Publications for All Faculty

Sort by:
Reset

Brown MJ, Turcu AF, Sam R, Kirschner LS, Hamidi O, Eren A, Ben-Shlomo A, Huang W, Bancos I, Hamrahian AH, Freeman MW

Hyperaldosteronism Remission after Extended Aldosterone Synthase Inhibition.
N Engl J Med. 2026;:ePub - PMID: 43001732 - DOI: 10.1056/NEJMc2611265

Kadoki M, Nanki K, Szamosvári D, Mohamed AMT, Stražar M, Thurimella K, Lee J, Shin YH, Ung P, Shuai M, Zimmerman S, Park J, Nambu A, Avila-Pacheco J, Mashin E, Carey KL, Li B, Pishchany G, Clish CB, Clardy J, Graham DB, Xavier RJ

Microbial products trigger chemosensory dialogues through intestinal G protein-coupled receptors.
Cell Host Microbe. 2026;:ePub - PMID: 42956747 - DOI: 10.1016/j.chom.2026.10.002

Porter CBM, Murphy SP, Cazaubiel J, Delorey TM, Amir-Zilberstein L, Ashenberg O, Klindziuk L, Andrews E, Tan W, Matsuda K, Kondo A, Ugai S, Ugai T, Ogino S, Finan E, Deguine J, Sicinska E, Brais LK, Thalappillil JS, Giannakis M, Xavier RJ, Anderson AC, Ng K

Insights into early-onset colorectal cancer from a single-nucleus RNA-seq atlas of colorectal cancer across the age continuum.
Nat Med. 2026;:ePub - PMID: 42957776 - DOI: 10.1038/s41591-026-04721-y

Kanai M, Delorey TM, Honkanen J, Rodosthenous RS, Juvila J, Murphy S, Teixeira-Soldano I, Hwang HS, Karjalainen J, Halonen J, Panagiotaropoulou G, Zhang Y, McCabe C, Chen E, Nanki K, Yoshida T, Liu K, Glean M, Mehrotra N, Finan EP, Chafamo D, Zhu Y, Arvas M, Ruotsalainen S, Zheng Z, Tomofuji Y, Tokuyasu D, Namba S, Sonehara K, BioBank Japan Project, FinnGen, Okada Y, Reeve MP, Kurki M, Porter CBM, Ashenberg O, Zhou W, Pitkänen K, Partanen J, Palotie A, Graham DB, Daly MJ, Xavier RJ

Population-scale immune multiome atlas reveals regulatory disease mechanisms.
Nature. 2026;:ePub - PMID: 42816628 - DOI: 10.1038/s41586-026-11078-2

Cao K, Li R, Stražar M, Brown EM, Nguyen PNU, Pust MM, Park J, Graham DB, Ashenberg O, Uhler C, Xavier RJ

A structure-informed deep learning framework for modeling TCR-peptide-HLA interactions.
Nat Commun. 2026;17(1):ePub - PMID: 42946765 - PMCID: PMC13714282 - DOI: 10.1038/s41467-026-78063-1

Cohen JD, Nguyen K, Hall DH, Ausubel FM, Ruvkun G

Lysosome-related organelle genes are required for mitochondrial transformations during bacterial infections in Caenorhabditis elegans.
bioRxiv. 2026;:ePub - PMID: 42779732 - PMCID: PMC13596180 - DOI: 10.64898/2026.08.04.742833

Jimena B, Kazimierczyk D, Kazimierczyk S, Moya H, Shin E, Li L, Korgaonkar P, Porter C, Seed B, Cherayil BJ, Jain N

Prenatal maternal infection promotes maternal microchimeric cells to alter infection risk in male offspring.
Front Immunol. 2026;17:1869048 - PMID: 42756425 - PMCID: PMC13582634 - DOI: 10.3389/fimmu.2026.1869048

Hernandez-Bird J, Meirelles LA

Simulating the host niche: balancing complexity and control in the experimental evolution of antibiotic resistance and pathoadaptation.
Microbiology (Reading). 2026;172(9):ePub - PMID: 42726510 - PMCID: PMC13567839 - DOI: 10.1099/mic.0.001767

