Reposted by Nathan GrubaughMichael Baym @baym.lol · 04/10/2026Ran is cooking with: ‘the only data point I have about this candidate is this: “they had an important task that could determine the rest of their career, but it required a little effort and personal reflection, so they used AI to complete it.”’ 27921
Reposted by Nathan GrubaughColin Carlson @colincarlson.bsky.social · 01/10/2026Very cool new preprint I was very excited to be a VERY small part of, from @viralverity.bsky.social and @nathangrubaugh.bsky.social: "Phylodynamic analysis reveals asymmetric and accelerating global spread of dengue virus" www.biorxiv.org/content/10.6... 32610
Reposted by Nathan GrubaughNature Microbiology @natmicrobiol.nature.com · 30/09/2026Out Now! A generalized lineage nomenclature for viral genomic epidemiology #MicroSkygo.nature.comA generalized lineage nomenclature for viral genomic epidemiologyNature Microbiology, Published online: 30 September 2026; doi:10.1038/s41564-026-02468-3This study extends the Pango lineage nomenclature system beyond SARS-CoV-2, introducing a dynamic framework for tracking and communicating viral diversity, demonstrated through its application to CHIKV. 02015
Reposted by Nathan GrubaughCarl T. Bergstrom @carlbergstrom.com · 29/09/2026"I believe that science derives its authority from something more than mastering the pipeline from data generation to publication. Rather, it comes from interactions within a community of people trained to interrogate evidence and answer for the conclusions they draw from it." 224867
Reposted by Nathan GrubaughC. Brandon Ogbunu @cbo.bsky.social · 27/09/2026In my latest for @undark.org, I compare AI adoption in science to the Ship of Theseus: "If you swap out every wooden plank on a ship over time, is it still the same vessel?" I argue that science derives authority from something more than data generation + publication. undark.org/2026/09/25/o...undark.orgAI Presents Science with a ‘Ship of Theseus’ ProblemOpinion | AI can replace each part of the scientific process, leaving the enterprise recognizable but devoid of human judgment. 58547
Reposted by Nathan GrubaughColin Carlson @colincarlson.bsky.social · 25/09/2026David Quammen's essay in The New York Times today closes with this paragraph. It's both a scientific falsehood, and an incredibly dangerous narrative. If you're willing to give me five minutes of your time, I'd like to explain why. 10530225
Reposted by Nathan GrubaughPathogen Dynamics Unit @pducambridge.bsky.social · 25/09/2026We have an open Assistant/Associate Professor position in Pathogen Genetics - come and join our department! 🦠 🧫 🧬https://www.cam.ac.uk/jobs/assistantassociate-professor-in-pathogen-genetics-pc51175 045
Reposted by Nathan GrubaughColin Carlson @colincarlson.bsky.social · 23/09/2026What's behind this tidal wave of epidemics? In the largest study ever conducted on emerging infectious diseases, we show that the popular explanation - "our relationship with nature is out of balance" - doesn't hold up. Out now in Nature, after half a decade of work: www.nature.com/articles/s41...nature.comThe anthropogenic fingerprint on emerging infectious diseases - NatureEmerging infectious disease outbreak risks are ubiquitous worldwide, and highest in landscapes where people, livestock and fragmented natural ecosystems coexist, but detection and data ... 8559277
Reposted by Nathan GrubaughGytis Dudas @evogytis.bsky.social · 23/09/2026And here is the preprint, available online on Baltic Unity Day (Sep 22). Happy citing! www.biorxiv.org/content/10.6... Thanks again to @barney-potter.bsky.social, @gkarthik.com, @sidneymbell.bsky.social, and @mftorresj.bsky.socialbiorxiv.orgbaltic: the Backronymed Adaptable Lightweight Tree vIsualisation CodeFor ten years, baltic (Backronymed Adaptable Lightweight Tree vIsualization Code) has been used to make annotated phylogeny figures in molecular epidemiology, including during the West African Ebola e... 0117
