Selected Publications

2026

SPP1hi macrophages in fibrin niches promote hyperplastic tissue remodeling in rheumatoid arthritis synovium
under revision
Ian Mantel, Haoxuan Zhang, Juan Vargas, Gao Ce, Hope Townsend, Richard Bell, Amit Lakhanpal, Miriam R. Fein, Accelerating Medicines Partnership: RA/SLE Network, Thomas Norman, Dana Orange, Daniel Ramirez, Edward F. DiCarlo, Susan M. Goodman, Melanie H. Smith, Fan Zhang, Kevin Wei, Kushal K. Dey, Alexander Rudensky, Christina S. Leslie, Laura T. Donlin

2025

Rheumatoid arthritis synovial fibroblasts modulate T cell activation
JCI Insight
​Melissa Romoff, Preethi Periyakoil, Edward F DiCarlo, Daniel Ramirez, Susan M Goodman, Christina S Leslie, Alexander Y Rudensky, Laura T Donlin, Melanie H Smith.

​Deep immunophenotyping reveals circulating activated lymphocytes in individuals at risk for rheumatoid arthritis
Journal of Clinical Investigation
Jun Inamo, Joshua Keegan, Alec Griffith, Tusharkanti Ghosh, Alice Horisberger, Kaitlyn Howard, John F. Pulford, Ekaterina Murzin, Brandon Hancock, Salina T. Dominguez, Miranda G. Gurra, Siddarth Gurajala, Anna Helena Jonsson, Jennifer A. Seifert, Marie L. Feser, Jill M. Norris, Ye Cao, William Apruzzese, S. Louis Bridges, Vivian P. Bykerk, Susan Goodman, Laura T. Donlin, Gary S. Firestein, Joan M. Bathon, Laura B. Hughes, Andrew Filer, Costantino Pitzalis, Jennifer H. Anolik, Larry Moreland, Nir Hacohen, Joel M. Guthridge, Judith A. James, Carla M. Cuda, Harris Perlman, Michael B. Brenner, Soumya Raychaudhuri, Jeffrey A. Sparks, The Accelerating Medicines Partnership RA/SLE Network, V. Michael Holers, Kevin D. Deane, James Lederer, Deepak A. Rao, and Fan Zhang

​2024

Tissue-specific enhancer-gene maps from multimodal single-cell data identify causal disease alleles
Nature Genetics
Saori Sakaue, Kathryn Weinand, Shakson Isaac, Kushal K. Dey, Karthik Jagadeesh, Masahiro Kanai, Gerald F. M. Watts, Zhu Zhu, Accelerating Medicines Partnership® RA/SLE Program and Network, Michael B. Brenner, Andrew McDavid, Laura T. Donlin, Kevin Wei, Alkes L. Price & Soumya Raychaudhuri

The chromatin landscape of pathogenic transcriptional cell states in rheumatoid arthritis
Nature Communications
Kathryn Weinand, Saori Sakaue, Aparna Nathan, Anna Helena Jonsson, Fan Zhang, Gerald F. M. Watts, Majd Al Suqri, Zhu Zhu, Accelerating Medicines Partnership Program: Rheumatoid Arthritis and Systemic Lupus Erythematosus (AMP RA/SLE) Network, Deepak A. Rao, Jennifer H. Anolik, Michael B. Brenner, Laura T. Donlin, Kevin Wei & Soumya Raychaudhuri 

Automated multi-scale computational pathotyping (AMSCP) on inflamed synovial tissue 
Nature Communications
Richard D. Bell, Matthew Brendel, Maxwell A. Konnaris, Justin Xiang, Miguel Otero, Mark A. Fontana, Zilong Bai, Accelerating Medicines Partnership Rheumatoid Arthritis and Systemic Lupus Erythematosus (AMP RA/SLE) Consortium, Daria M. Krenitsky, Nida Meednu, Javier Rangel-Moreno, Dagmar Scheel-Toellner, Hayley Carr, Saba Nayar, Jack McMurray, Edward DiCarlo, Jennifer H. Anolik, Laura T. Donlin, Dana E. Orange, H. Mark Kenney, Edward M. Schwarz, Andrew Filer, Lionel B. Ivashkiv & Fei Wang 