Brioschi S, Belk JA, Storck SE, Wu Y, Wang Z, Feng Z, van Olst L, Emery JL, Sudan R, Wu J, Du S, Genua M, La Terza F, Edwards AJ, Nguyen KM, Sanford J, Lee DD, Bugatti M, Federico AJ, Chen Y, Wang Z, Penati S, Rodrigues PF, Antonova AU, Loo HQ, Smirnov I, Gilfillan S, Halabi CM, Ponce J, Yan J, Chang HY, Randolph GJ, Vermi W, Cella M, Meers M, Ostuni R, Gate D, Nguyen AT, Cruchaga C, Hu S, Kipnis J, Colonna M

Brain perivascular macrophages regulate endothelial cell function via a cMAF-dependent transcriptional program in mouse and human.
Cell. 2026;189(22):7013-7033.e12 - PMID: 42600613 - PMCID: PMC13546755 - DOI: 10.1016/j.cell.2026.07.043

Pust MM, Mohamed AMT, Stražar M, Arias-Rojas A, Cunningham-Oakes E, Brown EM, Bumber A, Pishchany G, Li C, Ananthakrishnan AN, Darby AC, Vlamakis H, Plichta DR, Xavier RJ

Antisense transcription reveals disease-associated adaptations in the human gut microbiome.
Nat Microbiol. 2026;11(9):2464-2477 - PMID: 42575975 - DOI: 10.1038/s41564-026-02442-z

Ernst CM, Fischer LKS, Manson AL, Li L, Ma P, Anahtar MN, Bhattacharyya RP, Earl AM, Clatworthy AE, Hung DT

Klebsiella Brain Abscess and Evolution of Heterovirulence in the Urinary Tract.
N Engl J Med. 2026;395(4):408-410 - PMID: 42485633 - PMCID: PMC13403934 - DOI: 10.1056/NEJMc2108952

Weickert P, Liu Y, Strecker J

Prokaryotic Schlafen proteins cleave tRNAs during type III CRISPR immunity.
Nat Commun. 2026;17(1):ePub - PMID: 42393087 - PMCID: PMC13462974 - DOI: 10.1038/s41467-026-74880-6

Gomez JE, Solomon MY, Hunt DK, Geddes EJ, Bond AN, Liu C, Ulrich RJ, Chaudhary PV, Barkho S, Hung DT

Large-Scale Chemical-Genetic Interaction Profiling Identifies a Small-Molecule Inhibitor of Mycobacterium tuberculosis Polyketide Synthase 13.
ACS Infect Dis. 2026;12(6):2033-2045 - PMID: 42126262 - PMCID: PMC13271088 - DOI: 10.1021/acsinfecdis.6c00136

Clatworthy AE, DiNatale VP, Burgos-Robles E, Lopes F, Smillie C, Hung DT

Unravelling bacterial complexity at high resolution with single-cell transcriptomics.
Nat Microbiol. 2026;11(5):1168-1179 - PMID: 42067624 - DOI: 10.1038/s41564-026-02333-3

Antonova AU, Rodrigues PF, Mannie C, Ferrari G, Carvajal H, Bugatti M, Vermi W, Wu T, Cella M, Eghtesady P, Colonna M

Age- and tissue-dependent diversity of human plasmacytoid dendritic cells uncovers a cycling subset dominant in early life and cancer.
Immunity. 2026;59(5):1221-1236.e5 - PMID: 42061412 - PMCID: PMC13191660 - DOI: 10.1016/j.immuni.2026.04.003

Fachi JL, Trsan T, Sécca C, de Oliveira S, Rodovalho VR, Rodrigues PF, Beatty WL, Sudan R, Wu S, Bhattarai B, Panda SK, Cella M, Gilfillan S, Colonna M

LINGO4 coordinates ILC3-intrinsic IL-22 production and microbiota-mediated ILC3 homeostasis.
J Exp Med. 2026;223(6):ePub - PMID: 42048289 - PMCID: PMC13138468 - DOI: 10.1084/jem.20252632

Graham DB, Xavier RJ

Mechanisms of inflammatory bowel diseases: Insights from human genetics and chemical biology.
Immunity. 2026;59(5):1184-1200 - PMID: 42049036 - PMCID: PMC13132028 - DOI: 10.1016/j.immuni.2026.04.002

Steinberg R, Pust MM, Arias-Rojas A, Pishchany G, Ramsey KA, Kieninger E, Moeller A, Casaulta C, Hilty M, Latzin P, SCILD Study Group, BILD Study Group, Korten I, Xavier RJ

An infant nasal microbial gene atlas uncovers intervention-driven microbiome shifts and salt-resistant pathogen expansion.
Cell Host Microbe. 2026;34(5):925-941.e6 - PMID: 42013836 - DOI: 10.1016/j.chom.2026.03.019

Chen X, Holtzman DM, Colonna M.