Reposted by Nathan GrubaughGytis Dudas @evogytis.bsky.social · 22/09/2026baltic v1.0.0 is live! Get it via pip or clone from Github repo. Now with documentation (baltic.readthedocs.io) & a gallery of tutorials & examples (phylo-baltic.github.io/baltic-gallery, still WIP). Huge thanks to @barney-potter.bsky.social for all the initiative & help along the way. #ViroSky 23216
Reposted by Nathan GrubaughRaphaëlle K @raph-klitting.bsky.social · 17/09/2026Happy to share the final version of our latest study on the 2024-2025 chikungunya virus epidemic on Réunion island published today in @pnas.org 🎉 www.pnas.org/doi/10.1073/...pnas.orgUnraveling the epidemiological and dispersal dynamics of the 2024–2025 chikungunya virus epidemic on Réunion Island | PNASRéunion Island experienced a massive chikungunya virus epidemic in 2024–2025, with >54,000 confirmed cases. This is the second major chikungunya ep... 1147
Reposted by Nathan GrubaughColin Carlson @colincarlson.bsky.social · 09/09/2026🚨 NEW: Biodiversity monitoring can guide surveillance for emerging pathogens. In a new PLOS Ecosystems study led by @mdcatchen.bsky.social, we present computational algorithms to select surveillance sites that capture the most actionable data. Out now: dx.plos.org/10.1371/jour... 34216
Reposted by Nathan GrubaughKristian G. Andersen @kgandersen.bsky.social · 10/09/2026Inspired by recent website shenanigans from USG - and prompted by one of my talented graduate students - I present to you a new subdomain of our website... Play along: arcade.andersen-lab.com 54717
Reposted by Nathan GrubaughDrummond Lab @drummondlab.bsky.social · 08/09/2026We are hiring! 🌟 Dept of Biochemistry and Molecular Biology at the University of Chicago is searching for a tenure-track assistant professor. It's a broad search: we want great colleagues doing serious biological work at the molecular scale. Join us! apply.interfolio.com/191981 bcmb.uchicago.edu 190108
Reposted by Nathan GrubaughCarolina Lucas @carolilucas.bsky.social · 04/09/2026Dengue vaccines face a uniquely difficult challenge: protecting against four distinct viral serotypes at once. 🦟 Our new study in JEM: rupress.org/jem/article/... A 🧵 on why tetravalent vaccine design does not necessarily mean tetravalent immunity. 1176
Reposted by Nathan GrubaughSimon W Davis @woodforbrains.bsky.social · 03/09/2026Ho-LEE fuck democrats-appropriations.house.gov/news/press-r...democrats-appropriations.house.govDefense Officials Attempt to Raid NIH Funds to Cover Department of Defense ActivitiesHouse Appropriations Committee Ranking Member Rosa DeLauro (D-CT-03) has learned that officials at the Department of Defense (DoD) are working to divert billions of dollars from the National Institute... 441431637
Reposted by Nathan GrubaughGreg Folkers @gregfolkers.bsky.social · 03/09/2026Defense Officials Attempt to Raid NIH Funds to Cover Department of Defense Activities bit.ly/3UziCvO 22717
Reposted by Nathan GrubaughMichael Cappello @cappmic.bsky.social · 04/09/2026"The Democrat said the agreement would pull from the NIH’s National Institute of Allergy and Infectious Diseases (NIAID), its leading institute for infectious-disease research."thehill.comPentagon sought to divert NIH funds for defense use, top House Appropriations Democrat saysThe Pentagon is attempting to divert billions of dollars from the National Institutes of Health (NIH) to bolster the agency’s budget, according to the top Democrat on the House Appropria… 021
Reposted by Nathan GrubaughNels Elde @elearlybird.bsky.social · 28/08/2026Open your lab here at Utah! utah.peopleadmin.com/postings/208... 14029