Clonal associations between lymphocyte subsets and functional states in rheumatoid arthritis synovium
Nature Communications
Garrett Dunlap, Aaron Wagner, Nida Meednu, Ruoqiao Wang, Fan Zhang, Jabea Cyril Ekabe, Anna Helena Jonsson, Kevin Wei, Saori Sakaue, Aparna Nathan, Accelerating Medicines Partnership Program: Rheumatoid Arthritis and Systemic Lupus Erythematosus (AMP RA/SLE) Network, Vivian P. Bykerk, Laura T. Donlin, Susan M. Goodman, Gary S. Firestein, David L. Boyle, V. Michael Holers, Larry W. Moreland, Darren Tabechian, Costantino Pitzalis, Andrew Filer, Soumya Raychaudhuri, Michael B. Brenner, Juilee Thakar, …Jennifer H. Anolik

​2023

Deconstruction of rheumatoid arthritis synovium defines inflammatory subtypes
Nature
Zhang F, Jonsson AH, Nathan A, Millard N, Curtis M, Xiao Q, Gutierrez-Arcelus M, Apruzzese W, Watts GFM, Weisenfeld D, Nayar S, Rangel-Moreno J, Meednu N, Marks KE, Mantel I, . . .; Accelerating Medicines Partnership: RA/SLE Network; Moreland LW, Goodman SM, Perlman H, Holers VM, Liao KP, Filer A, Bykerk VP, Wei K, Rao DA, Laura T. Donlin*, Anolik JH,* Brenner MB*, Raychaudhuri S*.

Clonally expanded CD38hi cytotoxic CD8 T cells define the T cell infiltrate in checkpoint inhibitor-associated arthritis
Science Immunology
Runci Wang, Anvita Singaraju, Kathryne E. Marks, Lorien Shakib, Garrett Dunlap, Ifeoluwakiisi Adejoorin, Stinne R. Greisen, Lin Chen, Aidan K. Tirpack, Carlos Aude, Miriam R. Fein, Derrick J. Todd, Lindsey MacFarlane, Susan M. Goodman, Edward F. DiCarlo, Elena M. Massarotti, Jeffrey A. Sparks, A. Helena Jonsson, Michael B. Brenner, Michael A. Postow, Karmela K. Chan, Anne R. Bass*, Laura T. Donlin*, Deepak A. Rao*

Drivers of heterogeneity in synovial fibroblasts in rheumatoid arthritis
​Nature Immunology
Smith MH, Gao VR, Periyakoil PK, Kochen A, DiCarlo EF, Goodman SM, Norman TM, Laura T. Donlin, Leslie CS, Rudensky AY.

Mapping the dynamic genetic regulatory architecture of HLA genes at single cell resolution
Nature Genetics
Joyce B. Kang, Amber Z. Shen, Saisriram Gurajala, Aparna Nathan, Laurie Rumker, Vitor R. C. Aguiar, Cristian Valencia, Kaitlyn A. Lagattuta, Fan Zhang, Anna Helena Jonsson, Seyhan Yazar, Jose Alquicira-Hernandez, Hamed Khalili, Ashwin N. Ananthakrishnan, Karthik Jagadeesh, Kushal Dey, Accelerating Medicines Partnership Program: Rheumatoid Arthritis and Systemic Lupus Erythematosus (AMP RA/SLE) Network, Mark J. Daly, Ramnik J. Xavier, Laura T. Donlin, Jennifer H. Anolik, Joseph E. Powell, Deepak A. Rao, Michael B. Brenner, Maria Gutierrez-Arcelus, Yang Luo, Saori Sakaue & Soumya Raychaudhuri

Cytotoxic CD8+ T cells target citrullinated antigens in rheumatoid arthritis
Nature Communications
Jae-Seung Moon, Shady Younis, Nitya S. Ramadoss, Radhika Iyer, Khushboo Sheth, Orr Sharpe, Navin L. Rao, Stephane Becart, Julie A. Carman, Eddie A. James, Jane H. Buckner, Kevin D. Deane, V. Michael Holers, Susan M. Goodman, Laura T. Donlin, Mark M. Davis & William H. Robinson

Emerging synovial cell states in rheumatoid arthritis as potential therapeutic targets
​Current Opinion in Rheumatology
Ian Mantel, Miriam R Fein, Laura T Donlin  

Machine learning identification of thresholds to discriminate osteoarthritis and rheumatoid arthritis synovial inflammation
Arthritis Research & Therapy
Bella Mehta, Susan Goodman, Edward DiCarlo, Deanna Jannat-Khah, J. Alex B. Gibbons, Miguel Otero, Laura T. Donlin, Tania Pannellini, William H. Robinson, Peter Sculco, Mark Figgie, Jose Rodriguez, Jessica M. Kirschmann, James Thompson, David Slater, Damon Frezza, Zhenxing Xu, Fei Wang & Dana E. Orange

​2022

Inching closer to precision treatment for rheumatoid arthritis
Nature Medicine 
Laura T. Donlin ​

