Mary Nakamura, MD
Professor
Medicine
School of Medicine
Mary Nakamura received her B.A. from Swarthmore College, her M.D. from Yale and trained in internal medicine at the University of California, San Francisco. She completed her rheumatology training at Johns Hopkins and UCSF. She did her post doctoral work at UCSF under the mentorship of Bill Seaman. She is a basic-translational researcher focused on studies in the field of osteoimmunology.
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She leads the Rheumatoid Arthritis Clinic at UCSF Parnassus and is a clinical attending at the SF VA HCS.
Research Statement I am a clinical rheumatologist who has done basic research in the area of innate immune receptors for the past 29 years. I was a postdoctoral fellow with Bill Seaman focused studies of innate receptor regulation of Natural Killer cells. For the last 21 years I have focused much of our work on the role of innate immune receptors on osteoclasts and innate immune regulation of normal and pathological bone turnover. I led one of the early groups focusing research in the area of osteoimmunology and was one of the first to identify the role of innate receptors in osteoclast differentiation and function. Osteoimmunology, is defined as a cross disciplinary field to integrate studies of the immune system and bone and the interactions between these systems which is a topic integral to the clinical field of rheumatology and has furthered my goal of integrating my research with my clinical work. Recently we have also focused work on innate receptors, macrophages and tissue regeneration examining these cells and their function in bone, brain and cardiac injury. Our work has demonstrated roles for macrophages in tissue regeneration and we are examining effects of age and autoimmunity on macrophage phenotype and function which may contribute to defective tissue repair. I have worked with a number of young investigators to enhance their studies by providing key guidance and experiments to examine myeloid cells, bone and/or immune cells in the bone for a number of advanced trainee projects over the past few years.
I am also dedicated to promoting basic-translational work in rheumatologic and autoimmune disease at UCSF. I partnered with Lindsey Criswell to develop PREMIER, an NIH p30 Center for the Advancement of Precision Medicine in Rheumatology a number of years ago. Following her departure to NIAMS, I assumed directorship of the Center and I successfully applied to renew this center grant last year. I continue to lead this effort to integrate research focused on patient cohorts using clinical informatics and state of the art molecular phenotyping using patient samples to advance our understanding of rheumatologic disease heterogeneity, outcomes and therapeutic responses. As part of one of PREMIER's efforts, I led a study of SARS CoV2 vaccine response in autoimmune and autoinflammatory disease patients as soon as the vaccination effort rolled out and partnered with colleagues at Washington University in St. Louis to expand the cohort. We managed to publish this work about 8 months after vaccine administration began.
Awards
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- Director PREMIER: Precision Medicine in Rheumtology p30 Center, UCSF, 2020
- Associate Director PREMIER: Precision Medicine in Rheumtology p30 Center, UCSF, 2016-2020
- Excellence in Teaching Award in medical education, The Haile Debas Academy of Medical Educators, UCSF, 2015
- Henry Kunkel Young Investigator Award, American College of Rheumatology, 2005
- Ira M. Goldstein Award for Outstanding Teaching in Rheumatology, UCSF, 2004
- Presidential Early Career Award, President of US, 2000
- VA Career Development Award, VA, 1998
- Physician Scientist Development Award, ACR, 1993
- Jeffrey Weingarten Award for Housestaff, UCSF, 1989
- J.M. Glasgow Memorial AMWA scholastic citation, Yale Medical School, 1986