Reposted by Nathan GrubaughGytis Dudas @evogytis.bsky.social · 28/08/2026Attention, baltic (github.com/evogytis/bal...) users! Barney Potter & I have been working on a major update to baltic with a new API & docs (& a paper later). The pip version will be updated on Sep 22 (Baltic Unity Day). Please share with any baltic users who might be affected! 1/2 #evosky #viroskygithub.comGitHub - evogytis/baltic: baltic - backronymed adaptable lightweight tree import code for molecular phylogeny manipulation, analysis and visualisation. Development is back on the evogytis/baltic branc...baltic - backronymed adaptable lightweight tree import code for molecular phylogeny manipulation, analysis and visualisation. Development is back on the evogytis/baltic branch (i.e. here). - evogyt... 193
Reposted by Nathan GrubaughYale University @yale.edu · 21/08/2026Climate change is reshaping the spread of one of the world's deadliest infectious diseases. A Yale-led study found that climate change is shifting childhood malaria risk across Africa by changing the environmental conditions that influence mosquito-borne disease.bit.lyClimate change is likely worsening childhood malaria, study findsIn a new study, Yale researchers found that hot temperatures and extreme precipitation are probably increasing the prevalence of malaria in parts of Africa. 143
Reposted by Nathan GrubaughC. Brandon Ogbunu @cbo.bsky.social · 20/08/20261/8: 🚨New Paper🚨 "Structural causal influence captures the forces of social inequality in models of infectious disease." Published in 'Biology Letters' (@royalsocietypublishing.org) Coverage here: www.santafe.edu/news-center/... Paper link here: royalsocietypublishing.org/rsbl/article... 23613
Reposted by Nathan GrubaughAna Bento @anaisabelbento.bsky.social · 18/08/2026The committee reviewing US measles elimination status met this month. PAHO decides in November. Our new paper in @NatureMedicine shows this wasn’t sudden. It was visible years ago, in data nobody was looking at. 🧵 2127
Reposted by Nathan GrubaughProf Ian Hall @ianhall.bsky.social · 15/08/2026The fact that nobody alive today has seen an event of this magnitude should really make us stop and think. And yes, I know El Niño is a natural cycle. But that doesn’t make records like this any less remarkable…or any less concerning. 211755
Reposted by Nathan GrubaughCollin Schwantes @collin-schwantes.bsky.social · 12/08/2026Do you enjoy implementing data standards and creating well designed APIs? Verena is looking for a full stack developer for the Pathogen Harmonized Observatory (PHAROS)! See the Verena website for more details and to apply: www.viralemergence.org/blog/were-hi...viralemergence.orgWe’re Hiring! — VerenaThe Verena Institute is looking for a full stack developer or full stack development team (hereafter, the “Supplier”) to assist with the maintenance, documentation, and development of the Pathogen H... 064
Reposted by Nathan GrubaughRan Blekhman @blekhman.bsky.social · 09/08/2026Huge faculty recruitment effort at the University of Chicago -- a division-wide, open-rank search looking to hire about 20 faculty across 5 research areas in biology. Come be our colleague! Full announcement: uchicago.app.box.com/s/ckih9zv3rj... 3222232
Reposted by Nathan GrubaughThe Global Vector Hub @globalvectorhub.bsky.social · 07/08/2026📢 #Internship opportunity at @who.int's Emerging Zoonosis and High Impact Epidemics Unit, focusing on #arboviruses and an early warning system for #chikungunya and other #arboviral threats.🦟 Closing date: 21 August 2026. More info ⬇️ careers.who.int/careersectio...careers.who.intInternship – Emerging Zoonosis and High Impact EpidemicsClick the link provided to see the complete job description. 0510
Reposted by Nathan GrubaughNoah Whiteman @nkwhiteman.bsky.social · 06/08/2026I’m thrilled to share that our search for a tenure-track colleague in my *truly wonderful and collegial* Genetics, Genomics, Evolution and Development Division in the MCB Department at Berkeley @berkeleymcb.bsky.social is live! Please share this broad search widely: aprecruit.berkeley.edu/JPF05481aprecruit.berkeley.eduAssistant Professor -Genetics, Genomics, Evolution, and Development - Molecular and Cell BiologyUniversity of California, Berkeley is hiring. Apply now! 0183232
