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Senior Scientist/Associate Director/Director-Immunology/Clinical Stud

Cupertino, California, 95014, United States
March 31, 2011

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***** **** ******, *********, ********** 95014




Areas of Focus: Biotech or Pharmaceutical Company


Remarkably astute and highly accomplished professional, with strong educational background in Molecular and Cellular Physiology, Immunology and clinical medicine with comprehensive years of work experience in biopharmaceutical industry. Proven track record of success in all aspects of polychromatic flow cytometry assay development, including cell surface assays, receptor occupancy assays, intracellular cytokine and phosphorylated protein assays, ex vivo cell manipulations, and diverse sample types, such as blood, synovial fluid, sputum, and lung lavage fluid.

- Exhibit proficiency in conducting quality control of fluorescent conjugate Ab reagents and instrument performance for longitudinal clinical studies that span multiple years.

- Demonstrate in-depth knowledge in operating flow cytometry lab under GCLP (good clinical lab practice) condition while maintaining consistent cytometry assay performance for clinical studies

- Equipped with extensive background in establishing, directing, and executing flow cytometry core lab for large-scale clinical studies using polychromatic (5-10 color) assays.

- Capacity to work effectively with clients on study planning and protocol development with scientific input, while maintaining high ethical and quality standards, professional demeanor, and cooperative attitude.

- Well-developed analytical skills, with comprehensive experience in writing and presenting evidence through completed reports, publications, and presentations to external experts in the field.

- Exemplify laboratory skills in cover flow cytometry, cell culture, immune assays, broad range of molecule biology techniques, animal models, and human sample handling as evidence through publications.

- Display outstanding communication skills.




(MD) Medical Doctor (Passed US ECFMG step 1 and 2; Qualified for residency)

Tongji Medical University, China


DIRECTOR/ASSOCIATE DIRECTOR, Cellular Analysis, The Immune Tolerance Institute Inc. 2008–2010 ~ 2010-Present

Apply dynamic leadership skills in supervising the flow core lab, comprised of PhD scientists and MS/BS associates. Execute superior management skills in directing the lab personnel; collaborate closely with clients on new study design and ongoing studies. Perform diverse tasks such as writing study proposals, supervising the ongoing sample processing, reviewing and sign off the flow data, writing and presenting study reports to clients, leading the new assay development, and improving lab to GCLP standard. Lead the development and execution of procedures for testing new lot of Ab cocktails against the old ones. Secure compatibility of data generated from different instruments. Demonstrate proficiency in conducting flow cytometry assays on frozen PBMC collected from Kidney transplant patients. Proficiently handle the flow cytometry data analysis using different flow data analysis software, such as CXP, Diva, and FlowJo.


- Played an integral role in identifying and resolving technical problems in lab process samples for cytometry assays, resulting in completion of quality data and total customer satisfaction.

- Developed incoming new Ab reagent test procedures, data analysis methods, and reagent acceptance criteria to ensure consistency of the assay performance over time.

- Took part in creating and implementing a panel of more than fifty 5-color cell surface and intracellular cytometry assays on Beckman Coulter FC500 system, which are currently used in several clinical studies to closely monitoring the immune response in patients receiving immune suppressive or immune modulatory therapies.

- Served as major contributor in the completion of multiple client sponsored assay development and study projects.

- Phagocytosis assay using fluorescent labeled bacteria

- Oxidative burst assay using bacteria and a chemical reacting with superoxide anions

- CD86 occupancy assays in patients treated with CTLA4-Ig

- 6-7 color Flow cytometry assays on frozen PBMC collected from Kidney transplant patients

- Initiated and successfully developed a panel of 6-10 color cell surface assays on LSR II to target major cell populations and functional T cell subsets, such as memory and naïve T cells, regulatory T cells, and multiple chemokine receptor expressions on these subsets.

- Devised and formulated methods and standards for matching multiple FC500 cytometers in performance and in matching LSR II to FC500 in performance.


Served as lead project manager in charge for conducting various clinical studies and directing 2–3 assistant and associate scientists. Supervised and effectively facilitated training for assistants in sample processing; thoroughly evaluated data derived from clinical studies using in-house statistical software. Maintained constant communication with clients through creation and presentation of study reports to clients. Coordinated strategic execution in managing the cytometry assay panel design that targets relevant cell surface antigens according to study diseases and drugs. Administered the assay implementation and data collection. Participated in performing data analysis and report writing in studies encompassing Asthma Allergy, Rheumatoid Arthritis, Multiple Sclerosis, Lupus, Crohn’s disease, Psoriasis, and Kidney transplantation.

