Amy E. Herr, Ph.D. John D. & Catherine T. MacArthur Professor Bioengineering, University of California, Berkeley UNIVERSITY OF CALIFORNIA, Berkeley, CA 94720 BERKELEY [email protected] | herrlab.berkeley.edu EDUCATION 01/98 – 09/02 STANFORD UNIVERSITY Stanford, CA Doctor of Philosophy, Mechanical Engineering National Science Foundation Graduate Research Fellow “Isoelectric Focusing for Multi-Dimensional Separations in Microfluidic Devices” Advisors: Profs. Thomas W. Kenny & Juan G. Santiago 09/97 – 01/99 STANFORD UNIVERSITY Stanford, CA Master of Science, Mechanical Engineering National Science Foundation Graduate Research Fellow 09/93 – 06/97 CALIFORNIA INSTITUTE OF TECHNOLOGY (CALTECH) Pasadena, CA Bachelor of Science, Engineering & Applied Science with Honors APPOINTMENTS 07/19 – now JOHN D. & CATHERINE T. MACARTHUR PROFESSOR, UNIVERSITY OF CALIFORNIA, BERKELEY 07/14 – 07/19 LESTER JOHN & LYNNE DEWAR LLOYD DISTINGUISHED PROFESSOR (5-year appointment), UC BERKELEY 07/12 – 07/15 ASSOCIATE PROFESSOR, BIOENGINEERING, UNIVERSITY OF CALIFORNIA, BERKELEY 07/07 – 07/12 ASSISTANT PROFESSOR, BIOENGINEERING, UNIVERSITY OF CALIFORNIA, BERKELEY UC BERKELEY/UCSF GRADUATE GROUP IN BIOENGINEERING Directing a research group focused on design and study of microanalytical tools and methods that exploit scale-dependent physics & chemistry to address questions in the biosciences and biomedicine. Chan Zuckerberg Biohub Investigator (2017-21), National Advisory Council for Biomedical Imaging and Bioengineering (2020-23), Faculty Director of Bakar Faculty Fellows Program (2016-now), Co-Convener of Chancellor’s Advisory Committee on Life Sciences (2019-22), BioE Vice-chair for Engagement (2016- now), Director’s Council for Jacobs Institute of Design Innovation, Board Member of Chemical & Biological Microsystems Society (2013-19; Awards Chair 2016-18), Director of Bioengineering Immersion Experience (2012-22; NIH R25). NIH NANO Study Section (2013-19), Co-Director of Cold Spring Harbor Lab Single Cell Analysis Course (Instructor 2015-20), Executive Committee UC Berkeley-UCSF Graduate Group in BioE (2009-11, 2012-14, Acting Chair 2015), Editorial Advisory Boards of Analytical Chemistry, ACS Sensors, & Lab on a Chip, Advisory Board UCSF Rosenman Institute (2015-18), and committees: Undergraduate Curriculum (2007-15), Graduate Admissions (2007-14, Chair 2012-14), Undergraduate Transfer Admissions (2008, 2010-15), Undergraduate Awards (2011-15), and Faculty Advisor Society of Women Engineers (2008-now) & Graduate Women of Engineering (2013-now) 2016 Sabbatical BIODESIGN FACULTY FELLOW (External Affiliate), STANFORD UNIVERSITY, Stanford, CA EXECUTIVE PROGRAM FOR WOMEN LEADERS, STANFORD GRADUATE SCHOOL OF BUSINESS 2013-2016 CO-FOUNDER & SCIENTIFIC ADVISORY BOARD, ZEPHYRUS BIOSCIENCES (acquired by Bio-techne) 06/08– present FACULTY SCIENTIST, BIOLOGICAL SYSTEMS & ENGINEERING, LAWRENCE BERKELEY NAT’L LAB, 09/04 – 06/07 SENIOR MEMBER OF THE TECHNICAL STAFF 10/02 – 09/04 RESEARCH SCIENTIST, BIOSYSTEMS RESEARCH, SANDIA NATIONAL LABORATORIES, Livermore, CA Devised immunoaffinity techniques to assess protein expression in complex biological fluids (saliva, serum) and signaling