Matthew Arthur Inlay

Associate Professor, Department of Molecular Biology & Biochemistry

Biography

Matthew Arthur Inlay, Ph.D., is an Associate Professor in the Department of Molecular Biology & Biochemistry at the University of California, Irvine, where he also serves as an investigator in the Sue and Bill Gross Stem Cell Research Center and holds faculty appointments in the Institute for Immunology and the Chao Family Comprehensive Cancer Center. Dr. Inlay received his Ph.D. from the Division of Biology at the University of California, San Diego in 2003, followed by postdoctoral training at UC San Diego and an extended postdoctoral fellowship at Stanford University's Institute for Stem Cell Biology and Regenerative Medicine, where he also trained as a Research Associate from 2010 to 2013. He joined the UC Irvine faculty in 2013.

Dr. Inlay's research focuses on hematopoietic stem cells, with particular emphasis on their embryonic origins and therapeutic applications in allogeneic transplantation. His laboratory has made contributions to understanding the developmental origins of blood-forming cells in the embryonic yolk sac and has identified multipotent progenitors that emerge prior to hematopoietic stem cells during embryonic development. More recently, his work has centered on developing strategies to reduce graft-versus-host disease following allogeneic hematopoietic cell transplantation through glucocorticoid conditioning of donor cells, while preserving immune function against cancer.

Dr. Inlay has served in numerous leadership roles at UC Irvine, including previous service as Chair of the Shared Resources Committee for the Sue and Bill Gross Stem Cell Research Center from 2018 to 2024, and as Co-Chair of the Immunology emphasis area for the Center for Molecular Biosciences Graduate Program from 2021 to 2026. He currently serves as Vice-Chair of the Human Stem Cell Research Oversight committee, co-director of the Microbiology & Immunology undergraduate major, faculty advisor for the Stem Cell Research Center Flow Cytometry Core, and Ph.D. Grad Advisor for the Department of Molecular Biology & Biochemistry. His research has been supported by the California Institute for Regenerative Medicine, the National Institutes of Health, and private foundations including the Oxnard Foundation.

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Education

B.A., University of California, Berkeley, 1997
Ph.D. in Biology, University of California, San Diego, 2003

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Distinctions

Stanford Tumor Biology Training Program Postdoctoral Fellow, 2005-2006
California Institute for Regenerative Medicine Postdoctoral Fellow, 2006-2008
Stanford Immunology Training Program Postdoctoral Fellow, 2008-2009
Distinguished Teaching Assistant Award, UCSD, 1999
Postdoctoral Mentor Award, Stanford University, 2008

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Areas of Expertise

Hematopoietic Stem Cell Biology
T cell immunology
Graft-Versus-Host Disease Prevention
Allogeneic Transplantation Immunomodulation
Glucocorticoid Graft Conditioning
Microglia Infiltration Mechanisms
Embryonic Blood System Development
Yolk Sac Hemogenic Endothelium

