Grimes Lab

Publications

Li, G; Song, B; Singh, H; Prasath, S; Grimes, L; Salomonis, N. scTriangulate, a game-theory based framework for optimal solutions of uni- and multimodal single-cell data. 2021; 2021.10.16.464640.

Muench, DE; Olsson, A; Ferchen, K; Pham, G; Serafin, RA; Chutipongtanate, S; Dwivedi, P; Song, B; Hay, S; Chetal, K; et al. Mouse models of neutropenia reveal progenitor-stage-specific defects. Nature. 2020; 582:109-114.

Olsson, A; Venkatasubramanian, M; Chaudhri, VK; Aronow, BJ; Salomonis, N; Singh, H; Grimes, HL. Single-cell analysis of mixed-lineage states leading to a binary cell fate choice. Nature. 2016; 537:698-702.

Thompson, EN; Carlino, MJ; Scanlon, VM; Grimes, HL; Krause, DS. Assay optimization for the objective quantification of human multilineage colony-forming units. Experimental Hematology. 2023; 124:36-44.e3.

Basu, J; Olsson, A; Ferchen, K; Titerina, EK; Chetal, K; Nicolas, E; Czyzewicz, P; Levchenko, D; Ge, L; Hua, X; et al. ThPOK is a critical multifaceted regulator of myeloid lineage development. Nature Immunology. 2023; 24:1295-1307.

Kesarwani, M; Kincaid, Z; Azhar, M; Menke, J; Schwieterman, J; Ansari, S; Reaves, A; Deininger, ME; Levine, R; Grimes, HL; et al. MAPK-negative feedback regulation confers dependence to JAK2V617F signaling. Leukemia. 2023; 37:1686-1697.

Ferchen, K; Salomonis, N; Grimes, HL. pyInfinityFlow: optimized imputation and analysis of high-dimensional flow cytometry data for millions of cells. Editor, Kelso J. Bioinformatics. 2023; 39:btad287.

Song, B; Zhang, X; Bennett, S; Ma, S; Ferchen, K; Salomonis, N; Grimes, HL. High-throughput workflow leveraging spectral flow cytometry and CITE-seq to characterize human bone marrow across race and gender. Journal of immunology (Baltimore, Md. : 1950). 2023; 210:250.13.

Ferchen, K; Song, B; Potter, C; Zhang, X; Chou, C; Khodoun, M; Finkelman, FD; Salomonis, N; Grimes, HL. Th2 immune responses induced by helminth infection reprogram multilineage progenitors to produce successive waves of neutrophils, basophils, and eosinophils. Journal of immunology (Baltimore, Md. : 1950). 2023; 210:65.01.

Song, B; Zhang, X; Steele, H; Chou, C; Ferchen, K; Salomonis, N; Herro, R; Grimes, HL. Live bacterial ligands universally regulate mTOR activity but are not essential for homeostatic innate immunity. Journal of immunology (Baltimore, Md. : 1950). 2023; 210:65.05.

Solomon, M; Song, BA; Govindarajah, V; Good, S; Bartram, J; Cancelas, J; Filippi, M; Salomonis, N; Grimes, HL; Reynaud, D. Hematopoietic Flt3+ Multipotent Progenitors Are Organized in Discrete Functionally and Hierarchically Distinct Populations. Blood. 2022; 140:1981-1982.

Colom Diaz, PA; Chou, C; Mistry, JJ; Salomonis, N; Daud Khan, M; Grimes, HL; Trowbridge, JJ. Metallothionein 1 (MT1) Is Selectively Required for DNMT3A;NPM1 -Mutant Acute Myeloid Leukemia Proliferation. Blood. 2022; 140:9103-9104.

Ozga, MP; Nicolet, D; Mrózek, K; Yilmaz, S; Kohlschmidt, J; Larkin, KT; Blachly, JS; Oakes, CC; Buss, J; Walker, CJ; et al. Sex-Associated Differences in Frequencies and Outcome Prognostication of Recurrent Molecular Features in Adults with Acute Myeloid Leukemia (AML) (AMLCG, CALGB [Alliance]). Blood. 2022; 140:936-939.

Ferchen, K; Song, BA; Chou, C; Zhang, X; Salomonis, N; Grimes, HL. Identification and Isolation of Hematopoietic Stem Cells and Progenitors with Discrete Developmental Gene Expression Programs. Blood. 2022; 140:2856.

Zhang, X; Song, BA; Khan, MD; Ferchen, K; Chou, C; Li, G; DeZern, AE; Ghiaur, G; Halene, S; Salomonis, N; et al. Single-Cell Multiomics Reveal Hypomethylating Agent Partially Restores Hematopoiesis in a LR-MDS Patient at the Cost of Leukemic Transformation. Blood. 2022; 140:9759-9760.

