Reposted by @nipagh.bsky.socialRedwan Farooq @redwanfarooq.bsky.social · 3hFantastic preprint showing how circulating EBV-specific CD8+ T cells in MS adopt a GZMK+ effector–memory state that is primed to migrate to the CNS & may drive neuroinflammation through non-cytolytic interactions with B cells & myeloid cells. 🧵👇 1/ 232
Reposted by @nipagh.bsky.socialKilian Schober @kischober.bsky.social · 6hNew preprint from our lab, now on bioRxiv! We are VERY excited about this one! www.biorxiv.org/content/10.6... How does Epstein–Barr virus (EBV) immunity become linked to multiple sclerosis (MS)? (1/8)biorxiv.orgA pro-inflammatory effector-memory T cell program links peripheral EBV priming to CNS autoimmunityT and B cell-mediated immunosurveillance of the central nervous system (CNS) can become maladaptive in multiple sclerosis (MS). Epstein-Barr virus (EBV) is a likely driver of MS, yet how exactly EBV-s... 186
Reposted by @nipagh.bsky.socialJoe Sabatino @jsabatino37.bsky.social · 06/04/2026Why Is MS a More Frequent Complication of EBV Infection in Females? onlinelibrary.wiley.com/doi/10.1111/...onlinelibrary.wiley.comWhy Is MS a More Frequent Complication of EBV Infection in Females?Multiple sclerosis (MS) is a T helper (Th) cell-mediated disease that targets central nervous system (CNS) white matter. This disease affects three times more females than males. For many years, the ... 022
Reposted by @nipagh.bsky.socialCameron Blevins @cblevins.bsky.social · 03/04/2026This is so, so well-articulated. 97107673882
Reposted by @nipagh.bsky.socialWaggoner Lab @labwaggoner.bsky.social · 03/04/2026Preprint: B-cell depletion therapy in multiple sclerosis reduced EBV viral load and was coupled to a pronounced reduction in CD8+ T cell responses to all lytic EBV antigens www.researchsquare.com/article/rs-9... 182
Reposted by @nipagh.bsky.socialImmunity @cp-immunity.bsky.social · 31/03/2026Online now: Memory T cell aging and rejuvenationdlvr.itMemory T cell aging and rejuvenationAging profoundly alters memory T cell immunity, reshaping diversity, differentiation, and function. Adamo et al. review how intrinsic aging programs, antigenic experience, and tissue context shape T cell responses and discuss emerging strategies to recalibrate memory T cell immunity in later life without compromising immune balance. 031
Reposted by @nipagh.bsky.socialAdrian Liston @labliston.bsky.social · 31/03/2026A one minute primer on how #AutoSpectral improves spectral flow cytometry unmixing by using per-cell calculation of autofluroscence spectra. Use our R package and get higher quality spectral data, easy as that! www.biorxiv.org/content/10.1... 1238
Reposted by @nipagh.bsky.socialWaggoner Lab @labwaggoner.bsky.social · 19/03/2026Unique and interactive effects of race/ethnicity, genetics, herpesviruses, age, and gender on immunophenotypes @cp-cellrepmed.bsky.social @fredhutch.org @pgtimmune.bsky.social www.cell.com/cell-reports... 174
Reposted by @nipagh.bsky.socialWaggoner Lab @labwaggoner.bsky.social · 19/03/2026Review @natrevimmunol.nature.com Renaissance of antiviral CD8+ T cell immunity in vaccination and disease www.nature.com/articles/s41... 083
Reposted by @nipagh.bsky.socialRippling Ideas @ripplingideas.bsky.social · 27/02/2026This is one of the most interesting developments as it appears that authors are now submitting preprints earlier in the process. A reminder that our data suggests that the best time to post is approx 1 month prior to journal submission (which ~30% now are). 053
Reposted by @nipagh.bsky.socialWaggoner Lab @labwaggoner.bsky.social · 24/02/2026Metabolic quiescence of naive-like memory T cells precedes and maintains antigen-specific T cell memory @natimmunol.nature.com www.nature.com/articles/s41... 1113
