Melissa E. Ko*, Corey M. Williams*, Kristen I. Fread, Sarah M. Goggin, Rohit S. Rustagi, Gabriela K. Fragiadakis, Garry P. Nolan & Eli R. Zunder. FLOW-MAP: a graph-based, force-directed layout algorithm for trajectory mapping in single-cell time course datasets. Nature Protocols. 2020. *contributed equally
Frei AP*, Bava FA*, Zunder ER, Hsieh EW, Chen SY, Nolan GP, Gherardini PF. Highly multiplexed simultaneous detection of RNAs and proteins in single cells. Nature Methods. 2016. *contributed equally
Spitzer MH*, Gherardini PF*, Fragiadakis GK, Bhattacharya N, Yuan RT, Hotson AN, Finck R, Carmi Y, Zunder ER, Fantl WJ, Bendall SC, Engleman EG, Nolan GP. A dynamic immune system reference map: system-wide organization with functional correlates. Science. 2015. *contributed equally
Levine JH*, Simonds EF*, Bendall SC*, Davis KL, Amir ED, Litvin O, Fienberg H, Jager A, Pinkus L, Zunder ER, Finck R, Gedman AL, Radtke I, Downing JR, Pe’er D, Nolan GP. Data-Driven Phenotypic Dissection of AML Reveals Progenitor-like Cells that Correlate with Prognosis. Cell. 2015. *contributed equally
Lujan E*, Zunder ER*, Nolan GP, Wernig M. Early regulators of iPSC reprogramming identified by a novel set of transient intermediates. Nature. 2015. *contributed equally
Zunder ER*, Lujan E*, Goltsev Y, Wernig M, and Nolan GP. A Continuous Molecular Roadmap to iPSC Reprogramming Through Progression Analysis of Single Cell Mass Cytometry. Cell Stem Cell. 2015. *contributed equally
Zunder ER*, Finck R*, Behbehani GK, Amir ED, Krishnaswamy S, Gonzalez VD, Lorang CG, Bjornson Z, Spitzer MH, Bodenmiller B, Fantl WJ, Pe’er D, Nolan GP. Palladium-based Mass-Tag Cell Barcoding with a Doublet-Filtering Scheme and Single Cell Deconvolution Algorithm. Nature Protocols. 2015. *contributed equally
Behbehani GK, Thom C, Zunder ER, Finck R, Gaudilliere B, Fragiadakis GK, Fantl WJ, Nolan GP. Transient partial permeabilization with saponin enables cellular barcoding prior to surface marker staining. Cytometry Part A. 2014.
Bodenmiller B*, Zunder ER*, Finck R*, Chen TJ, Savig ES, Bruggner RV, Simonds EF, Bendall SC, Sachs K, Krutzik PO, Nolan GP. Multiplexed mass cytometry profiling of cellular states perturbed by small-molecule regulators. Nature Biotechnology. 2012. *contributed equally
Cheng CK, Gustafson WC, Charron E, Houseman BT, Zunder ER, Goga A, Gray NS, Pollok B, Oakes SA, James CD, Shokat KM, Weiss WA, Fan QW. Dual blockade of lipid and cyclin-dependent kinases induces synthetic lethality in malignant glioma. Proceedings of the National Academy of Sciences, USA. 2012.
Zunder ER, Knight ZA, Houseman BT, Apsel B, Shokat KM. Discovery of drug-resistant and drug-sensitizing mutations in the oncogenic PI3K isoform p110alpha. Cancer Cell. 2008.
Knight ZA, Gonzalez B, Feldman ME, Zunder ER, Goldenberg DD, Williams O, Loewith R, Stokoe D, Balla A, Toth B, Balla T, Weiss WA, Williams RL, Shokat KM. A pharmacological map of the PI3-K family defines a role for p110alpha in insulin signaling. Cell. 2006.