- Louis G. Welt Prize for medical school thesis, Yale Medical School, 1986
Education & Training
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- Diversity, Equity, and Inclusion Champion Training University of California 2018
- Fellowship Rheumatology University of California, San Francisco 1994
- Fellowship Rheumatology Johns Hopkins University 1991
- Residency Internal Medicine University of California, San Francisco 1989
- MD School of Medicine Yale University 1986
- BA Biology Swarthmore College 1981
Interests
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- osteoimmunology
- rheumatoid arthritis
- macrophages
- tissue repair
Websites
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- PREMIER Website (premier.ucsf.edu)
- Linked In Profile (linkedin.com)
- Rheumatology Division Profile (rheumatology.medicine.ucsf.edu)
- Profile at UCSF Cancer Center (cancer.ucsf.edu)
Videos
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Grants and Projects
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- Resource-based Center for the Advancement of Precision Medicine in Rheumatology, NIH, 2016-2026
- Immune Modulation and Cardiac Remodeling, NIH, 2016-2021
- Effects of Aging on Macrophages and Bone Regeneration, NIH, 2013-2018
- DAP12 and ITAM-signals in Osteoclastogenesis, NIH, 2009-2014
- Using VEGF expression in inflammatory arthritis to induce targeted apoptosis, NIH, 2008-2011
- Dap-12 Associated Receptors in Osteoclasts, NIH, 2004-2010
- Ligands for Nkr P1--a Receptor on Natural Killer Cells, NIH, 1994-2000
Publications (60)
Top publication keywords:
Receptor, Macrophage Colony-Stimulating FactorAdaptor Proteins, Signal TransducingBone ResorptionMyeloid Progenitor CellsArthritis, RheumatoidMembrane GlycoproteinsImmunomodulationBone and BonesFracture HealingImmune SystemReceptors, CCR2Receptors, ImmunologicOsteoclastsBone RemodelingMacrophages
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Single-cell RNA-Seq analysis reveals cell subsets and gene signatures associated with rheumatoid arthritis disease activity.
JCI insight 2024 Binvignat M, Miao BY, Wibrand C, Yang MM, Rychkov D, Flynn E, Nititham J, Tamaki W, Khan U, Carvidi A, Krueger M, Niemi E, Sun Y, Fragiadakis GK, Sellam J, Mariotti-Ferrandiz E, Klatzmann D, Gross AJ,… -
Age-related changes to macrophage subpopulations and TREM2 dysregulation characterize attenuated fracture healing in old mice.
Aging cell 2024 Clark D, Brazina S, Miclau T, Park S, Hsieh CL, Nakamura M, Marcucio R -
Using the technology acceptance model to assess clinician perceptions and experiences with a rheumatoid arthritis outcomes dashboard: qualitative study.
BMC medical informatics and decision making 2024 Nasrallah C, Wilson C, Hamblin A, Young C, Jacobsohn L, Nakamura MC, Gross A, Matloubian M, Ashouri J, Yazdany J, Schmajuk G -
Identification of Cell-Specific Differential DNA Methylation Associated With Methotrexate Treatment Response in Rheumatoid Arthritis.
Arthritis & rheumatology (Hoboken, N.J.) 2023 Adams C, Nair N, Plant D, Verstappen SMM, Quach HL, Quach DL, Carvidi A, Nititham J, Nakamura M, Graf J, Barton A, Criswell LA, Barcellos LF -
Sleep Disturbance and SARS-CoV-2 Vaccinations in Patients With Chronic Inflammatory Disease.
Arthritis care & research 2023 Pawar N, Taylor KE, Yang M, Deepak P, Kim W, Paley MA, Matloubian M, Carvidi A, Ciorba MA, Demissie E, El-Qunni A, Huang K, Kinnett B, McMorrow LE, Paez D, Poole M, Rose A, Schriefer RE, Kim AHJ, …
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A simple point-of-care assay accurately detects anti-spike antibodies after SARS-CoV-2 vaccination.
Journal of clinical virology plus 2023 Greene SE, Huang Y, Kim W, Liebeskind MJ, Chandrasekaran V, Liu Z, Deepak P, Paley MA, Lew D, Yang M, Matloubian M, Gensler LS, Nakamura MC, O'Hallaran JA, Presti RM, Whelan SPJ, Buchser WJ, Kim AHJ, … -
Age-related decrease in periostin expression may be associated with attenuated fracture healing in old mice.