Reposted by @nipagh.bsky.socialUle Lab @ulelab.bsky.social · 24/01/2026A great read! link.springer.com/article/10.1...link.springer.comWhat is the question? - Genome BiologyGenome Biology - 1155
nipagh.bsky.social @nipagh.bsky.social · 05/01/2026💀wtf!? "" .. the last time they paid the annual maintenance fee on it was 2018! You can even find a letter where their lawyers send a refund request for the 2017 maintenance fee ($250) because Novo apparently wanted some more time to see if they wanted to pay it... "" www.science.org/content/blog...science.orgNovo Nordisk's Canadian Mistake 100
Reposted by @nipagh.bsky.socialAlbert Vilella, PhD. @albertvilella.bsky.social · 17/12/2025.@slavov-n.bsky.social on cell size vs cell count in the human body. Lots of white blood cells in number, lots of adipocytes (fat) in volume. 181
Reposted by @nipagh.bsky.socialWaggoner Lab @labwaggoner.bsky.social · 12/12/2025Single-cell transcriptomics resolves mononuclear phagocyte diversity in the human intestine in health and inflammatory bowel disease @sciimmunology.bsky.social www.science.org/doi/10.1126/...science.orgHeterogeneity of the intestinal mononuclear phagocyte compartment in health and inflammatory bowel diseaseSingle-cell transcriptomics resolves mononuclear phagocyte diversity in the human intestine in health and inflammatory bowel disease. 064
Reposted by @nipagh.bsky.socialKsenia Matlawska @kseniam.bsky.social · 24/10/2025Our fresh and still-steaming Journal of Clinical Investigation preprint is out! 🚀 We explore how T-cell acute lymphoblastic leukemia (T-ALL) exploits inflammatory CXCR3–CXCL10 signaling within the meninges to drive CNS infiltration. www.jci.org/articles/vie...jci.org JCI - T-cell acute lymphoblastic leukemia exploits a neural proinflammatory pathway to colonize the meninges 193
nipagh.bsky.social @nipagh.bsky.social · 29/11/2025A very interesting read. I wonder how one could replicate this in other autoimmune disorders. www.nature.com/articles/s41...nature.comA microenvironment-driven HLA-II-associated insulin neoantigen elicits persistent memory T cell activation in diabetes - Nature ImmunologyThe authors identify a Cys→Ser transformation (C19S) in insulin leading to neoepitope presentation and CD4⁺ T cell autoreactivity in type 1 diabetes. Inflammation and oxidative stress enhanced C19S tr... 031
Reposted by @nipagh.bsky.socialsaligramalab.bsky.social @saligramalab.bsky.social · 26/11/2025We are #absolutely #thrilled to #present @cp-immunity.bsky.social - Deep profiling of human T cells defines compartmentalized clones and phenotypic trajectories across blood and tonsils: Immunity www.cell.com/immunity/ful...cell.comDeep profiling of human T cells defines compartmentalized clones and phenotypic trajectories across blood and tonsilsHuman T cell responses are often studied using blood, yet most T cells reside in tissues. By comparing T cell receptor repertoires from millions of T cells from autologous tonsils and blood, Sureshcha... 11912
Reposted by @nipagh.bsky.socialDaniel Peeper Lab @peeperlab.bsky.social · 19/11/2025Our new paper is out in Nature - online today! Huge congrats to shared first authors Sofía Ibáñez-Molero & Johanna Veldman, the whole team & all collaborators. 📄 Open-access paper: www.nature.com/articles/s41...nature.comTumour-reactive heterotypic CD8 T cell clusters from clinical samples - NatureTumour-reactive CD8+ T cells are enriched in functional clusters with tumour cells and/or antigen-presenting cells and can be isolated and expanded from clinical samples. 2228
nipagh.bsky.social @nipagh.bsky.social · 16/11/2025Sunday reading. I aspire to write something like this for T cells one day. www.cell.com/immunity/ful...cell.comA roadmap for defining “extrafollicular” B cell responsesThe term “extrafollicular” is now being used expansively to describe a variety of B cell processes beyond the original use of the term, potentially obscuring important distinct immunological processes... 120