Reposted by Nathan GrubaughC. Brandon Ogbunu @cbo.bsky.social · 04/08/2026🚨NEW PAPER 🚨 "Deconstructing empirical fitness seascapes across scales of granularity" published in #G3 (@genetics-gsa.bsky.social) 1/2 The fitness landscape has been among the most influential instruments in evolutionary theory for nearly a century. But we often treat them as fixed and static. 35126
Reposted by Nathan GrubaughAmy Maxmen, PhD @amymaxmen.bsky.social · 30/07/2026The US owes the Pan-American Health Organization $135 million in past dues. Trump's budget proposal cuts funding for PAHO entirely, even though our contribution is 0.001% of federal spending. The result will be even weaker defenses agst measles, dengue & more. www.nytimes.com/2026/07/30/h...nytimes.comFormer Officials Protest U.S. Plan to Defund Pan American Health OrganizationThe group of former health and national security officials warned that Americans will be more vulnerable to infectious disease threats. 24939
Reposted by Nathan GrubaughStephen Kissler @skissler.bsky.social · 29/07/2026I'm excited to share a preprint that's been years in the making: the idea took shape during the COVID pandemic. Anecdotally, people would sometimes spread COVID at work but not at home, and vice versa. Why? One explanation would be if infectiousness is fleeting...medrxiv.orgHow bursty infectiousness shapes epidemic dynamicsAn epidemic’s expected course is determined by the magnitude and timing of a typical person’s infectiousness — captured, in turn, by the basic reproduction number and the generation-time distribution.... 24417
Reposted by Nathan GrubaughColin Carlson @colincarlson.bsky.social · 29/07/2026🚨 New today in Nature 🦟 After decades of debate, we show that climate change has probably made malaria worse in sub-Saharan Africa, causing about 1 extra case per 1,000 children. But: malaria eradication efforts have pulled the other direction 200 times harder. 🔓 www.nature.com/articles/s41... 424695
Reposted by Nathan GrubaughSpyros Lytras @spyroslytras.bsky.social · 23/07/2026Come work on exciting AI for biology projects in Paris!! 🇫🇷 Details and application below, deadline sept 1st! 02727
Reposted by Nathan GrubaughAndrew Rambaut (🐏🎀) @arambaut.bsky.social · 23/07/2026This is so important - allowing individual uses of data to be tracked as citations will be so useful for demonstrating impact and reach of genome data. When you use data from Pathoplexus, create a SetSet & DOI for the sequences used and cite it in your paper. 0155
Reposted by Nathan GrubaughEllie Bourgikos @ebourgikos.bsky.social · 07/07/2026"Jamestown Canyon virus may not be an emerging pathogen in the usual sense. It has been here for centuries. The emergence is in our awareness of it." Such a great summary of our JCV work by John Drake!! Would highly encourage giving it a read! 🦟 www.forbes.com/sites/johndr...forbes.comA Virus That Predates The Republic Has Been Hiding In American Mosquitoes. Scientists Just Decoded Its HistoryA mosquito-borne virus circulating since the 1700s went unnoticed until genomic sequencing revealed its centuries-long history and unique two-cycle transmission. 072
Reposted by Nathan GrubaughHelen Branswell 🇨🇦 @helenbranswell.bsky.social · 06/07/2026C.J. Peters, one of the legendary virus hunters of decades past, has died. In 2018, I traveled to his home in Galveston, Tex., where he told me jaw-dropping story after jaw-dropping story. He had an extraordinary brain and was hugely curious. Such a loss. www.statnews.com/2018/02/20/v...statnews.comThe virus hunter: In a bygone era, C.J. Peters learned how to bend the rulesA legendary scientist reflects on why he became so successful: He got out of the office — and away from bosses. 518868