cascades in intact single mammalian cells. Cited as outstanding mentor, team member & individual contributor. Directed technical programs ~$0.6M/yr. 01/98 – 09/02 GRADUATE RESEARCH ASSISTANT, STANFORD UNIVERSITY, Stanford, CA o Designed & validated chip-based two-dimensional electrophoretic (2DE) by serial coupling of orthogonal separation mechanisms, free solution isoelectric focusing and zone electrophoresis. o Developed and characterized rapid microfluidic isoelectric focusing (IEF) for protein analysis. o Described induced pressure gradients generated during electrokinetic flow in systems with non- uniform wall -potentials using scalar velocimetry techniques. 06/98 - 01/01 CONSULTANT AND SUMMER INTERN, CEPHEID, Sunnyvale, CA 12/95 - 09/97 UNDERGRADUATE RESEARCH ASSISTANTSHIPS, CALTECH & JPL, Pasadena, CA 06/96 - 09/96 UNDERGRADUATE RESEARCH ASSISTANT (NASA SPACE GRANT), CORNELL, Ithaca, NY Summers 93-95 OPPORTUNITY AWARD RESEARCH ASSISTANT, LUCENT TECHNOLOGIES, Orlando, FL & Madrid, Sp A.E. Herr, University of California, Berkeley 1 PEER-REVIEWED JOURNAL PUBLICATIONS ORCID: 0000-0002-6906-2985 1. S. M. Grist, A. Geldert, A. Gopal, A. Su, H. Balch, & A. E. Herr, “Current Understanding of UV-C Decontamination of N95 Filtering Facepiece Respirators”, Applied Biosafety, accepted. 2. S. M. Grist, A. P. Mourdoukoutas, A. E. Herr, “3D projection electrophoresis for single-cell immunoblotting”, Nature Communications, accepted. 3. E. Rosàs-Canyelles, A. J. Modzelewski, A. Geldert, L. He, A. E. Herr, “Multimodal detection of protein isoforms and nucleic acids from mouse preimplantation embryos”, Nature Protocols, accepted. 4. A.C. Moss & A.E. Herr, “In-gel fluorescence detection by DNA polymerase elongation”, APL Bioengineering, accepted. 5. H. D. Neira, S. Jeeawoody, A. E. Herr, "Reversible functionalization of clickable polyacrylamide gels with protein and graft copolymers", Advanced Functional Materials, 2020, accepted. 6. A. Mourdoukoutas, S. M. Grist, A. E. Her, “Rapid electrotransfer probing for improved detection sensitivity in in-gel immunoassay”, Analytical Methods, 2020, 12, 4638 – 4648. 7. E. Rosàs-Canyelles*, A. J. Modzelewski*, A. Geldert, L. He, A. E. Herr, “Assessing heterogeneity among single embryos and single blastomeres using open microfluidic design”, Science Advances, 2020, 6(17):eaay1751. doi: 10.1126/sciadv.aay1751. (*co-first authors) 8. A. Geldert, H. Huang, A.E. Herr, “Probe-target hybridization depends on spatial uniformity of initial concentration condition across large-format chips”, Scientific Reports, 2020, 10(1):8768. doi: 10.1038/s41598-020-65563-3. 9. K. Y. Tan & A. E. Herr, “Ferguson analysis of protein electromigration during single-cell electrophoresis in an open microfluidic device”, Analyst, 2020, 145(10):3732-3741. doi: 10.1039/c9an02553g. 10. S. Jeeawoody, K. Yamauchi, A. Su, & A. E. Herr “Laterally aggregated polyacrylamide gels for immunoprobed isoelectric focusing”, Analytical Chemistry, 2020, 92(4):3180-3188. doi: 10.1021/acs.analchem.9b04913. 11. A. Su, B.E. Smith, A.E. Herr, “In situ measurement of thermodynamic partitioning in open hydrogels”, Analytical Chemistry, 2020, 92(1):875-883. doi: 10.1021/acs.analchem.9b03582. 