Reposted by @nipagh.bsky.socialWaggoner Lab @labwaggoner.bsky.social · 12/11/2025Epstein-Barr virus–mediated B cell reprogramming may initiate systemic lupus erythematosus www.science.org/doi/10.1126/... www.science.org/doi/10.1126/... @stanfordmedicine.bsky.social @shady-myounis.bsky.social 0255
Reposted by @nipagh.bsky.socialKilian Schober @kischober.bsky.social · 03/11/2025Dear single-cell bluesky community: We’re running Cell Ranger (5’ scRNA-seq) on sorted human CD8+ T cells with a custom library. Custom seqs (27–133 bp) appear in FASTQs + BAM but aren’t mapped. They are filtered out by STAR for being too short—any way to lower the length limit or workaround? 122
nipagh.bsky.social @nipagh.bsky.social · 30/10/2025Me as a PhD student:"I hate how useful this is". Me as a Postdoc: "I LOVE HOW USEFUL THIS IS". 000
Reposted by @nipagh.bsky.socialbioRxiv Immunology @biorxiv-immuno.bsky.social · 24/10/2025Mapping of CD8 T-cell recognition to latent EBV infection and neuroantigens reveals HLA-specific depletion of T-cell responses in multiple sclerosis www.biorxiv.org/content/10.1101/202… 064
Reposted by @nipagh.bsky.socialKilian Schober @kischober.bsky.social · 03/10/2025If the immune system is an army... ... would you rather rely on one “super warrior” — or on a diverse team of fighters, even if none of them is the single strongest? I’d go with the team. Why? Check out our new study, just published in Science Immunology: www.science.org/doi/10.1126/... 57321
Reposted by @nipagh.bsky.socialKilian Schober @kischober.bsky.social · 08/10/2025When a T cell carries both its natural TCR and an engineered CAR, do these two receptors cooperate - or compete? Our new preprint on bioRxiv shows that TCR activation can enhance CAR-T activation but impairs CAR-mediated killing when targets are on separate cells. www.biorxiv.org/content/10.1...biorxiv.orgTCR activation impairs CAR-T cytotoxicity against separate target cellsChimeric antigen receptor T cells (CAR-T) are effective therapeutics against cancer and autoimmunity, but whether the endogenous T cell receptor (TCR) is beneficial, detrimental or irrelevant for CAR ... 2145
Reposted by @nipagh.bsky.socialGriffiths Lab @griffithslab.bsky.social · 04/08/2025Sometimes, knocking out a gene isn't a good way to figure out the function of that gene ... In our new @jcellsci.bsky.social paper, we report potent transcriptional adaptation by cytotoxic T lymphocytes (CTLs) in response to CRISPR/Cas9-mediated deletion of the important polarity protein CDC42 🧵⬇️ 24414
Reposted by @nipagh.bsky.socialbioRxiv Immunology @biorxiv-immuno.bsky.social · 05/08/2025De novo identification of the specificities of recurrent human T cell receptors www.biorxiv.org/content/10.1101/202… 023
Reposted by @nipagh.bsky.socialStephen Turner @stephenturner.us · 25/01/2025Writing a technical blog improves your writing, forces you to learn new things, helps others and yourself, and helps your career. In this essay: (1) why blog, (2) what to blog about, (3) how to get started, and (4) using AI. doi.org/10.59350/bqnfd-7p249 🧪doi.orgTechnical blogging for growth and learningWriting a technical blog improves your writing, forces you to learn new things, helps others and yourself, and helps your career. This post: why blog, what to blog about, how to start, and using AI. 25411
nipagh.bsky.social @nipagh.bsky.social · 02/08/2025Double negative T cells can act as professional APCs capable of tolerance induction? How fascinating - I'm picturing a western stand-off between two T cells (both equipped with granzymes btw) unwilling to let go of the other! 020
