/15 14926
Brad Bowles 🧬 @bradbowles.bsky.social · 19/04/2026I’ve used AnyDesk for windows machines and been pretty satisfied: anydesk.com/enanydesk.comThe Fast Remote Desktop Application – AnyDeskDiscover AnyDesk, the secure and intuitive remote desktop app with innovative features, perfect for seamless remote desktop application across devices. 010
Reposted by Brad Bowles 🧬Karolin Luger @nucleosomepolice.bsky.social · 17/04/2026there goes the central dogma, i guess. is nothing sacred anymore? 3519
Reposted by Brad Bowles 🧬Paul Markus Müller 🏳️🌈 @pm-mueller.bsky.social · 16/04/2026Original image from 2011 of what I just had seen under the microscope when I ran into @oliverrocks.bsky.social’s office to show him. Turned out he’d observed this too, had no idea what it was either, but was just as stunned and curious as I was. This is how it all started... /1 2199
Reposted by Brad Bowles 🧬Thiago Carvalho @cyrilpedia.bsky.social · 11/04/2026Buckle up 'So let’s finally talk about peptides. And I don’t mean peptides as chemists and biologists understand them (short chains of amino acids) I mean “Peptides!”, the hot new wonder drugs that you can order by mail. Oh man.' www.science.org/content/blog...science.orgAh, Peptides. Where to Begin?Ah, Peptides. Where to Begin? 1219
Reposted by Brad Bowles 🧬Mayor Katie B. Wilson @mayor.seattle.gov · 02/04/2026Reporting for duty 🫡 340936
Reposted by Brad Bowles 🧬Gergely Orosz @gergely.pragmaticengineer.com · 27/03/2026If you use GitHub (especially if you pay for it!!) consider doing this *immediately* Settings -> Privacy -> Disallow GitHub to train their models on your code. GitHub opted *everyone* into training. No matter if you pay for the service (like I do). WTH github.com/settings/cop... 8920461488
Reposted by Brad Bowles 🧬Sky Marchini @sky.skymarchini.net · 22/03/2026I’ve been resistant to calling Americans/developed world more broadly politicans/voters “decadent”, but like if you keep knocking loadbearing pillars out of your economy for aesthetic reasons because you don’t care about the consequences - then there really isn’t any other word to use for it 201496242
Reposted by Brad Bowles 🧬Goldy @goldy.horsesass.org · 13/03/2026I just had surgery to remove an orange-sized cyst from inside my chest, and the thoracic surgeon and absolutely every RN & NAC has been an immigrant or child/grandchild of immigrants. The U.S. would have no healthcare system without immigration. We’re so fortunate these people made America home. 310817
Reposted by Brad Bowles 🧬Stegle Lab @steglelab.bsky.social · 12/03/2026How do immune disease-relevant variants rewire gene regulation in CD4+ T cells? In a collaboration led by Daniel Schraivogel and Lars Steinmetz at @embl.org, we combined two large-scale CRISPRi screens (4.1M cells) to map the downstream cascades of thousands of SNPs. 1139
Reposted by Brad Bowles 🧬Brian Naughton @btnaughton.bsky.social · 11/03/2026I wrote a primer on AI antibody design, published on Asimov press. www.asimov.press/p/antibody-d...asimov.pressHow to Design AntibodiesA step-by-step guide to making de novo binders. 0112
Reposted by Brad Bowles 🧬Jordy F. Botello @jbotello.bsky.social · 10/03/2026Some molecular machines, like ribosomes, can persist for long periods of time in cells. Could molecular aging of ribosomes shape how proteins are made? In our new preprint we track ribosomes as they age in cells and uncover unexpected effects on translation (1/10) www.biorxiv.org/content/10.6... 412851
Reposted by Brad Bowles 🧬tomate 🍅 @jascha.ohai.social.ap.brid.gy · 03/03/2026When someone says „Scientists do not want you to know“ you can dismiss everything from there on. Scientists want you to know. They are desperate that you know. They can’t shut up about what they found out and want you to know. 7495854075
Reposted by Brad Bowles 🧬Julia Rühle @juruehle.bsky.social · 04/03/2026The main project of my PhD 🧬🔬 is out: we developed single-cell lentiMPRA, a lentivirus-based method to measure enhancer activity and transcriptomes at single-cell resolution. We then applied sc-lentiMPRA to fully synthetic enhancers 🧩... 🔗 doi.org/10.64898/202...doi.org 34613
Reposted by Brad Bowles 🧬Marisa Kabas @marisakabas.bsky.social · 28/02/2026congress sounds cool i wish it was real 6182251308
Brad Bowles 🧬 @bradbowles.bsky.social · 24/02/2026Funny how “doing things” never seems to include “writing documentation.” 000
Brad Bowles 🧬 @bradbowles.bsky.social · 24/02/2026Engineers will say “you can just do things” and then hand-roll the most cursed workflow language you’ve ever seen. 110