12. B. Gumuscu, A.E. Herr, “Separations-encoded microparticles for single-cell western blotting”, Lab Chip. 2020, 20(1):64-73. doi: 10.1039/c9lc00917e. 13. A. Gopal & A.E. Herr, “Multiplexed in-gel microfluidic immunoassays: characterizing protein target loss during reprobing of benzophenone-modified hydrogels”, Scientific Reports, 2019, 9(1):15389. doi: 10.1038/s41598-019- 51849-8. 14. Y. Zhang, I. Naguro, A.E. Herr, “In Situ Single-Cell Western Blot on Adherent Cell Culture”, Angewandte Chemie, 2019, 58(39):13929-13934. doi: 10.1002/anie.201906920. 15. Y. Zhang, A. Moss, K. Tan, & A.E. Herr, “Barcodes for subcellular protein localization”, perspective in News & Views section of Nature Biomedical Engineering, 2019. doi.org/10.1038/s41551-019-0430-3. 16. E. Su, S. Jeeawoody, & A.E. Herr, “Protein diffusion in materials with heterogeneous partition coefficients”, APL Bioengineering, 2019, 3(2):026101. doi: 10.1063/1.5078650. PMID: 31069338. 17. Q. Pan, K. A. Yamauchi, A. E. Herr, “Controlling dispersion during single-cell polyacrylamide gel electrophoresis in open microfluidic devices", Analytical Chemistry, 2018, 90(22):13419-13426. doi: 10.1021/acs.analchem.8b03233. 18. J. J. Kim*, P.P.Y. Chan*, J. Vlassakis, A. Geldert, and A. E. Herr, “Microparticle delivery of protein markers for single- cell western blotting from microwells”, Small, 2018, 14(48):e1802865. doi: 10.1002/smll.201802865.*equal contributors. 19. E. Sinkala*, E. Rosàs-Canyelles* & A. E. Herr, “Single-cell mobility shift electrophoresis reports protein localization to the cell membrane”, Analyst, 2018, doi: 10.1039/c8an01441h. *equal contributors 20. E. Rosàs-Canyelles, T. Dai, S. Li, & A. E. Herr, “Mouse-to-mouse variation in maturation heterogeneity of smooth muscle cells”, Lab Chip, 2018, doi: 10.1039/c8lc00216a. PMID: 29796562, PMCID: PMC6019577. 21. C-C Kang, T. Ward, J. Bockhorn, C. Schiffman, H. Huang, M. Pegram, A.E. Herr, “Electrophoretic cytopathology resolves ERBB2 forms with single-cell resolution”, npj Precision Oncology, 2018, 2:10. doi: 10.1038/s41698-018- 0052-3. PMID: 29872719, PMCID: PMC5871910 22. K. Yamauchi, A. M. Tentori, & A. E. Herr, “Arrayed isoelectric focusing using photopatterned multi-domain hydrogels”, Electrophoresis, 2018, 39(8):1040-1047. doi: 10.1002/elps.201700386. Epub 2018 Feb 20. PMID: 29385243. PMCID: PMC6106862. 23. Y. Zhang. P. Chan, & A. E. Herr, “Rapid capture and release of nucleic acids through a reversible photo-cycloaddition reaction in the psoralen-functionalized hydrogel”, Angew Chem Int Ed Engl, 2018, 57(9):2357-2361. doi: 10.1002/anie.201711441. Epub 2018 Jan 24. PMID: 29316080. PMCID: PMC5955697 24. Jung-Ming G. Lin, Chi-Chih Kang, Yun Zhou, Haiyan Huang, Amy E. Herr, and Sanjay Kumar, “Linking invasive motility to protein expression in single tumor cells”, Lab Chip, 2018, 18(2):371-384. doi: 10.1039/c7lc01008g. PMID: 29299576, PMCID: PMC5771853 25. Q. Pan & A.E. Herr, “Microwell shape-induced injection dispersion in electrophoretic cytometry”, Analytica Chimica Acta, 2018, 1000:214-222. doi: 10.1016/j.aca.2017.11.049. PMID: 29289313 26. J. Vlassakis & A. E. Herr “Joule heating-induced dispersion in open microfluidic