Neoplastic synovial lining cells that coexpress podoplanin and CD90 overproduce CSF-1, driving tenosynovial giant cell tumor 
Journal of Orthopaedic Research
​Andrew C Chandler, Mohamed Yakoub, Tomohiro Fujiwara, Laura T Donlin, Paul Edward Purdue, John H Healey​

2021

Sequencing of Circulating Microbial Cell-Free DNA Can Identify Pathogens in Periprosthetic Joint Infections
Journal of Bone and Joint Surgery
Adriana P Echeverria, Ian S Cohn , David C Danko, Sara Shanaj, Lily Blair , Desiree Hollemon , Alberto V Carli , Peter K Sculco , Carine Ho , Galit Meshulam-Simon , Christine Mironenko , Lionel B Ivashkiv , Susan M Goodman , Alexandra Grizas , Geoffrey H Westrich , Douglas E Padgett , Mark P Figgie , Mathias P Bostrom , Thomas P Sculco , David K Hong , Matthew S Hepinstall , Thomas W Bauer , Timothy A Blauwkamp , Barry D Brause , Andy O Miller, Michael W Henry, Asim A Ahmed , Michael B Cross , Christopher E Mason, Laura T Donlin 

IFN-γ and TNF-α drive a CXCL10+ CCL2+ macrophage phenotype expanded in severe COVID-19 lungs and inflammatory diseases with tissue inflammation
Genome Medicine
​Fan Zhang, Joseph R. Mears, Lorien Shakib, Sara Shanaj, Ilya Korsunsky, Aparna Nathan, Accelerating Medicines Partnership Rheumatoid Arthritis and Systemic Lupus Erythematosus (AMP RA/SLE) Consortium, Laura T. Donlin* and Soumya Raychaudhuri*

2020

Notch signalling drives synovial fibroblast identity and arthritis pathology
Nature
​Kevin Wei, Ilya Korsunsky, Jennifer L Marshall, Anqi Gao, Gerald F M Watts, Triin Major, Adam P Croft, Jordan Watts, Philip E Blazar, Jeffrey K Lange, Thomas S Thornhill, Andrew Filer, Karim Raza, Laura T Donlin, Accelerating Medicines Partnership Rheumatoid Arthritis & Systemic Lupus Erythematosus (AMP RA/SLE) Consortium; Christian W Siebel, Christopher D Buckley, Soumya Raychaudhuri, Michael B Brenner

2019

​​​HBEGF+ macrophages in rheumatoid arthritis induce fibroblast invasiveness
Science Translational Medicine
David Kuo, Jennifer Ding, Ian Cohn, Fan Zhang, Kevin Wei, Deepak Rao, Cristina Rozo, Upneet K Sokhi, Accelerating Medicines Partnership RA/SLE Network, Edward F. DiCarlo, Michael B. Brenner, Vivian P. Bykerk, Susan M. Goodman, Soumya Raychaudhuri, Gunnar Rätsch, Lionel B. Ivashkiv, Laura T. Donlin.

Defining Inflammatory Cell States in Rheumatoid Arthritis Joint Synovial Tissues by Integrating Single-cell Transcriptomics and Mass Cytometry 
​Nature Immunology
Fan Zhang, Kevin Wei, Kamil Slowikowski, Chamith Y. Fonseka, Deepak A. Rao, Stephen Kelly, Susan M Goodman, Darren Tabechian, Laura B. Hughes, Karen Salomon-Escoto, Gerald F. M. Watts, William Apruzzese …, Laura T. Donlin*, Jennifer H. Anolik*, Michael B. Brenner*, Soumya Raychaudhuri*.
| Data Set |

Histologic and Transcriptional Evidence of Subclinical Synovial Inflammation in Patients With Rheumatoid Arthritis in Clinical Remission
Arthritis Rheumatology
Dana E Orange, Phaedra Agius, Edward F DiCarlo, Serene Z Mirza, Tania Pannellini, Jackie Szymonifka, Caroline S Jiang, Mark P Figgie, Mayu O Frank, William H Robinson, Laura T Donlin, Cristina Rozo, Ellen M Gravallese, Vivian P Bykerk, Susan M Goodman
| Data Set |

Insights into rheumatic diseases from next-generation sequencing 
Nature Reviews Rheumatology
Laura T Donlin, Sung-Ho Park, Eugenia Giannopoulou, Aleksandra Ivovic, Kyung-Hyun Park-Min, Richard M Siegel, Lionel B Ivashkiv 
| Data Set |

Synovial Tissue: Cellular and Molecular Phenotyping
​Current Rheumatology Reports
Shanaj S, Donlin LT
| Data Set |