Romano, L; Seu, KG; Papoin, J; Muench, DE; Konstantinidis, D; Olsson, A; Schlum, K; Chetal, K; Chasis, JA; Mohandas, N; et al. Erythroblastic islands foster granulopoiesis in parallel to terminal erythropoiesis. Blood. 2022; 140:1621-1634.

Avellino, R; Mulet-Lazaro, R; Havermans, M; Hoogenboezem, R; Smeenk, L; Salomonis, N; Schneider, RK; Rombouts, E; Bindels, E; Grimes, L; et al. Induced cell-autonomous neutropenia systemically perturbs hematopoiesis in Cebpa enhancer-null mice. Blood Advances. 2022; 6:1406-1419.

Díaz, PC; Chou, C; Mistry, J; Khan, MD; Salomonis, N; Grimes, HL; Trowbridge, J. 3055 – METALLOTHIONEIN 1 (MT1) AS A TARGETABLE DEPENDENCY IN ACUTE MYELOID LEUKEMIA. Experimental Hematology. 2022; 111:s72.

Leighton Grimes, H; Ferchen, K; Salomonis, N; Song, B; Zhang, X. 2007 – IDENTIFICATION AND ISOLATION OF HEMATOPOIETIC STEM CELLS AND PROGENITORS WITH DISCRETE DEVELOPMENTAL GENE EXPRESSION PROGRAMS. Experimental Hematology. 2022; 111:s35.

Song, B; Ferchen, K; Chou, C; Zhang, X; Steele, H; Herro, R; Salomonis, N; Grimes, HL. 3194 – LIVE BACTERIAL LIGANDS PROGRAM CORE HEMATOPOIETIC GENE EXPRESSION. Experimental Hematology. 2022; 111:s142.

Bono, C; Guerrero, P; Jordán-Pla, A; Erades, A; Salomonis, N; Grimes, HL; Gil, ML; Yáñez, A. GM-CSF Programs Hematopoietic Stem and Progenitor Cells During Candida albicans Vaccination for Protection Against Reinfection. Frontiers in Immunology. 2021; 12:790309.

Zhang, X; Grimes, HL. Why Single-Cell Sequencing Has Promise in MDS. Frontiers in Oncology. 2021; 11:769753.

Li, G; Song, B; Singh, H; Prasath, S; Grimes, L; Salomonis, N. scTriangulate, a game-theory based framework for optimal solutions of uni- and multimodal single-cell data. 2021; 2021.10.16.464640.

Steele, H; Song, B; Willicut, A; Grimes, HL; Herro, R. Isolation of primary immune cells from fibrotic skin, esophageal, and gut tissue. Journal of Immunological Methods. 2021; 497:113107.

Basu, J; Reis, BS; Peri, S; Zha, J; Hua, X; Ge, L; Ferchen, K; Nicolas, E; Czyzewicz, P; Cai, KQ; et al. Essential role of a ThPOK autoregulatory loop in the maintenance of mature CD4+ T cell identity and function. Nature Immunology. 2021; 22:969-982.

Serrano-Lopez, J; Hegde, S; Kumar, S; Serrano, J; Fang, J; Wellendorf, AM; Roche, PA; Rangel, Y; Carrington, LJ; Geiger, H; et al. Systemic inflammation recruits fast-acting anti-inflammatory innate myeloid progenitors from BM into lymphatics. eLife. 2021; 10:1-60.

Serrano-Lopez, J; Hegde, S; Kumar, S; Serrano, J; Fang, J; Wellendorf, AM; Roche, PA; Rangel, Y; Carrington, LJ; Geiger, H; et al. Inflammation rapidly recruits mammalian GMP and MDP from bone marrow into regional lymphatics. eLife. 2021; 10:e66190.

Zhang, J; Wu, Q; Johnson, CB; Pham, G; Kinder, JM; Olsson, A; Slaughter, A; May, M; Weinhaus, B; D’Alessandro, A; et al. In situ mapping identifies distinct vascular niches for myelopoiesis. Nature. 2021; 590:457-462.

Ye, H; Minhajuddin, M; Krug, A; Pei, S; Chou, C; Culp-Hill, R; Ponder, J; De Bloois, E; Schniedewind, B; Amaya, ML; et al. The Hepatic Microenvironment Uniquely Protects Leukemia Cells through Induction of Growth and Survival Pathways Mediated by LIPG. Cancer Discovery. 2021; 11:500-519.