Successfully completed the development of an ex vivo stimulation assay protocol to identify the biological effects of client’s candidate drug (Lipoxin analog) on cell surface markers and intracellular cytokines in granulocytes and PBMC. Comprehensively researched and identified a potential biomarker for phase one clinical trial. Classified hundreds of cell surface and soluble markers and presented results in scientific meeting and published paper on PD markers.


- Implemented the project timeline; spearheaded the development of assay panels for leukocyte phenotyping in clinical studies.

- Led the creation of new assays as needed for clients; wrote Standard Operating Procedures for clinical lab.

- Significantly involved and contributed in cytometry-related software development by providing specification.

- Earned recognition for notable performance in studying and researching Multiple Sclerosis, leading in identification of biomarkers for IFNB-1a drug responses; supervised sample process as well as analyzed and summarized large amount of cytometry, immune assay, and mass spectrometry data from the study.

- Functioned as pivotal contributor in the conceptualization and completion of 20 platelet assays for phase IV clinical trial to phenotype the biological changes on platelets induced by aspirin.

- Identified bio-response markers for client’s drug candidates, such as PKCe analogue and inert immune regulatory peptide using ex vivo drug incubation and a panel of 64 cell surface assays and 32 intracellular cytokine assays.

- Exemplified talent in developing complex cytometry assays, such as intracellular phosphorylated protein assays and T regulatory cell assays.

SCIENTIST 2001–2003


Led the execution of protocols in processing sputum, bronchial wash, and bronchial alveoli lavage for cytometry assays utilized in asthma studies. Handled the development 32 intracellular cytokine assays for application in clinical study to assess the patient’s response to immune modulator drug in autoimmune diseases.


- Developed and created specialty assays for cytometry, processing patient’s samples for specialty assays, analyzing the cytometry data from clinical studies, and interpreting the data for biological meanings.

- Proficiently handled the development and completion of training protocol to qualify the operators for clinical sample process.




- Completed research study focused on understanding the function of CD81, a tetraspanin protein, in immune responses through application of gene knockout approach, which resulted in discovery of CD81 null mice are deficient in Th2 type of immune responses and they fail to develop allergen-induced airway hyperreactivity (AHR) in a murine model of asthma, a Th2 dependent disease. By crossing CD81 null mice to antigen specific T cell receptor transgenic mice and to antigen specific B cell receptor transgenic mice, I further demonstrated that CD81 on T cells but not on B cells is essential for antigen specific T cell-B cell (antigen presenting cell) interaction. In vivo immunization, measurement of AHR, bronchoaveolar lavage, serum antibody ELISA, in vitro assay of antigen specific cellular immune responses, cell purification, in vitro T cell priming, and flow cytometer analysis used in these studies.

PH.D. THESIS WORK 1994–1998


- Conducted thorough analysis and study on functional role of a small proline-rich protein (SPRR1) in the squamous differentiation of airway epithelial cells by utilizing an in vitro cell culture model, immunocytochemistry, and molecular biology approaches, resulting in identification and correlation of SPRR1 expression with squamous differentiation and SPRR1 is incorporated into the cornified envelope of airway epithelial cells when they become terminally squamous differentiated.

- Identified fundamental function of N-terminus of SPRR1 for the incorporation into cornified envelope through deletion and site directed mutation approaches.

- Examined the signaling pathways leading to the upregulation of SPRR1 and enhancement of cornification of airway epithelial cells treated with phorbol ester.

- Took part in the construction of human trachea epithelial gene chip and identification of genes specific for differentiated trachea epithelia by microarray.


Management Training, SurroMed Inc.

Advance Course in Immunology, Stanford University

BD LSR II Operator Certification Training, BD Biosciences


American Association of Immunologist


National Research Service Award ~ American Lung Association Postdoctoral Fellowship


Microsoft Office Suite: Word, Excel, and PowerPoint

FlowJo, CXP, Diva (Flow Cytometry Software)

Reference management software and EndNote


- Grigoryev1, YA., Kurian1, SM., Nakorchevskiy, AA., Burke, JP., Campbell, D., Head, SR. Deng, J., Kantor, AB., Yates, JR., Salomon, DR., Genome-Wide Analysis of Immune Activation in Human T and B Cells Reveals Distinct Classes of Alternatively Spliced Genes. Alternate Splicing in Immunity. 2009. 4(11): 1-19.