Journal of orthopaedic research : official publication of the Orthopaedic Research Society 2022 Clark D, Doelling J, Hu D, Miclau T, Nakamura M, Marcucio R -
Reactogenicity of the Messenger RNA SARS-CoV-2 Vaccines Associated With Immunogenicity in Patients With Autoimmune and Inflammatory Disease.
Arthritis care & research 2022 Yang MM, Taylor KE, Paez D, Carividi A, Demissie E, Pawar N, El-Qunni AA, McMorrow LE, Schriefer RE, Huang K, Kinnett B, Klebert M, Haile A, O'Halloran JA, Presti RM, Kim W, Ellebedy AH, Ciorba MA, … -
Physical Activity Associates With Lower Systemic Inflammatory Gene Expression in Rheumatoid Arthritis.
The Journal of rheumatology 2022 Patterson SL, Sun S, Rychkov D, Katz P, Tsitsiklis A, Nakamura MC, Serpa PH, Langelier CR, Sirota M -
Corrigendum to "ACVR1R206H extends inflammatory responses in human induced pluripotent stem cell-derived macrophages" [Bone. 153 2021 Dec; 116129. doi:10.1016/j.bone.2021.116129. Epub 2021 Jul 24. PMID: 34311122].
Bone 2022 Matsuo K, Lepinski A, Chavez RD, Barruet E, Pereira A, Moody TA, Ton AN, Sharma A, Hellman J, Tomoda K, Nakamura MC, Hsiao EC -
COVID-19 Breakthrough Infection Among Immunocompromised Persons.
JAMA internal medicine 2022 Kim AHJ, Nakamura MC -
CCR2 deficiency alters activation of microglia subsets in traumatic brain injury.
Cell reports 2021 Somebang K, Rudolph J, Imhof I, Li L, Niemi EC, Shigenaga J, Tran H, Gill TM, Lo I, Zabel BA, Schmajuk G, Wipke BT, Gyoneva S, Jandreski L, Craft M, Benedetto G, Plowey ED, Charo I, Campbell J, Ye CJ,… -
Effect of Immunosuppression on the Immunogenicity of mRNA Vaccines to SARS-CoV-2 : A Prospective Cohort Study.
Annals of internal medicine 2021 Deepak P, Kim W, Paley MA, Yang M, Carvidi AB, Demissie EG, El-Qunni AA, Haile A, Huang K, Kinnett B, Liebeskind MJ, Liu Z, McMorrow LE, Paez D, Pawar N, Perantie DC, Schriefer RE, Sides SE, Thapa M, … -
ACVR1R206H extends inflammatory responses in human induced pluripotent stem cell-derived macrophages.
Bone 2021 Matsuo K, Lepinski A, Chavez RD, Barruet E, Pereira A, Moody TA, Ton AN, Sharma A, Hellman J, Tomoda K, Nakamura MC, Hsiao EC -
2021 American College of Rheumatology Guideline for the Treatment of Rheumatoid Arthritis.
Arthritis care & research 2021 Fraenkel L, Bathon JM, England BR, St Clair EW, Arayssi T, Carandang K, Deane KD, Genovese M, Huston KK, Kerr G, Kremer J, Nakamura MC, Russell LA, Singh JA, Smith BJ, Sparks JA, Venkatachalam S, … -
2021 American College of Rheumatology Guideline for the Treatment of Rheumatoid Arthritis.
Arthritis & rheumatology (Hoboken, N.J.) 2021 Fraenkel L, Bathon JM, England BR, St Clair EW, Arayssi T, Carandang K, Deane KD, Genovese M, Huston KK, Kerr G, Kremer J, Nakamura MC, Russell LA, Singh JA, Smith BJ, Sparks JA, Venkatachalam S, … -
Multicohort Analysis Identifies Monocyte Gene Signatures to Accurately Monitor Subset-Specific Changes in Human Diseases.
Frontiers in immunology 2021 Vallania F, Zisman L, Macaubas C, Hung SC, Rajasekaran N, Mason S, Graf J, Nakamura M, Mellins ED, Khatri P -
The Contribution of Macrophages in Old Mice to Periodontal Disease.