Reposted by @nipagh.bsky.socialWaggoner Lab @labwaggoner.bsky.social · 02/08/2025Intestinal CD4−CD8αβ−TCRαβ+ T cells function as tolerogenic antigen presenting cells in mice @natcomms.nature.com www.nature.com/articles/s41... 0113
Reposted by @nipagh.bsky.socialWaggoner Lab @labwaggoner.bsky.social · 23/07/2025Autoantibodies against cytokines, growth factors, immunoreceptors, & tumor surface proteins robustly modulate immune checkpoint inhibition therapy response @aaronmring.bsky.social @nature.com www.nature.com/articles/s41... 062
Reposted by @nipagh.bsky.socialCaleb Lareau @caleblareau.bsky.social · 22/07/2025Excited to share a new preprint from the lab with @ryandhindsa.bsky.social ! www.biorxiv.org/content/10.1... Led by @sherrynyeo.bsky.social, @erinmayc.bsky.social, and friends, we continue our journey to find viral DNA in our favorite place-- the overlooked and discarded reads in existing data! 1/ 17237
nipagh.bsky.social @nipagh.bsky.social · 21/07/2025My last history lesson in school was in 2012. Today I realized that my memory is blank on certain events outside biology, many probably. Fx. I had no idea the EU includes illegal activities in calculating GDP. The amount of colorful assumptions as to how much this contributes to GDP must be wild! 000
Reposted by @nipagh.bsky.socialWaggoner Lab @labwaggoner.bsky.social · 14/07/2025Early identification of individuals at risk for multiple sclerosis by quantification of EBNA-1381-452-specific antibody titers @natcomms.nature.com www.nature.com/articles/s41... 194
Reposted by @nipagh.bsky.socialRuth Montgomery @rrmsky.bsky.social · 27/06/2025Wow, when lower IFN in aging is a good thing! Congratulations Chaz L and team. #ImmuneProfiling #Aging Epigenetic attenuation of interferon signaling is associated with aging-related improvements in systemic lupus erythematosus | Science Translational Medicine www.science.org/doi/10.1126/...science.orgEpigenetic attenuation of interferon signaling is associated with aging-related improvements in systemic lupus erythematosusPatients with systemic lupus erythematosus exhibit aging-related decreases in interferon signaling that correlate with improved disease activity. 073
Reposted by @nipagh.bsky.socialIvan Zanoni @lozanzi.bsky.social · 26/06/2025#ToStressOrNotToStress! @christinviral.bsky.social @cadwelllab.bsky.social show @naturemicrobiol.nature.com that stress drives #interferon stimulated genes to protect against an enteric virus! After immune suppression by stress-induced glucorticoids, CD8 T cells get activated protecting the host!nature.comEnvironmental stress drives clearance of a persistent enteric virus in mice - Nature MicrobiologyCage change of mice with persistent murine astrovirus infection triggers stress responses marked by corticosterone fluctuation, which is followed by CD8 T cell activation and induction of epithelial a... 0101
nipagh.bsky.social @nipagh.bsky.social · 22/06/2025Outright banning ChatGPT? Like a commenter said, chess robots have been instrumental in teaching chess, so why can't AI be a way to teach better scientific writing? "ChatGPT is fun, but not an author" | Science www.science.org/doi/10.1126/...science.orgChatGPT is fun, but not an authorIn less than 2 months, the artificial intelligence (AI) program ChatGPT has become a cultural sensation. It is freely accessible through a web portal created by the tool’s developer, OpenAI. The progr... 000
nipagh.bsky.social @nipagh.bsky.social · 19/06/2025A perfect date in Erlangen for me really is June 19th. Summer, green parks, a long weekend ahead, and nobody in sight! 000
nipagh.bsky.social @nipagh.bsky.social · 13/06/2025Absolutely fascinating work. ""In this vein, we contend that future incorporation of physiological microbial exposure into animal models may offer translational value to the study of brain health and disease."" (most? any? some?) Infections create a T cell memory in the brain. 010
