Nathan Grubaugh
Associate Professor YaleEMD / YaleSPH. Studies 🦟🦠 🧬transmission, evolution, and emergence. PI of http://dengue-lineages.org. Will sequence for 🍺.
Lab website: grubaughlab.com
- Reposted by Nathan GrubaughMy department at Washington State University is recruiting an Assistant or Associate Professor in vector-borne disease 🕷️🦟🦠 Full job description is linked below. Come join us on the Palouse!
- Reposted by Nathan GrubaughThis is finally out. Very short take home. All the variation in spike that produced the immune escape characteristics of Omicron can occur in one single persistently infected individual over the period of a year. This is why persistent infections matter www.cell.com/cell-reports...
- Reposted by Nathan GrubaughPacBio folds its short-read sequencing hand. -Sad for us because Omniome's tech (the current Onso instrument) was promising for its Q40 reads that help those interested in calling rare variants accurately (like me). -Sad for them too because $$$ aseq.substack.com/p/pacbio-sel...
- Reposted by Nathan GrubaughA long-term dream of mine has been to bridge @viralemergence.org's work on AI/ML-driven viral risk assessment with AI/ML-driven work on drug discovery. This would make a great topic for this fellowship here at Yale! If you're interested in applying, reach out. medicine.yale.edu/biomedical-d...
- Reposted by Nathan Grubaugh❤️
- Reposted by Nathan GrubaughOur paper on the Genomic Epidemiology of DENV2/3 in Colombia and the Americas is finally out @cp-cellreports.bsky.social, check it out: www.sciencedirect.com/science/arti... Big thanks to my collaborators @lambod50.bsky.social, @viralverity.bsky.social, @nathangrubaugh.bsky.social, and many others!
- It’s my pleasure to share our new preprint, which I had the opportunity to lead, and which has been in the making since 2022. In this work, we used climate data, phylogeography, and antigenic profiling to uncover the dynamics of DENV spread in Colombia. www.medrxiv.org/content/10.1...
- Check out our new print that combines dense sequencing and phylodynamics to uncover a bunch of 😎 things about an understudied virus. - Doesn't evolve for 10 months a year ✅ - Uses some mossies for maintenance, others for spread ✅ - Established in Northeast for ~300 years ✅
- 🦟📄 New preprint! Our first large-scale phylodynamic study of Jamestown Canyon virus (JCV) reveals how mosquito ecology shapes the evolution, persistence, and spread of this understudied arbovirus in North America. Read it here! www.biorxiv.org/content/10.6...
- Reposted by Nathan GrubaughOur latest study dedicated to the massive 2024-2025 chikungunya virus outbreak on Réunion island is now available as a preprint on medRxiv: doi.org/10.64898/202.... With more than 54,000 confirmed cases this is the second major chikungunya outbreak on the island, following the 1° one 20 yrs ago. 1/9
- Reposted by Nathan GrubaughI am very glad to share the preprint for our latest study on the 2024-2025 chikungunya virus outbreak on Réunion island, with primary data produced thanks to the massive efforts performed by Marie-C Jaffar and Etienne Frumence and analyses led by Simon Dellicour. www.medrxiv.org/content/10.6...
- Reposted by Nathan Grubaugh🦟📄 New preprint! Our first large-scale phylodynamic study of Jamestown Canyon virus (JCV) reveals how mosquito ecology shapes the evolution, persistence, and spread of this understudied arbovirus in North America. Read it here! www.biorxiv.org/content/10.6...
- Reposted by Nathan Grubaugh🚨Call for papers🚨 Microbial Evolution: Impacts on Human Health in the society journal Evolution, Medicine, and Public Health Guest Editors: Bob Woods, Silvie Huijben & Camilo Barbosa EIC: me This will be great, please submit and share! academic.oup.com/emph/pages/m...
- Reposted by Nathan Grubaugh👀There will be a Keystone Symposium with a focus on Vector-Pathogen Interactions to be held in Geneva, Switzerland in February 2027. It should be a great meeting and hope to see you there! www.keystonesymposia.org/conferences/...
- Reposted by Nathan GrubaughChildren will die with RFK Jr.'s new vaccine recommendations. We're NOT doing the "experts disagree" game. The US vaccine schedule was painstakingly constructed through a deep & thorough process by experts with unquestionable expertise. This is policy by fiat. It is pre-meditated murder. 1/
- Reposted by Nathan GrubaughI cannot emphasize this enough, if you're cold-emailing me applying to my lab I would so much rather get the bulleted broken list of genuine interests than whatever letter ChatGPT spits out in its stead If you're training with me, I'm working with you not an LLM. I want to see who you are!
- Reposted by Nathan GrubaughDecember 25th. The day the Fellowship departs Rivendell to destroy the One Ring. Whatever you celebrate, may you have the courage to take the first steps to defy and endure against the dark, and rekindle light into the world.
- Reposted by Nathan GrubaughNEW!🦠🌡️ : What makes a "dengue year" like 2023-24? It's hard to pin down an answer unless you can homogenize out all the spatial variation and temporal trends. But once you do, the answer is pretty clean: dengue years are hot years. Last one of the year (unless...?) 👉 www.medrxiv.org/content/10.6...