Journal of dental research 2021 Clark D, Halpern B, Miclau T, Nakamura M, Kapila Y, Marcucio R -
Glucocorticoids and B Cell Depleting Agents Substantially Impair Immunogenicity of mRNA Vaccines to SARS-CoV-2.
medRxiv : the preprint server for health sciences 2021 Deepak P, Kim W, Paley MA, Yang M, Carvidi AB, El-Qunni AA, Haile A, Huang K, Kinnett B, Liebeskind MJ, Liu Z, McMorrow LE, Paez D, Perantie DC, Schriefer RE, Sides SE, Thapa M, Gergely M, Abushamma S… -
Targeting Nerve Growth Factor for Pain Management in Osteoarthritis-Clinical Efficacy and Safety.
Rheumatic diseases clinics of North America 2021 Dietz BW, Nakamura MC, Bell MT, Lane NE -
Natural killer cells activated through NKG2D mediate lung ischemia-reperfusion injury.
The Journal of clinical investigation 2021 Calabrese DR, Aminian E, Mallavia B, Liu F, Cleary SJ, Aguilar OA, Wang P, Singer JP, Hays SR, Golden JA, Kukreja J, Dugger D, Nakamura M, Lanier LL, Looney MR, Greenland JR -
Lower PDL1, PDL2, and AXL Expression on Lung Myeloid Cells Suggests Inflammatory Bias in Smoking and Chronic Obstructive Pulmonary Disease.
American journal of respiratory cell and molecular biology 2020 Vasudevan S, Vásquez JJ, Chen W, Aguilar-Rodriguez B, Niemi EC, Zeng S, Tamaki W, Nakamura MC, Arjomandi M -
Proinflammatory cytokines and ARDS pulmonary edema fluid induce CD40 on human mesenchymal stromal cells-A potential mechanism for immune modulation.
PloS one 2020 Wilfong EM, Croze R, Fang X, Schwede M, Niemi E, López GY, Lee JW, Nakamura MC, Matthay MA -
Non-catalytic ubiquitin binding by A20 prevents psoriatic arthritis-like disease and inflammation.
Nature immunology 2020 Razani B, Whang MI, Kim FS, Nakamura MC, Sun X, Advincula R, Turnbaugh JA, Pendse M, Tanbun P, Achacoso P, Turnbaugh PJ, Malynn BA, Ma A -
Age-related changes to macrophages are detrimental to fracture healing in mice.
Aging cell 2020 Clark D, Brazina S, Yang F, Hu D, Hsieh CL, Niemi EC, Miclau T, Nakamura MC, Marcucio R -
Female-Specific Role of Progranulin to Suppress Bone Formation.
Endocrinology 2019 Wang L, Roth T, Nakamura MC, Nissenson RA -
Osteoimmunology: entwined regulation of integrated systems.
Seminars in immunopathology 2019 Nakamura MC -
NF-κB/MAPK activation underlies ACVR1-mediated inflammation in human heterotopic ossification.
JCI insight 2018 Barruet E, Morales BM, Cain CJ, Ton AN, Wentworth KL, Chan TV, Moody TA, Haks MC, Ottenhoff TH, Hellman J, Nakamura MC, Hsiao EC -
Effects of Aging on Fracture Healing.
Current osteoporosis reports 2017 Clark D, Nakamura M, Miclau T, Marcucio R -
A Comprehensive Review of Immunoreceptor Regulation of Osteoclasts.
Clinical reviews in allergy & immunology 2016 Humphrey MB, Nakamura MC -
Brain trauma elicits non-canonical macrophage activation states.
Journal of neuroinflammation 2016 Kim CC, Nakamura MC, Hsieh CL -
Triggering receptor expressed on myeloid cells 2 (TREM2) deficiency attenuates phagocytic activities of microglia and exacerbates ischemic damage in experimental stroke.