Recent Publications

Yanes K.J.O., Bui C.T., Tomasello J., Morsy H., Kim E., Lam T., Tsourmas K., Ayala L.A., Green K.N., Inlay M.A., Lodoen M.B., “Toxoplasma gondii drives myeloid immune cell recruitment to amyloid plaques in Alzheimer’s model mice” (opens in new tab), Journal of Neuroinflammation, vol. 23, 2026.
Chadarevian J.P., Nguyen J., Le L., Ayala L.A., Chadarevian A.L., Zhou C., Escobar A., Do A.T., Deynega E., Mansour K., Hasselmann J., Eskandari-Sedighi G., Lombroso S.I., Bennett F.C., Inlay M.A., Davtyan H., Blurton-Jones M., “CSF1R inhibitor-resistant model for CNS-wide microglia replacement strategies” (opens in new tab), Molecular Therapy, vol. 34, pp. 832-849, 2026.
Hohsfield LA, Kim SJ, Barahona RA, Henningfield CM, Mansour K, Vallejo KD, Tsourmas KI, Kwang NE, Ghorbanian Y, Angulo JAA, Gao P, Pachow C, Inlay MA, Walsh CM, Xu X, Lane TE, Green KN, “Identification of the velum interpositum as a meningeal-CNS route for myeloid cell trafficking into the brain” (opens in new tab), Neuron, vol. 113, no. 15, pp. 2455-2473.e6, 2025.
Ayala LA, Varady ES, Zhou C, Chen X, Valdovinos A, Ahmedani AH, Hisoire GL, Nguyen PU, Scarfone VM, Inlay MA, “Flow Cytometry Analysis of Graft Conditioning on the T-Cell Response in Graft-Versus-Host Disease Following Murine Allogeneic Transplantation” (opens in new tab), Methods in Molecular Biology, vol. 2907, pp. 237-257, 2025.
Ayala LA, Nguyen PU, Zhou C, Hisoire GL, Ahmedani AH, Chen X, Daud A, Valdovinos A, Varady ES, Inlay MA, Scarfone VM, “Mass Cytometry Immunophenotyping of Graft-Conditioned Cells Following Major Histocompatibility Complex Mismatched Murine Allograft” (opens in new tab), Methods in Molecular Biology, vol. 2907, pp. 259-286, 2025.
Varady ES, Ayala LA, Nguyen PU, Scarfone VM, Karimzadeh A, Zhou C, Chen X, Greilach SA, Walsh CM, Inlay MA, “Graft conditioning with fluticasone propionate reduces graft-versus-host disease upon allogeneic hematopoietic cell transplantation in mice” (opens in new tab), EMBO Molecular Medicine, vol. 15, no. 9, pp. e17748, 2023.
Hohsfield LA, Tsourmas KI, Ghorbanian Y, Syage AR, Jin Kim S, Cheng Y, Furman S, Inlay MA, Lane TE, Green KN, “MAC2 is a long-lasting marker of peripheral cell infiltrates into the mouse CNS after bone marrow transplantation and coronavirus infection” (opens in new tab), Glia, vol. 70, no. 5, pp. 875-891, 2022.
Cole KH, Bouin A, Ruiz C, Semler BL, Inlay MA, Lupták A, “Single-tube collection and nucleic acid analysis of clinical samples for SARS-CoV-2 saliva testing” (opens in new tab), Scientific Reports, vol. 12, no. 1, pp. 3951, 2022.
Hohsfield LA, Najafi AR, Ghorbanian Y, Soni N, Crapser J, Figueroa Velez DX, Jiang S, Royer SE, Kim SJ, Henningfield CM, Anderson A, Gandhi SP, Mortazavi A, Inlay MA, Green KN, “Subventricular zone/white matter microglia reconstitute the empty adult microglial niche in a dynamic wave” (opens in new tab), Elife, vol. 10, pp. e66738, 2021.
Karimzadeh A, Varady ES, Scarfone VM, Chao C, Grathwohl K, Nguyen PU, Ghorbanian Y, Weissman IL, Serwold T, Inlay MA, “Absence of CD11a Expression Identifies Embryonic Hematopoietic Stem Cell Precursors via Competitive Neonatal Transplantation Assay” (opens in new tab), Frontiers in Cell and Developmental Biology, vol. 9, pp. 734176, 2021.
Hohsfield LA, Najafi AR, Ghorbanian Y, Soni N, Hingco EE, Kim SJ, Jue AD, Swarup V, Inlay MA, Green KN, “Effects of long-term and brain-wide colonization of peripheral bone marrow-derived myeloid cells in the CNS” (opens in new tab), Journal of Neuroinflammation, vol. 17, no. 1, pp. 279, 2020.
Faal T, Phan DTT, Davtyan H, Scarfone VM, Varady E, Blurton-Jones M, Hughes CCW, Inlay MA, “Induction of Mesoderm and Neural Crest-Derived Pericytes from Human Pluripotent Stem Cells to Study Blood-Brain Barrier Interactions” (opens in new tab), Stem Cell Reports, vol. 12, no. 3, pp. 451-460, 2019.
Shukla AK, McIntyre LL, Marsh SE, Schneider CA, Hoover EM, Walsh CM, Lodoen MB, Blurton-Jones M, Inlay MA, “CD11a expression distinguishes infiltrating myeloid cells from plaque-associated microglia in Alzheimer's disease” (opens in new tab), Glia, vol. 67, no. 5, pp. 844-856, 2019.
Pavel-Dinu M., Wiebking V., Dejene B.T., Srifa W., Mantri S., Nicolas C.E., Lee C., Bao G., Kildebeck E.J., Punjya N., Sindhu C., Inlay M.A., Saxena N., DeRavin S.S., Malech H., Roncarolo M.G., Weinberg K.I., Porteus M.H., “Author Correction: Gene correction for SCID-X1 in long-term hematopoietic stem cells (Nature Communications, (2019), 10, 1, (1634), 10.1038/s41467-019-09614-y)” (opens in new tab), Nature Communications, vol. 10, 2019.
Karimzadeh A, Scarfone VM, Varady E, Chao C, Grathwohl K, Fathman JW, Fruman DA, Serwold T, Inlay MA, “The CD11a and Endothelial Protein C Receptor Marker Combination Simplifies and Improves the Purification of Mouse Hematopoietic Stem Cells” (opens in new tab), Stem Cells Translational Medicine, vol. 7, no. 6, pp. 468-476, 2018.
Lee LK, Ghorbanian Y, Wang W, Wang Y, Kim YJ, Weissman IL, Inlay MA, Mikkola HKA, “LYVE1 Marks the Divergence of Yolk Sac Definitive Hemogenic Endothelium from the Primitive Erythroid Lineage” (opens in new tab), Cell Reports, vol. 17, no. 9, pp. 2286-2298, 2016.
Faal, T., Wong, P.T., Tang, S., Coulter, A., Chen, Y., Tu, C.H., Baker, J.R., Choi, S.K., Inlay, M.A., “4-Hydroxytamoxifen probes for light-dependent spatiotemporal control of Cre-ER mediated reporter gene expression” (opens in new tab), Molecular Biosystems, vol. 11, no. 3, pp. 783-90, 2015.
Vazquez SE, Inlay MA, Serwold T, “CD201 and CD27 identify hematopoietic stem and progenitor cells across multiple murine strains independently of Kit and Sca-1” (opens in new tab), Experimental Hematology, vol. 43, no. 7, pp. 578-85, 2015.
Inlay, M.A., Serwold, T., Mosley, A., Fathman, J.W., Dimov, I.K., Seita, J., Weissman, I.L., “Identification of Multipotent Progenitors that Emerge Prior to Hematopoietic Stem Cells in Embryonic Development” (opens in new tab), Stem Cell Reports, vol. 2, no. 4, pp. 457-72, 2014.