- Reposted by Nathan Grubaugh
We are recruiting two postdoc roles to work with #DeZiNetwork on dengue, Zika, and other emerging arboviruses: 🔬 Viral Computational Genomics 🔗 Apply here: lnkd.in/eq-dqCJb 🧪 Viral Genomics and Immunology 🔗 Apply here: lnkd.in/eMEKWb9b More on DeZi here: lnkd.in/edwBg-qX Deadline: 15 Jan 2026 - Variations in annual dengue intensities are explained by temperature anomalies Our new work led by Abbey Porzucek, @rafalpx.bsky.social, @colincarlson.bsky.social, Dan Weinberger to develop a method to compare relative dengue intensity between years and countries. www.medrxiv.org/content/10.6...
- The global incidence of dengue has been rising during the past several decades as a result of increased risk as well as enhanced surveillance. This positively-sloped long-term trend in dengue cases has made it difficult to identify anomalously high intensity years.
- To address this issue, we constructed a hierarchical Bayesian Poisson regression model to extract the long-term trend of annual incidence across 57 countries from 1990-2023 and and quantify the difference between reported cases and baseline, which we call the Relative Intensity Score (RISc).
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View full threadFinally, we identified that temperature anomalies are most strongly associated with elevated RISc. This study provides the first standardized global analysis of dengue intensity, and provides a window into how spatial and temporal trends of dengue intensity may continue to evolve into the future.
- Reposted by Nathan GrubaughPreprint now, submit to journal in January
- Reposted by Nathan GrubaughCan't pass ACA extensions but don't worry. We're going to probe whether Lyme disease is a US bioweapon instead.
- Reposted by Nathan GrubaughNSF is about to dismantle NCAR at Russell Vought's direction to protect the fossil fuel industry. It's hard to communicate just how much NCAR does, so let's take a look: I've never worked at NCAR, and I've worked with NCAR researchers once ever. What scientific discoveries has NCAR made possible? 👇
- Reposted by Nathan GrubaughReview: Phylogenetic insights into the transmission dynamics of arthropod-borne viruses by @viralverity.bsky.social, @sdellicour.bsky.social, Marta Giovanetti & @nathangrubaugh.bsky.social go.nature.com/4iX9R6N
- Reposted by Nathan GrubaughYale’s part-time Executive MPH is designed for working professionals, with live online courses in the evenings and three in-person trainings on Yale’s campus. Apply by January 15. Learn more at sph.yale.edu/emph
- Reposted by Nathan Grubaugh1/2 🚨New paper In a collab b/w my group + @nathangrubaugh.bsky.social, led by a fabulous doctoral student, we synthesize the data on epistasis across several viral pathogen systems (e.g., influenza, HIV, SARS-CoV-2, tobacco etch virus, etc). academic.oup.com/ve/article/1...
- Reposted by Nathan GrubaughExciting opportunity @pasteur.fr for junior scientists aiming to create their research group !
- 🔬 Call to create junior research groups at the Institut Pasteur Focus: Infectious diseases, host-microbe interactions, vaccines Special interest: AI methodologies 📅 Deadline: Feb 9, 2026 👥 2-12 years post-PhD Apply now 📝 research.pasteur.fr/en/call/crea... #JobOpportunity #Research
- Has anyone applied the the NSF Mid-Career Advancement (MCA) or similar that would be okay with sharing their application with me? I'm looking for examples on how it should be structured and focused for a MCA. Also, I've never applied for an NSF grant... www.nsf.gov/funding/oppo...
- Reposted by Nathan GrubaughWe are happy to share that Yale will soon introduce a replacement loan option for student borrowers whose federal loan eligibility has been affected by recent changes. This new program will offer comparable, if not more competitive, loan terms compared to previous Grad PLUS loans. 1/2
- Reposted by Nathan GrubaughNo games of note tonight, so let's do a dumb data dive. Number of possessions that have produced X amount of points this season: 0: 108059 (50.5%) 1: 9532 (4.5%) 2: 67696 (31.6%) 3: 28118 (13.1%) 4: 563 5: 118 6: 15 7: 2 8: 2
- Reposted by Nathan GrubaughEverybody who read my book will have heard about some of the background story from Dr. Yan. Now the NYT did a longer dive that characterizes her as somewhat between a victim of Guo Wengui's propaganda operation and trapped in a cult. I can add a few more notes on this maybe... 1/
- This entire story is just… 🤯 #giftarticle www.nytimes.com/2025/12/07/u...
- Reposted by Nathan GrubaughA study on 1.7 million people in Hong Kong shows superior hybrid immunity to Covid in people who got vaccinated before infection vs. people who got infected first. "Our findings are a direct rebuttal to arguments for natural immunity," the authors write. doi.org/10.1016/j.va...
- Reposted by Nathan Grubaugh[This post could not be retrieved]
- Reposted by Nathan GrubaughOn scientific "style" for @undark.org: "[Style] is a positive feature of science that facilitates different routes to solving problems.....We can embrace differences in our approaches while still promoting rigor and clarity." undark.org/2025/12/04/o...