The Journal of neuroscience : the official journal of the Society for Neuroscience 2015 Kawabori M, Kacimi R, Kauppinen T, Calosing C, Kim JY, Hsieh CL, Nakamura MC, Yenari MA -
CCR2 deficiency impairs macrophage infiltration and improves cognitive function after traumatic brain injury.
Journal of neurotrauma 2014 Hsieh CL, Niemi EC, Wang SH, Lee CC, Bingham D, Zhang J, Cozen ML, Charo I, Huang EJ, Liu J, Nakamura MC -
Bone and the innate immune system.
Current osteoporosis reports 2014 Charles JF, Nakamura MC -
CIITA: a master regulator of adaptive immunity shows its innate side in the bone.
Journal of bone and mineral research : the official journal of the American Society for Bone and Mineral Research 2014 Nakamura MC -
Triggering Receptor Expressed on Myeloid Cells-2 Correlates to Hypothermic Neuroprotection in Ischemic Stroke.
Therapeutic hypothermia and temperature management 2013 Kawabori M, Hokari M, Zheng Z, Kim JY, Calosing C, Hsieh CL, Nakamura MC, Yenari MA -
Traumatic brain injury induces macrophage subsets in the brain.
European journal of immunology 2013 Hsieh CL, Kim CC, Ryba BE, Niemi EC, Bando JK, Locksley RM, Liu J, Nakamura MC, Seaman WE -
Inflammatory arthritis increases mouse osteoclast precursors with myeloid suppressor function.
The Journal of clinical investigation 2012 Charles JF, Hsu LY, Niemi EC, Weiss A, Aliprantis AO, Nakamura MC -
PSTPIP2 deficiency in mice causes osteopenia and increased differentiation of multipotent myeloid precursors into osteoclasts.
Blood 2012 Chitu V, Nacu V, Charles JF, Henne WM, McMahon HT, Nandi S, Ketchum H, Harris R, Nakamura MC, Stanley ER -
Expression of A20 by dendritic cells preserves immune homeostasis and prevents colitis and spondyloarthritis.
Nature immunology 2011 Hammer GE, Turer EE, Taylor KE, Fang CJ, Advincula R, Oshima S, Barrera J, Huang EJ, Hou B, Malynn BA, Reizis B, DeFranco A, Criswell LA, Nakamura MC, Ma A -
Effects of inflammation on bone: an update.
Current opinion in rheumatology 2011 Baker-LePain JC, Nakamura MC, Lane NE -
Assessment of bone remodelling in childhood-onset systemic lupus erythematosus.
Rheumatology (Oxford, England) 2010 Baker-LePain JC, Nakamura MC, Shepherd J, von Scheven E -
The loss of Cbl-phosphatidylinositol 3-kinase interaction perturbs RANKL-mediated signaling, inhibiting bone resorption and promoting osteoclast survival.
The Journal of biological chemistry 2010 Adapala NS, Barbe MF, Langdon WY, Nakamura MC, Tsygankov AY, Sanjay A -
Clinical diagnosis of segmental arterial mediolysis: differentiation from vasculitis and other mimics.
Arthritis care & research 2010 Baker-LePain JC, Stone DH, Mattis AN, Nakamura MC, Fye KH -
Multiple roles for CCR2 during fracture healing.
Disease models & mechanisms 2010 Xing Z, Lu C, Hu D, Yu YY, Wang X, Colnot C, Nakamura M, Wu Y, Miclau T, Marcucio RS -
Binding and uptake of H-ferritin are mediated by human transferrin receptor-1.
Proceedings of the National Academy of Sciences of the United States of America 2010 Li L, Fang CJ, Ryan JC, Niemi EC, Lebrón JA, Björkman PJ, Arase H, Torti FM, Torti SV, Nakamura MC, Seaman WE -
IL-10 suppresses calcium-mediated costimulation of receptor activator NF-kappa B signaling during human osteoclast differentiation by inhibiting TREM-2 expression.
