Engineer Assistant

Keiji Takamoto

**********@*****.***

** *** **** **********, ** 07039, Phone 201-***-****

Seeking a position involved in biomedical research area. I have a strong

academic research background and I am looking to transition to a

challenging biomedical research position.

Qualifications

Completed many analytical technology development projects in both

computational and experimental areas. Long experience in working within

large team. Good team player. Strong problem solving capabilities.

. Solid experience in analytical technologies including HPLC, LC-MS/MS,

separation technologies and biophysical analyses.

. Strong skills and experience in analytical algorithms and their

developments.

. Expert in data analyses including multivariate linear/non-linear

modeling, bioinformatics.

Professional Experiences

Expertise in analytical methods, worked with LC-MS/MS, MS database

search, 2D-DIGE, Edman sequencing, HPLC, FPLC, biophysical analyses (NMR, X-

ray crystallography, AUC, DLS, SAXS). Long experiences in analytical

algorithm developments. Completed many technology development projects.

Five US patents were awarded as the results of completion of the projects

including development of 2D-DIGE analysis algorithms and software.

Albert Einstein College of Medicine (2009-present) : Research assistant

professor

. Study of B-cell population dynamics triggered by immunization

. Protein footprinting technology development

. Bioinformatics projects on protein sequences and structures

. DNA nanostructure based vaccine delivery platform development

Devised novel idea of the B-cell population dynamics study triggered by

immunization and designed experimental design for the next-generation

sequencing studies, protocol for the LC-MS/MS studies, analyses for the

large dataset generated from next-gen sequencing and MS studies.

Improvements in protein footprinting technologies by implementing short

dynamic exclusion windows for LC-MS/MS analyses. Surface analysis of DNA

nanostructures by AFM.

Case Western Reserve University (2005-2009) : Assistant Professor

. New strategy for the 2D-DIGE data analysis and software development

. Predictive modeling of peptide observability in LC-MS/MS analyses

. Novel strategy for the computational protein structure prediction

Established a new proteomics center and its technological developments

for proteomic research. Awarded the patent for new data analysis technology

for 2D-DIGE. Constructed the predictive models of peptide observability of

LC-MS/MS analyses. Designed and implemented the proteomics data collection

and processing pipeline system (LIMS).

Albert Einstein College of Medicine (2001~2005) : Associate

. Folding studies of large RNA molecules by footprinting, AUC and SAXS

. Protein footprinting data as the guide for the structure predictions

Invented new semi-automated computational analytical strategy for the RNA

hydroxyl radical footprinting data analyzed by sequencing gels. Discovered

the monovalent cation induced native-like folding in structured RNA

molecules by local (footprinting) and global (AUC and SAXS) measures.

NIH (1997-2000) : Visiting Fellow

. Developed the PCR microarray devices utilizing displacement/microcell

strategies.

BioMolecular Technologies, Inc. (1996-1997) : Research Engineer

. Development of C-terminal sequencer chemistry for automation.

Education

Science University of Tokyo (Japan)

. Ph.D. 1995 Pharmaceutical Science

. M.S. 1992 Biological Science

. B.S. 1990 Biological Science

U.S. Patents

. US 201********-A1: Polypeptides comprising epitopes of HIV gp41 and

methods of use.

. US 201********-A1: Systems and Methods of Analyzing Two Dimensional Gels.

. US 05521097: Method of Determining Amino Acid Sequence of Protein or

Peptide from Carboxyl-terminal.

. US 05962642: Method for Sequencing of Protein or Peptide.

. US 06046053: Method for Amino Acid Sequencing of Protein or Peptide from

carboxyl terminus.

Selected publications

1. Takamoto, K., He, Q., Morris, S. Chance, M.R., Brenowitz, M.

"Monovalent Cations Mediate Formation of Native Tertiary Structure of the

Tetrahymena thermophila Ribozyme: Implications for the Kinetics of

Folding". Nat. Struct. Biol., 9: 928-933 (2002).

2. Takamoto, K. and Chance M.R., "Radiolytic protein footprinting with mass

spectrometry to probe the structure of macromolecular complexes." Annu Rev

Biophys Biomol Struct 35:251-276 (2006).

3. Takamoto, K. & Kiselar, J., "Covalent Labeling Methods for Examining

Protein Structure and Protein Interactions" in Mass Spectrometry Analysis

for Protein-Protein Interactions and Dynamics, Wiley, New Jersey (2008)

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