Immunity in Alzheimer's disease: From mechanisms to therapies
Immunity. 2026;59(3):524-541 - PMID: 41759511 - DOI: 10.1016/j.immuni.2026.02.004

Chen Y, Liu Y, Nguyen K, Wu J, Song S, Lin K, Rodrigues PF, Du S, Zhou C, Xiong K, Bosch M, Lin PB, Khantakova D, Wu S, Wu M, Yuede C, Holtzman DM, Colonna M

Targeting amyloid-β pathology by chimeric antigen receptor astrocyte (CAR-A) therapy.
Science. 2026;391(6789):eads3972 - PMID: 41785364 - PMCID: PMC13294515 - DOI: 10.1126/science.ads3972

Tanoue T, Nagayama M, Roochana AJA, Zimmerman S, Ashenberg O, Jain T, Igarashi R, Sasajima S, Takeshita K, Hetherington N, Okahashi N, Ueda M, Konishi M, Nakayama Y, Minoda A, Skelly AN, Minokoshi Y, Pucci N, Mende DR, Arita M, Yamamoto H, Watanabe S, Miura K, Behie SW, Suda W, Sato T, Atarashi K, Matsushita M, Kajimura S, Plichta DR, Saito M, Xavier RJ, Honda K

Microbiota-mediated induction of beige adipocytes in response to dietary cues.
Nature. 2026;653(8114):499-509 - PMID: 41781619 - PMCID: PMC13051337 - DOI: 10.1038/s41586-026-10205-3

Fachi JL, de Oliveira S, Trsan T, Molgora M, Fernandes Rodrigues P, Gilfillan S, Ulezko Antonova A, Chang HW, Penati S, Cao S, Cella M, Colonna M

Divergent ILC3 responses to PDGF-D control mucosal immunity.
Sci Immunol. 2026;11(116):eaea6848 - PMID: 41758927 - DOI: 10.1126/sciimmunol.aea6848

Reeve MP, Kanai M, Graham DB, Karjalainen J, Luo S, Kolosov N, Adams C, Ritari J, Karczewski KJ, Kiiskinen T, Jiang Y, Fuller Z, Mehtonen J, Kurki MI, Khan Z, FinnGen, Partanen J, McCarthy MI, Artomov M, Palotie A, Tuomi T, Pirinen M, Kero J, Xavier RJ, Daly MJ, Ripatti S

Genome-wide association analyses of autoimmune hypothyroidism reveal autoimmune and thyroid-specific contributions and an inverse relationship with cancer risk.
Nat Genet. 2026;58(3):550-559 - PMID: 41748903 - PMCID: PMC12987720 - DOI: 10.1038/s41588-026-02521-1

Fiskin E, Eraslan G, Alora-Palli MB, Jain T, Leyva-Castillo JM, Kim S, Choe H, Lareau CA, Lau H, Finan EP, Teixeira-Soldano I, LaBere B, Chu A, Woods B, Chou J, Slyper M, Waldman J, Islam S, Schneider L, Phipatanakul W, Platt C, Rozenblatt-Rosen O, Delorey TM, Ashenberg O, Deguine J, Smith GP, Geha RS, Regev A, Xavier RJ

Multi-modal skin atlas identifies a multicellular immune-stromal community associated with disrupted cornification and specific T cell expansion in atopic dermatitis.
Nat Commun. 2026;17(1):ePub - PMID: 41741455 - PMCID: PMC13057205 - DOI: 10.1038/s41467-026-69587-7

Thurimella K, Wu E, Li C, Graham DB, Owens RM, Plichta DR, Sokol CL, Xavier RJ, Bacallado S

Identifying microbial protease allergens through protein language model-guided homology.
Cell Syst. 2026;17(3):101510 - PMID: 41722567 - PMCID: PMC13015258 - DOI: 10.1016/j.cels.2025.101510
Total: 2533