- Kantor, AB., J. Deng, H. Lin, C. H. Becker, E. Waubant, J. R. Lacy, A. M. Perrone, D. Bennett, and S. E.Goelz. Identification of short-term pharmacodynamic effects of interferon-beta-1a in multiple sclerosis with broad-based phenotypic profiling. Journal of Neuroimmunology. 2007. 188(1-2): 103-116.

- Alters, SE, P. C. Avila, H. Govindarajan, P. Raju, J. Deng, H. A. Boushey, and Kantor AB. Phenotypic profiling of blood and airway secretions in asthmatic and healthy subjects. The Journal of Allergy and Clinical Immunology. 2002. 109: S340

- Geisert, EG., R. W. Williams, G. R. Geisert, L. Fan, A. M. Asbury, H.T. Meaker, J. Deng, and S. Levy. Increased brain size and glial cell number in CD81-null mice. Journal of Comparative Neurology. 2002. 453:22-32.

- Deng, J., R. H. DeKruyff, G. J. Freeman, D. T. Umetsu and S. Levy. Critical role of CD81 in cognate T-B cell interactions leading to Th2 responses. International Immunology 2002. 14(5): 13-523.

- Deng, J., V. P. Yeung, D. Tsitoura, R. H. DeKruyff, D. T. Umetsu, and S. Levy. Allergen-induced airway hyperreactivity is diminished in CD81-deficient mice. Journal of Immunology. 2000. 165: 5054-5061.

- Deng, J., Y. Chen, and R. Wu. Induction of cell cornification and enhanced squamous-cell marker SPRR1 gene expression by phorbol ester are regulated by different signaling pathways in human conducting airway epithelial cells. Am J Respiratory Cell and Molecular Biology. 2000. 22(5): 597-603.

- Deng, J., R. Pan, and R. Wu. Distinct roles for amino- and carboxyl-terminal sequences of SPRR1 protein in the formation of cross-linked envelopes of conducting airway epithelial cells. Journal of Biological Chemistry. 2000. 275(8): 5739-47.

- Hu, R., R. Wu, J. Deng, and D. Lau. A small proline-rich protein, spr1: Specific marker for squamous lung carcinoma. Lung Cancer, 1998. 20(1): 25-30.

- Gray, SD., RC. Carlsen, and J. Deng. Soleus muscle contractile properties in hypertensive rats. American Journal of Physiology. 1994. 267(3 pt 2): R735-R739.

- Deng, J., Z. Y. Wu, H, Ding, and K, Yang Relationship between the content of norepinepherine in plasma and peripheral tissues and blood pressure in SHR. Academia Acta of Tongji Medical University. 1991. 20(5): 309-312.

- Ding, H., Q. Zhou, J. Deng, and K, Yang. Involvement of brain angiotensin II in the pathogenesis of hypertension in SHR. Chinese Journal of Physiological Science. 1990. 6(2): 116-122.

- Deng, J. and K, Yang. Pressor effects of angiotensin II applied to the pressor region of ventraolateral surface of medulla oblongata in rabbits. Chinese Journal of Physiological Science. 1989. 5(3): 218-225.


- Deng, J., W. Wang, H. Lin, M. Roy, H. Govindarajan, M. Anderle, A. Perrone, C. H. Becker, and A. B. Kantor. Comprehensive Phenotyping for Rheumatoid Arthritis. Experimental Biology, 2004. Washington DC.

- Deng, J., AB. Kantor, H. Lin, C. H. Becker, E. Waubant, J. R. Lacy, A. M. Perrone, D. Bennett, and S. E. Goelz Comprehensive Phenotyping of Multiple Sclerosis Subjects Treated with Avonex. The American Association of Immunologist Annual Meeting, 2006. Boston, MA.


- Patent# WO2007/041245 A2: Biomarkers for multiple sclerosis and the methods of use thereof. Kantor, AB., Goelz, Susan., Deng, Jun., Lin, Hua., and Becker, Christopher.

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