2018

Methods for high-dimensional analysis of cells dissociated from cryopreserved synovial tissue 
​Journal of Arthritis Research and Therapy
Laura T. Donlin, Deepak A. Rao, Kevin Wei, Kamil Slowikowski, Mandy J. McGeachy, Jason D. Turner, Nida Meednu, Fumitaka Mizoguchi, Maria Gutierrez-Arcelus, David J. Lieb, …, Jennifer H. Anolik
| In the Press | Massive NIH–industry project opens portals to target validation

Flares in Patients with Rheumatoid Arthritis after Total Hip and Total Knee Arthroplasty: Rates, Characteristics, and Risk Factors. 
​The Journal of Rheumatology
Susan M. Goodman, Vivian P. Bykerk, Edward DiCarlo, Ryan W. Cummings, Laura T. Donlin, Dana E. Orange, Annie Hoang, Serene Mirza, Michael McNamara, Kayte Andersen, Susan J. Bartlett, Jackie Szymonifka and Mark P. Figgie

Functionally distinct disease-associated fibroblast subsets in rheumatoid arthritis. 
Nature Communications
Fumitaka Mizoguchi, Kamil Slowikowski, Kevin Wei, Jennifer L. Marshall, Deepak A. Rao, Sook Kyung Chang, Hung N. Nguyen, Erika H. Noss, Jason D. Turner, Brandon E. Earp, Philip E. Blazar, John Wright, Barry P. Simmons, Laura T. Donlin, …, Michael B. Brenner
| Data Set |

Single-cell RNA-seq of rheumatoid arthritis synovial tissue using low-cost microfluidic instrumentation. 
Nature Communications
William Stephenson*, Laura T. Donlin*, Andrew Butler*, Cristina Rozo, Bernadette Bracken, Ali Rashidfarrokhi, Susan M. Goodman, Lionel B. Ivashkiv, Vivian P. Bykerk, Dana E. Orange, Robert B. Darnell, Harold P. Swerdlow & Rahul Satija.
| Data Set |
| In the Press |  3-D Printed Instrument Expands Options For RA Tests, Treatments
| In the Press | New device for low-cost single-cell analysis identifies fibroblast subtypes in rheumatoid arthritis patients

​Identification of Three Rheumatoid Arthritis Disease Subtypes by Machine Learning Integration of Synovial Histologic Features and RNA Sequencing Data.​ 
​Arthritis and Rheumatology
Dana E. Orange, Phaedra Agius, Edward F. DiCarlo, Nicolas Robine, Heather Geiger, Jackie Szymonifka, Michael McNamara, Ryan Cummings, Kathleen M. Andersen, Serene Mirza, Mark Figgie, Lionel B. Ivashkiv, …, Laura T. Donlin.
| Data Set |

≤ 2017

​Pathologically expanded peripheral T helper cell subset drives B cells in rheumatoid arthritis. 
Nature
​Deepak A. Rao, Michael F. Gurish, Jennifer L. Marshall, Kamil Slowikowski, Chamith Y. Fonseka, Yanyan Liu, Laura T. Donlin, Lauren A. Henderson, Kevin Wei, Fumitaka Mizoguchi, Nikola C. Teslovich, Michael E. Weinblatt,  …, Michael B. Brenner.

​Modulation of TNF-induced macrophage polarization by synovial fibroblasts. 
​The Journal of Immunology
Laura T. Donlin, Arundathi Jayatilleke, Eugenia G. Giannopoulou, George D. Kalliolias and Lionel B. Ivashkiv.
| Data Set |

​Regulation of type I interferon responses. 
Nature Reviews Immunology
Lionel B. Ivashkiv, and Laura T. Donlin.

Smyd2 controls cytoplasmic lysine methylation of Hsp90 and myofilament organization. 
Genes & Development
Laura T. Donlin, Christian Andresen, Steffen Just, Eugene Rudensky, Christopher T. Pappas, Martina Kruger, Erica Y. Jacobs, Andreas Unger, Anke Zieseniss, Marc-Werner Dobenecker, Tobias Voelkel, ..., Wolfgang A. Linke.

Regulation of medullary thymic epithelial cell differentiation and function by the signaling protein Sin. 
​Journal of Experimental Medicine
Nichole M. Danzl, Laura T. Donlin, and Konstantina Alexandropoulos.

​Deficiency in expression of the signaling protein Sin/Efs leads to T-lymphocyte activation and mucosal inflammation. 
​Molecular and Cellular Biology
Laura T. Donlin, Nichole M. Danzl, Celestine Wanjalla, and Konstantina Alexandropoulos.