Dwivedi, P; Chutipongtanate, S; Muench, DE; Azam, M; Grimes, HL; Greis, KD. SWATH-Proteomics of Ibrutinib's Action in Myeloid Leukemia Initiating Mutated G-CSFR Signaling. Proteomics: Clinical Applications. 2020; 14:e1900144.

Kwok, I; Becht, E; Xia, Y; Ng, M; Teh, YC; Tan, L; Evrard, M; Li, JL Y; Tran, HT N; Tan, Y; et al. Combinatorial Single-Cell Analyses of Granulocyte-Monocyte Progenitor Heterogeneity Reveals an Early Uni-potent Neutrophil Progenitor. Immunity. 2020; 53:303-318.e5.

Muench, DE; Olsson, A; Ferchen, K; Pham, G; Serafin, RA; Chutipongtanate, S; Dwivedi, P; Song, B; Hay, S; Chetal, K; et al. Mouse models of neutropenia reveal progenitor-stage-specific defects. Nature. 2020; 582:109-114.

Hinge, A; He, J; Bartram, J; Javier, J; Xu, J; Fjellman, E; Sesaki, H; Li, T; Yu, J; Wunderlich, M; et al. Asymmetrically Segregated Mitochondria Provide Cellular Memory of Hematopoietic Stem Cell Replicative History and Drive HSC Attrition. Cell Stem Cell. 2020; 26:420-430.e6.

Yue, L; Sharma, V; Horvat, NP; Akuffo, AA; Beatty, MS; Murdun, C; Colin, C; Billington, JM R; Goodheart, WE; Sahakian, E; et al. HDAC11 deficiency disrupts oncogene-induced hematopoiesis in myeloproliferative neoplasms. Blood. 2020; 135:191-207.

Lucas, D; Salomonis, N; Grimes, HL. Unraveling bone marrow architecture. Nature Cell Biology. 2020; 22:5-6.

DePasquale, EA K; Schnell, D; Dexheimer, P; Ferchen, K; Hay, S; Chetal, K; Valiente-Alandi, I; Blaxall, BC; Grimes, HL; Salomonis, N. cellHarmony: cell-level matching and holistic comparison of single-cell transcriptomes. Nucleic Acids Research. 2019; 47:e138.

Dwivedi, P; Muench, DE; Wagner, M; Azam, M; Grimes, HL; Greis, KD. Phospho serine and threonine analysis of normal and mutated granulocyte colony stimulating factor receptors. Scientific Data. 2019; 6:21.

DePasquale, EA K; Schnell, DJ; Van Camp, P; Valiente-Alandi, I; Blaxall, BC; Grimes, HL; Singh, H; Salomonis, N. DoubletDecon: Deconvoluting Doublets from Single-Cell RNA-Sequencing Data. Cell Reports. 2019; 29:1718-1727.e8.

Adelman, ER; Huang, HT; Roisman, A; Olsson, A; Colaprico, A; Qin, T; Lindsley, RC; Bejar, R; Salomonis, N; Grimes, HL; et al. Aging Human Hematopoietic Stem Cells Manifest Profound Epigenetic Reprogramming of Enhancers That May Predispose to Leukemia. Cancer Discovery. 2019; 9:1080-1101.

Duy, C; Teater, M; Garrett-Bakelman, FE; Lee, TC; Meydan, C; Glass, JL; Li, M; Hellmuth, JC; Mohammad, HP; Smitheman, KN; et al. Rational Targeting of Cooperating Layers of the Epigenome Yields Enhanced Therapeutic Efficacy against AML. Cancer Discovery. 2019; 9:872-889.

Park, DS; Akuffo, AA; Muench, DE; Grimes, HL; Epling-Burnette, PK; Maini, PK; Anderson, AR A; Bonsall, MB. Clonal hematopoiesis of indeterminate potential and its impact on patient trajectories after stem cell transplantation. Editor, Komarova NL. PLoS Computational Biology. 2019; 15:e1006913.

Lee, C; Rudneva, VA; Erkek, S; Zapatka, M; Chau, LQ; Tacheva-Grigorova, SK; Garancher, A; Rusert, JM; Aksoy, O; Lea, R; et al. Lsd1 as a therapeutic target in Gfi1-activated medulloblastoma. Nature Communications. 2019; 10:332.

Dwivedi, P; Muench, DE; Wagner, M; Azam, M; Grimes, HL; Greis, KD. Time resolved quantitative phospho-tyrosine analysis reveals Bruton's Tyrosine kinase mediated signaling downstream of the mutated granulocyte-colony stimulating factor receptors. Leukemia. 2019; 33:75-87.