Reposted by @nipagh.bsky.socialWaggoner Lab @labwaggoner.bsky.social · 13/06/2025Physiological microbial exposure normalizes memory T cell surveillance of the brain and modifies host seizure outcomes @natimmunol.nature.com www.nature.com/articles/s41... 152
Reposted by @nipagh.bsky.socialJoe Sabatino @jsabatino37.bsky.social · 11/06/2025Really interesting new study on CD8+ T cells in MS from @ali-syedaliraza.bsky.social and Danny Reich 152
Reposted by @nipagh.bsky.socialbioRxiv Immunology @biorxiv-immuno.bsky.social · 23/05/2025CSF single-cell RNA sequencing reveals clonally expanded CD4+ stem cell-like memory T cells in GAD65-antibody associated neurological syndromes www.biorxiv.org/content/10.1101/202… 053
Reposted by @nipagh.bsky.socialJanos Groh @janos-groh.bsky.social · 22/05/2025Pleased to share our latest work on neural-immune interactions in aging white matter. It was a long journey, made possible by incredible support and persistent efforts of many colleagues across various locations. Many thanks to everyone involved. www.nature.com/articles/s41...nature.comMicroglia activation orchestrates CXCL10-mediated CD8+ T cell recruitment to promote aging-related white matter degeneration - Nature NeuroscienceWhite matter aging leads to degenerative and inflammatory changes. Here the authors show that microglial dysfunction exacerbates glial CXCL10 expression, harmful CD8+ T cell recruitment, myelinated ax... 23216
Reposted by @nipagh.bsky.socialSandro Da Mesquita @da-mesquita.bsky.social · 21/05/2025Read our latest review article out in @thelancetneuro.bsky.social if you want to know more about CSF transport across the different compartments of the brain-meningeal border and its importance for neurological diseases with strong neuroimmune components 😉 authors.elsevier.com/a/1l7l75FFzL...authors.elsevier.com 43313
Reposted by @nipagh.bsky.socialWaggoner Lab @labwaggoner.bsky.social · 19/05/2025Epstein–Barr virus induces aberrant B cell migration and diapedesis via FAK-dependent chemotaxis pathways www.nature.com/articles/s41... 051
nipagh.bsky.social @nipagh.bsky.social · 19/05/2025A reminder to myself that chemokines are likely not exerting their effects via soluble concentration gradients due to their binding to GAGs. At least they weren't in 2011, when this well written review was made! www.sciencedirect.com/science/arti...sciencedirect.comThe blood–brain barrier, chemokines and multiple sclerosisThe infiltration of leukocytes into the central nervous system (CNS) is an essential step in the neuropathogenesis of multiple sclerosis (MS). Leukocy… 000
Reposted by @nipagh.bsky.socialWaggoner Lab @labwaggoner.bsky.social · 17/05/2025Mechanism by IL-15 stimulates bystander memory CD8+ T-cells to enter the CNS and contribute to injury independent of antigen-specific stimulation www.biorxiv.org/content/10.1... 0122
Reposted by @nipagh.bsky.socialWaggoner Lab @labwaggoner.bsky.social · 09/05/2025Immunosequencing identifies signatures of T cell responses for early detection of nasopharyngeal carcinoma @cp-cancercell.bsky.social www.cell.com/cancer-cell/... 041
Reposted by @nipagh.bsky.socialSchumacher Lab @schumacher-lab.bsky.social · 02/05/2025It's not the models, it's the data! We show that a substantial proportion of a widely used TCR-pMHC database does not functionally validate, causing underestimation of performance of TCR-pMHC prediction models. www.biorxiv.org/content/10.1...biorxiv.orgA functionally validated TCR-pMHC database for TCR specificity model developmentAccurate prediction of TCR specificity forms a holy grail in immunology and large language models and computational structure predictions provide a path to achieve this. Importantly, current TCR-pMHC ... 1328