Eli Zunder

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Primary Appointment

Assistant Professor, Biomedical Engineering

Education

  • BA, Dartmouth College
  • PhD, University of California, San Francisco

Research Disciplines

Biochemistry, Bioinformatics and Genomics, Biotechnology, Cancer Biology, Immunology, Neuroscience

Research Interests

Single Cell Analysis

Research Description

Research in our laboratory is focused on discovering the mechanisms that control stem cell fate. Specifically, we seek to identify factors that control the progression and branch points of cellular differentiation. To accomplish this, we are building experimental and computational tools that track cell populations as they change over time, using molecular characterization at the single-cell level.

Training

  • Basic Cardiovascular Research Training Grant
  • Biotechnology Training Grant
  • Interdisciplinary Training Program in Immunology
  • Predoctoral Training in Neuroscience

Selected Publications

2021

Le, Q., Madhu, V., Hart, J. M., Farber, C. R., Zunder, E. R., Dighe, A. S., & Cui, Q. (2021). Current evidence on potential of adipose derived stem cells to enhance bone regeneration and future projection. WORLD JOURNAL OF STEM CELLS, 13(9). doi:10.4252/wjsc.v13.i9.1248

Kothari, H., Williams, C. M., McSkimming, C., Drago, F., Marshall, M. A., Garmey, J., . . . McNamara, C. A. (2021). Identification of human immune cell subtypes most responsive to IL-1β-induced inflammatory signaling using mass cytometry. SCIENCE SIGNALING, 14(673). doi:10.1126/scisignal.abc5763

2020

Alencar, G. F., Owsiany, K. M., Karnewar, S., Sukhavasi, K., Mocci, G., Nguyen, A. T., . . . Owens, G. K. (2020). Stem Cell Pluripotency Genes Klf4 and Oct4 Regulate Complex SMC Phenotypic Changes Critical in Late-Stage Atherosclerotic Lesion Pathogenesis. CIRCULATION, 142(21), 2045-2059. doi:10.1161/CIRCULATIONAHA.120.046672

Ko, M. E., Williams, C. M., Fread, K. I., Goggin, S. M., Rustagi, R. S., Fragiadakis, G. K., . . . Zunder, E. R. (2020). FLOW-MAP: a graph-based, force-directed layout algorithm for trajectory mapping in single-cell time course datasets. NATURE PROTOCOLS, 15(2), 398-420. doi:10.1038/s41596-019-0246-3

2019

Balogh, P., Adelman, E. R., Pluvinage, J. V., Capaldo, B. J., Freeman, K. C., Singh, S., . . . Goldfarb, A. N. (2020). RUNX3 levels in human hematopoietic progenitors are regulated by aging and dictate erythroid-myeloid balance. HAEMATOLOGICA, 105(4), 905-913. doi:10.3324/haematol.2018.208918

2018

Lammert, C. R., Frost, E. L., Bolte, A. C., Paysour, M. J., Shaw, M. E., Bellinger, C. E., . . . Lukens, J. R. (2018). Cutting Edge: Critical Roles for Microbiota-Mediated Regulation of the Immune System in a Prenatal Immune Activation Model of Autism. JOURNAL OF IMMUNOLOGY, 201(3), 845-850. doi:10.4049/jimmunol.1701755

2017

Han, G., Chen, S. -Y., Gonzalez, V. D., Zunder, E. R., Fantl, W. J., & Nolan, G. P. (2017). Atomic mass tag of bismuth-209 for increasing the immunoassay multiplexing capacity of mass cytometry. CYTOMETRY PART A, 91A(12), 1150-1163. doi:10.1002/cyto.a.23283

2016

Fread, K. I., Strickland, W. D., Nolan, G. P., & Zunder, E. R. (2017). AN UPDATED DEBARCODING TOOL FOR MASS CYTOMETRY WITH CELL TYPE-SPECIFIC AND CELL SAMPLE-SPECIFIC STRINGENCY ADJUSTMENT. PACIFIC SYMPOSIUM ON BIOCOMPUTING 2017, 588-598. Retrieved from https://www.webofscience.com/

Frei, A. P., Bava, F. -A., Zunder, E. R., Hsieh, E. W. Y., Chen, S. -Y., Nolan, G. P., & Gherardini, P. F. (2016). Highly multiplexed simultaneous detection of RNAs and proteins in single cells. NATURE METHODS, 13(3), 269-+. doi:10.1038/NMETH.3742

2015

Spitzer, M. H., Gherardini, P. F., Fragiadakis, G. K., Bhattacharya, N., Yuan, R. T., Hotson, A. N., . . . Nolan, G. P. (2015). An interactive reference framework for modeling a dynamic immune system. SCIENCE, 349(6244). doi:10.1126/science.1259425

Levine, J. H., Simonds, E. F., Bendall, S. C., Davis, K. L., Amir, E. -A. D., Tadmor, M. D., . . . Nolan, G. P. (2015). Data-Driven Phenotypic Dissection of AML Reveals Progenitor-like Cells that Correlate with Prognosis. CELL, 162(1), 184-197. doi:10.1016/j.cell.2015.05.047

Lujan, E., Zunder, E. R., Ng, Y. H., Goronzy, I. N., Nolan, G. P., & Wernig, M. (2015). Early reprogramming regulators identified by prospective isolation and mass cytometry. NATURE, 521(7552), 352-+. doi:10.1038/nature14274

Zunder, E. R., Lujan, E., Goltsev, Y., Wernig, M., & Nolan, G. P. (2015). A Continuous Molecular Roadmap to iPSC Reprogramming through Progression Analysis of Single-Cell Mass Cytometry. CELL STEM CELL, 16(3), 323-337. doi:10.1016/j.stem.2015.01.015

Zunder, E. R., Finck, R., Behbehani, G. K., Amir, E. -A. D., Krishnaswamy, S., Gonzalez, V. D., . . . Nolan, G. P. (2015). Palladium-based mass tag cell barcoding with a doublet-filtering scheme and single-cell deconvolution algorithm. NATURE PROTOCOLS, 10(2), 316-333. doi:10.1038/nprot.2015.020

2014

Behbehani, G. K., Thom, C., Zunder, E. R., Finck, R., Gaudilliere, B., Fragiadakis, G. K., . . . Nolan, G. P. (2014). Transient Partial Permeabilization with Saponin Enables Cellular Barcoding Prior to Surface Marker Staining. CYTOMETRY PART A, 85A(12), 1011-1019. doi:10.1002/cyto.a.22573

2012

Bodenmiller, B., Zunder, E. R., Finck, R., Chen, T. J., Savig, E. S., Bruggner, R. V., . . . Nolan, G. P. (2012). Multiplexed mass cytometry profiling of cellular states perturbed by small-molecule regulators. NATURE BIOTECHNOLOGY, 30(9), 858-U89. doi:10.1038/nbt.2317

Cheng, C. K., Gustafson, W. C., Charron, E., Houseman, B. T., Zunder, E., Goga, A., . . . Fan, Q. -W. (2012). Dual blockade of lipid and cyclin-dependent kinases induces synthetic lethality in malignant glioma. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 109(31), 12722-12727. doi:10.1073/pnas.1202492109