Journal of immunology (Baltimore, Md. : 1950) 2009 Park-Min KH, Ji JD, Antoniv T, Reid AC, Silver RB, Humphrey MB, Nakamura M, Ivashkiv LB -
A role for TREM2 ligands in the phagocytosis of apoptotic neuronal cells by microglia.
Journal of neurochemistry 2009 Hsieh CL, Koike M, Spusta SC, Niemi EC, Yenari M, Nakamura MC, Seaman WE -
Glucocorticoid excess in mice results in early activation of osteoclastogenesis and adipogenesis and prolonged suppression of osteogenesis: a longitudinal study of gene expression in bone tissue from glucocorticoid-treated mice.
Arthritis and rheumatism 2008 Yao W, Cheng Z, Busse C, Pham A, Nakamura MC, Lane NE -
The innate immune response to Salmonella enterica serovar Typhimurium by macrophages is dependent on TREM2-DAP12.
Infection and immunity 2008 Charles JF, Humphrey MB, Zhao X, Quarles E, Nakamura MC, Aderem A, Seaman WE, Smith KD -
Osteoclasts - the innate immune cells of the bone.
Autoimmunity 2008 Wu Y, Humphrey MB, Nakamura MC -
Bone microenvironment specific roles of ITAM adapter signaling during bone remodeling induced by acute estrogen-deficiency.
PloS one 2007 Wu Y, Torchia J, Yao W, Lane NE, Lanier LL, Nakamura MC, Humphrey MB -
Cutting edge: inhibition of TLR and FcR responses in macrophages by triggering receptor expressed on myeloid cells (TREM)-2 and DAP12.
Journal of immunology (Baltimore, Md. : 1950) 2006 Hamerman JA, Jarjoura JR, Humphrey MB, Nakamura MC, Seaman WE, Lanier LL -
Role of ITAM-containing adapter proteins and their receptors in the immune system and bone.
Immunological reviews 2005 Humphrey MB, Lanier LL, Nakamura MC -
TREM2, a DAP12-associated receptor, regulates osteoclast differentiation and function.
Journal of bone and mineral research : the official journal of the American Society for Bone and Mineral Research 2005 Humphrey MB, Daws MR, Spusta SC, Niemi EC, Torchia JA, Lanier LL, Seaman WE, Nakamura MC -
TIM-2 is expressed on B cells and in liver and kidney and is a receptor for H-ferritin endocytosis.
The Journal of experimental medicine 2005 Chen TT, Li L, Chung DH, Allen CD, Torti SV, Torti FM, Cyster JG, Chen CY, Brodsky FM, Niemi EC, Nakamura MC, Seaman WE, Daws MR -
Mice lacking the integrin beta5 subunit have accelerated osteoclast maturation and increased activity in the estrogen-deficient state.
Journal of bone and mineral research : the official journal of the American Society for Bone and Mineral Research 2004 Lane NE, Yao W, Nakamura MC, Humphrey MB, Kimmel D, Huang X, Sheppard D, Ross FP, Teitelbaum SL -
The immunomodulatory adapter proteins DAP12 and Fc receptor gamma-chain (FcRgamma) regulate development of functional osteoclasts through the Syk tyrosine kinase.
Proceedings of the National Academy of Sciences of the United States of America 2004 Mócsai A, Humphrey MB, Van Ziffle JA, Hu Y, Burghardt A, Spusta SC, Majumdar S, Lanier LL, Lowell CA, Nakamura MC -
The signaling adapter protein DAP12 regulates multinucleation during osteoclast development.
Journal of bone and mineral research : the official journal of the American Society for Bone and Mineral Research 2003 Humphrey MB, Ogasawara K, Yao W, Spusta SC, Daws MR, Lane NE, Lanier LL, Nakamura MC -
CMRF-35-like molecule-1, a novel mouse myeloid receptor, can inhibit osteoclast formation.
Journal of immunology (Baltimore, Md. : 1950) 2003 Chung DH, Humphrey MB, Nakamura MC, Ginzinger DG, Seaman WE, Daws MR