- Reposted by Nathan GrubaughDoubling up Kenpom #1.
- Reposted by Nathan GrubaughWorth it.
- Reposted by Nathan GrubaughIn a phase 2a, randomized trial, oral treatment with high-dose mosnodenvir, a pan–DENV serotype antiviral drug, led to a significantly lower DENV-3 RNA load than placebo after challenge in a controlled human infection model. Full trial results: nej.md/48eUJwJ #MedSky #IDSky
- Reposted by Nathan GrubaughNow out in @natcomms.nature.com Kudos to @tylim.bsky.social and @jameshay.bsky.social for a huge effort and thanks to all the collaborators for their hard work. See the final version here: www.nature.com/articles/s41...
- Reposted by Nathan GrubaughHot off the press! Our latest paper led by @fernpizza.bsky.social, understanding how plasmids evolve inside cells. These small, self-replicating DNA circles live inside bacteria and carry antibiotic resistance genes, but also compete with one another to replicate. 1/ www.science.org/doi/10.1126/...
- Reposted by Nathan Grubaugh
- Reposted by Nathan Grubaugh"What James Watson got wrong about DNA" By the great Sohini Ramachandran (@sramach.bsky.social) and your boy for The Boston Globe (@bostonglobe.com). www.bostonglobe.com/2025/11/14/o...
- Reposted by Nathan GrubaughOur lab's paper describing the North American H5N1 epizootic is out now in Nature! So thrilled to have this out, and congratulations to @lambod50.bsky.social for all the fantastic work on this: www.nature.com/articles/s41...
- Reposted by Nathan GrubaughCheck out our new study entitled "Navigating sampling bias in discrete phylogeographic analysis: assessing the performance of an adjusted Bayes factor" and now published in Molecular Biology & Evolution: academic.oup.com/mbe/article/... (1/9)
- Reposted by Nathan GrubaughPSA for people with NIH grant periods starting January 1st (including most NIGMS MIRAs): your RPPR is due Saturday, but they haven’t sent out the usual automated reminders, presumably due to the shutdown
- Reposted by Nathan GrubaughIt's been more than a decade (😱) since opening the lab here in La Jolla, so it was time for a website refresh! Want to see what kind of trouble we have been up to lately? Give our tools and data a spin? Maybe even provide some tips and feedback? Head on over to: andersen-lab.com
- Reposted by Nathan GrubaughThe new US official: in exchange for restarting foreign aid, the US gets other countries’ genomic data on diseases. No promise to share the benefits of that IP, though - in contrast to WHO agreements that are under negotiation. www.reuters.com/business/hea... 🛟🧪🩺
- Reposted by Nathan GrubaughI want to spell this out in case the implications aren't clear: This means all public tools/webapps of GISAID data (all the ones you've been used to seeing thru the pandemic, as far as we can tell) are prohibited. The file allowed this. Cut that - cut off all tools the public & others were using.
- Reposted by Nathan GrubaughOn Oct 1, 2025, GISAID informed us that they had ended updates to the flat file of SARS-CoV-2 genomic sequences and associated metadata that we had used to update Nextstrain analyses since Feb 2020. GISAID's stated rationale was that their "resources are limited". 1/5
- Reposted by Nathan GrubaughTwenty-nine sailors drowned when the Edmund Fitzgerald went down in the Great Lakes' icy waters on Nov. 10, 1975. The ship was immortalized in a surprise hit 1976 folk ballad by Gordon Lightfoot. n.pr/3JKj19D
- Reposted by Nathan Grubaugh🚨 NEW: The majority holder of the world's genetic sequence data is a bad actor who can cut off access to critics and competing services. We've tolerated this for years, and now it threatens the pandemic treaty. Time for WHO to step in. With @ctrlalttim.com: www.thinkglobalhealth.org/article/to-f...
- Reposted by Nathan GrubaughCIDRAP joins global partners in the DeZi Network — uniting 15+ countries to strengthen dengue & Zika surveillance and response across Africa and Asia. 🔗 www.imperial.ac.uk/news/269973/... #GlobalHealth #Dengue #Zika
- Reposted by Nathan GrubaughBetween grants getting politically targeted and my lab’s building getting literally fucking bombed, 2025 is going great thanks
- A device exploded inside the Goldenson Building in Harvard’s Longwood medical campus early Saturday morning, according to a message from the Harvard University Police Department to University affiliates. Matan H. Josephy and Laurel M. Shugart report. www.thecrimson.com/article/2025...
- Reposted by Nathan GrubaughNew in ‘Virus Evolution’ from #QVEU! PhD student Jack Dorman used deep mutational scanning to measure evolutionary constraints on the Envelope protein of West Nile Virus in human, mosquito, and bird cell lines, doing a lot of work to put it into a structural context #VirEvol
- Reposted by Nathan Grubaughq: why did the outfielders raise their arms during this play? a: according to the ancient scrolls in which the rules of baseball were found, if a ball lands and doesn't bounce that ball is declared god. the players were worshipping god. i doubt there will be a game 7 or any further baseball seasons