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Most Cited Publications

Tseng, D., Volkmer, J.P., Willingham, S.B., Contreras-Trujillo, H., Fathman, J.W., Fernhoff, N.B., Seita, J., Inlay, M.A., Weiskopf, K., Miyanishi, M., Weissman, I.L., “Anti-CD47 antibody-mediated phagocytosis of cancer by macrophages primes an effective antitumor T-cell response” (opens in new tab), Proceedings of the National Academy of Sciences of the United States of America, vol. 110, no. 27, pp. 11103-8, 2013.
Ji, H., Ehrlich, L.I., Seita, J., Murakami, P., Doi, A., Lindau, P., Lee, H., Aryee, M.J., Irizarry, R.A., Kim, K., Rossi, D.J., Inlay, M.A., Serwold, T., Karsunky, H., Ho, L., Daley, G.Q., Weissman, I.L., Feinberg, A.P., “Comprehensive methylome map of lineage commitment from haematopoietic progenitors” (opens in new tab), Nature, vol. 467, no. 7313, pp. 338-42, 2010.
Beerman, I., Seita, J., Inlay, M.A., Weissman, I.L., Rossi, D.J., “Quiescent Hematopoietic Stem Cells Accumulate DNA Damage during Aging that is Repaired upon Entry into Cell Cycle” (opens in new tab), Cell Stem Cell, vol. 15, pp. 37-50, 2014.
Marsh SE, Abud EM, Lakatos A, Karimzadeh A, Yeung ST, Davtyan H, Fote GM, Lau L, Weinger JG, Lane TE, Inlay MA, Poon WW, Blurton-Jones M, “The adaptive immune system restrains Alzheimer's disease pathogenesis by modulating microglial function” (opens in new tab), Proceedings of the National Academy of Sciences of the United States of America, vol. 113, no. 9, pp. E1316-25, 2016.
Tang, C., Lee, A.S., Volkmer, J.P., Sahoo, D., Nag, D., Mosley, A.R., Inlay, M.A., Ardehali, R., Chavez, S.L., Pera, R.R., Behr, B., Wu, J.C., Weissman, I.L., Drukker, M., “An antibody against SSEA-5 glycan on human pluripotent stem cells enables removal of teratoma-forming cells” (opens in new tab), Nature Biotechnology, vol. 29, no. 9, pp. 829-34, 2011.
Inlay, M.A., Bhattacharya, D., Sahoo, D., Serwold, T., Seita, J., Karsunky, H., Plevritis, S.K., Dill, D.L., Weissman, I.L., “Ly6d marks the earliest stage of B-cell specification and identifies the branchpoint between B-cell and T-cell development” (opens in new tab), Genes and Development, vol. 23, no. 20, pp. 2376-81, 2009.
Seita, J., Sahoo, D., Rossi, D.J., Bhattacharya, D., Serwold, T., Inlay, M.A., Ehrlich, L.I., Fathman, J.W., Dill, D.L., Weissman, I.L., “Gene Expression Commons: an open platform for absolute gene expression profiling” (opens in new tab), PLoS One, vol. 7, no. 7, 2012.
Fathman, J.W., Bhattacharya, D., Inlay, M.A., Seita, J., Karsunky, H., Weissman, I.L., “Identification of the earliest natural killer cell-committed progenitor in murine bone marrow” (opens in new tab), Blood, vol. 118, no. 20, pp. 5439-47, 2011.
Pavel-Dinu M, Wiebking V, Dejene BT, Srifa W, Mantri S, Nicolas CE, Lee C, Bao G, Kildebeck EJ, Punjya N, Sindhu C, Inlay MA, Saxena N, DeRavin SS, Malech H, Roncarolo MG, Weinberg KI, Porteus MH, “Gene correction for SCID-X1 in long-term hematopoietic stem cells” (opens in new tab), Nature Communications, vol. 10, no. 1, pp. 1634, 2019.
Karsunky, H., Inlay, M.A., Serwold, T., Bhattacharya, D., Weissman, I.L., “Flk2+ common lymphoid progenitors possess equivalent differentiation potential for the B and T lineages” (opens in new tab), Blood, vol. 111, no. 12, pp. 5562-70, 2008.

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Contact Information

Website: https://faculty.sites.uci.edu/inlaylab/

Email: minlay@uci.edu

Phone: (949) 824-8226

Address: 2010 Gross Hall

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This profile was created with the help of AI.

Last updated on 6/25/2026.