Reposted by Nathan GrubaughGregg Gonsalves @gregggonsalves.bsky.social · 30/06/2026We've hit the 3,000 mark in letters to Congress on the mad power-grab by Russell Vought at OMB to take over all federal grant making with a team of political commissars reporting to him. Let's get to 4,000 letters this week. Share. Share. Share. actionnetwork.org/letters/oppo...actionnetwork.orgOppose OMB Proposal to Put ALL Federal Government Funding Decisions in the Hands of Political AppointeesOn May 29, 2026, the Office of Management and Budget issued a Notice of Proposed Rulemaking (NPRM), OMB-2026-0034, Regulation for Federal Financial Assistance. The scope of this proposed regulation is... 214080
Reposted by Nathan GrubaughClimate.us @climate.us · 26/06/2026We got a big bump in traffic yesterday when people learned about us on NPR. Thank you to @npr.org for covering our launch and bringing our story to people's attention! And thank you to all our new followers. We can do this together! 🌍️🧪💪 #ClimateAction #ClimateForUs #ProtectScience 222462898
Reposted by Nathan GrubaughGregg Gonsalves @gregggonsalves.bsky.social · 27/06/2026Stand Up for Yale, a group representing thousands of #Yale alums condemns the Trump administration investigation and warns against settlement, calls on the university to defend its students, its independence, its lawful commitment to an inclusive academic community. More at www.standupforyale.orgstandupforyale.orgSTAND UP FOR YALE 919462
Reposted by Nathan GrubaughGregg Gonsalves @gregggonsalves.bsky.social · 26/06/2026@yale.edu bows down to fascism. President MacInnis and the trustees show what it means to obey in advance. A sad day for my alma mater. What cowards. #VichyYale www.nytimes.com/2026/06/26/u...nytimes.comYale Seeks Trump Administration Deal as It Faces Sprawling Investigation 29044
Reposted by Nathan GrubaughColin Carlson @colincarlson.bsky.social · 22/06/2026Our lab website is updated with a new postdoc opening! This is a 2-year, in-person position looking at the relationships between climate change, pandemic risk, and policy choices over the 21st century. Please reach out (not on here)! www.carlsonlab.bio/joincarlsonlab.bioOpportunities — The Carlson Lab 03132
Reposted by Nathan GrubaughJames Hay @jameshay.bsky.social · 22/06/2026Are you a computational immunologist or bioinformatician interested in impactful vaccine research? We're hiring a postdoc to join @psioxford.bsky.social work in vaccine immunology and evaluation, working on the ChAdOx1 Nipah vaccine. Please get in touch! my.corehr.com/pls/uoxrecru...my.corehr.comJob Details 0515
Reposted by Nathan GrubaughThe Sickos CBB Committee @sickoscbb.bsky.social · 11/06/2026It seems like it was a mistake to let Jon Scheyer coach the Spurs last night. 1456
Reposted by Nathan GrubaughThe Sickos CBB Committee @sickoscbb.bsky.social · 04/06/2026kind of appropriate for Duke to play in a baseball stadium given the number of blown saves they've had recently 1253
Reposted by Nathan GrubaughColin Carlson @colincarlson.bsky.social · 01/06/2026Happy pride 🦇🦠🦟🏳️🌈 922441
Reposted by Nathan GrubaughDan Garisto @dangaristo.bsky.social · 27/05/2026Scoop: NSF has been quietly blocking new funds and grants to four top universities: Duke, Harvard, Princeton, and Yale. Dozens of proposals from PIs at these universities—and their collaborators—have been stuck at the Office of Award Management awaiting finalization for months.nature.comExclusive: NSF puts new research grants to top universities on holdUS science funder once again restricts awards to Harvard University and other research institutions. 30893625
Reposted by Nathan GrubaughJosh Quick @scalene.bsky.social · 22/05/2026New preprint from us! 🦠 Clinical metagenomics is great for sequencing pathogens directly from patient samples but for some protocols sensitivity for RNA viruses lags behind bacteria & fungi. We have shown why, and how to fix it. www.medrxiv.org/content/10.6...medrxiv.orgLibrary preparation strategy critically impacts RNA virus sensitivity in clinical metagenomicsClinical metagenomics uses sequencing for culture-independent identification of pathogens directly from clinical specimens. While a number of protocols claim to be pathogen agnostic, sensitivity for R... 11812