Peter Leopold, Ph.D.

In Maine In Massachusetts Virtual

*** ******* ********* *** ******* Ave #3 acebgx@r.postjobfree.com

Portland, ME 04101 Cambridge, MA 02138 207-***-**** (cell)

I seek an opportunity to confront quantitative dilemmas, formulate solvable problems, and solve them.

I'm a physicist-cum-analytical chemist-cum-general data scientist with a specialization in raw/big data handling

and reduction. My work has involved direct contact with analytical instrument control/data acquisition as well as

broad-based statistical inference based on massive datasets. My statistical bent is Bayesian, with a strong

emphasis on robust measures.

Business Background

In 13 years at BioAnalyte Inc., I built built the company into a go-to software partner in the bioanalytical sciences

for custom solutions to problems in data management, reduction and reporting. BioAnalyte is one of two

companies in the world with the capability of elucidating closed-format proprietary data, which enables us to

create new value in the data-intensive applications space of the analytical and life sciences industry.

I have been a Principal Investigator on 3 Phase I SBIR projects and 1 Phase II SBIR project. I have hired and

managed a team of 6 employees and contractors at BioAnalyte.

Technical Skills

I have extensive experience with raw data management, especially elucidation of proprietary binary formats. Most

of my work has involved raw data reduction, including time series analysis using standard methods: order

statistics, FFT/DFT deconvolution, Bayesian reconstruction, and fuzzy set applications.

I've built extensive multivariate analysis tools to extract knowledge/understanding from test-vs-control replicate

data. The tools operate on reduced raw data, as determined by the aforementioned signal processing. In particular,

I've developed a complementary two-analyses-in-one pair of tools – unsupervised hierarchical cluster analysis and

principle component analysis – that work on disjoint subsets of reduced data, offering presence-and-absence

parsimony simultaneous with up-and-down expression groupings.

In addition, I have direct experience in analytical instrumentation, from field service engineering to software for

instrument control systems.

Software Languages: C++, C, Java, Perl, and incidental use of bash, HTML/CSS, PHP.

Operating systems and libraries: Linux, Windows/MinGW, Qt, GNU, TCP/IP, Apache.

Contributions

As a graduate research assistant at UCSD,

I conceived of and demonstrated the efficacy of the protein folding funnels paradigm for protein folding.

As a research scientist at Bruker/ProteiGene:

I developed first software to classify bacterial based on phyloproteomics & MALDI-ToF protein

profiling.

I was the managing scientist on a team that invented of Laser Capture MALDI-ToF Mass Spectrometry.

May 2014 Resume for Peter Leopold Page 2 of 3

At BioAnalyte:

I independently elucidated most of the major raw MS binary data formats. Only one other effort in the

world has had success attempting this feat.

I designed, developed, marketed and supported ProTrawler and Regatta products for

raw data reduction and multivariate analysis for biomarker discovery based

on MS profiles of protein expression.

I specified and managed the development of ProNets, a consumable software license that licenses

software to data sets, not computers or people.

I developed and implemented MSRedux, a set of scientific visualization and data handling libraries for

agile development. I've completed over a dozen MSRedux projects, from needs analysis to

delivery and support, demonstrating the feasibility of agile principles in scientific software.

Professional

2001 – present Founder, BioAnalyte Inc.

1997 – 2001 Vice President and Principal Investigator, ProteiGene, Inc. Billerica, MA.

1995 – 1997 Software Scientist, Bruker Analytical Systems, Inc., Billerica, MA.

Education

1992 – 1995 Post-doctoral fellow, Department of Chemistry, Harvard University, Cambridge., MA.

1992 Ph. D., Physics, University of California, San Diego.

1987 M.S., Physics, University of California, San Diego.

1985 B.A., Physics and History, Georgetown University, Washington, D.C.

University Appointments

1992-1993 Teaching Fellow, Department of Chemistry, Harvard University, Cambridge, MA.

2003-2004 Adjunct Scientist, Bioscience Research Institute, University of Southern Maine, Portland, ME.

Federal Government Advisory Positions

2004, 2006 NIAID/VATID Special Program Reviewer.

Funded Proposals as Principal Investigator

1993-1995 NIGMS Post-doctoral fellowship.

1997 Rapid Identification Of Infectious Bacteria, National Institute of Environmental Health Sciences,

Phase I SBIR 1R43ES008857-01.

1997-2001 Rapid Identification Of Infectious Bacteria, National Institute of Environmental Health Sciences,

Phase II SBIR 1R43ES008857-02.

1998 “Clinical Diagnostics with MALDI-ToF Mass Spectrometry,” National Institute of Diabetes and

Digestive and Kidney Diseases, Phase I SBIR, 1R43DK054118-01.

2002 “Direct MALDI-ToF analysis of LCM-selected tissue & tumor”, National Cancer Institute, Phase

I SBIR, 1R43CA094677-01.

Selected Bibliography

Crisitan I. Ruse, Samantha Peacock, Cornel Ghiban, Keith Rivera, Darryl J. Pappin, and Peter Leopold, “A tool to

evaluate correspondence between extracted ion chromatographic peaks and peptide-spectrum

matches in shotgun proteomics experiments” Proteomics. DOI:

http://onlinelibrary.wiley.com/doi/10.1002/pmic.201300022/abstract., June, 2013.

May 2014 Resume for Peter Leopold Page 3 of 3

Jiong Yang, Peter Leopold, Roy Helmy, Craig Parish, Becky Arvary, Bing Mao, Fanyu Meng, “Design and

Appliation of an Easy to Use Oligonucleotide Mass Calculation Program,” Journal of the

American Society for Mass Spectrometry, DOI: http://link.springer.com/article/10.1007/s13361-

013-0643-8, June, 2013.

F. Pagotto, N. Corneau, C. Scherf, P. Leopold, C. Clark, J.M. Farber, “Molecular Typing and Differentiation of

Foodborne Bacterial Pathogens,” in Foodborne Pathogens: Microbiology and Molecular Biology,

P.M. Fratamico, A.K. Bhunia, J.L. Smith, eds., Horizon Press Chapter 4, 2005.

N. S. Buchanan, R. L. Hamler, P. E. Leopold, F. R. Miller, D. M. Lubman, “Mass mapping of cancer cell lysates

using electrospray time of flight mass spectrometry and Protein Trawler™ automated data

processing,” Electrophoresis, (1):248-56. 2005.

T. Williams, P.E. Leopold, S.M. Musser, “Automated Post-Processing of Electrospray LC/MS Data for Profiling

Protein Expression in Bacteria,”Anal. Chem. 74(22): 5807-13, Nov 15, 2002.

D.E. Palmer-Toy, D. A. Sarracino, D. Sgroi, R. LeVangie, P.E. Leopold, “Direct acquisition of matrix-assisted

laser Desorption/Ionization time-of-flight mass spectra from laser capture microdissected

tissues,” Clin. Chem., 46(9), 1513-6, 2000.

P.E. Leopold and D.E. Palmer-Toy “Mass Spectrometry” in Clinical Chemistry, K. Lewandrowski, ed. Lippincott,

Williams & Wilkins, Chapter 27, 2002.

S.C. Smole, L. A. King, P. E. Leopold, R.D. Arbeit, “Sample preparation of gram-positive bacteria for

identification by matrix assisted laser desorption/ionization time-of-flight mass spectrometry,” J.

Microbiol. Meth. 48:107-115, 2002.

G. C. Conway, S. C. Smole, D. A Sarracino, R. D. Arbeit, P. E. Leopold, “Phyloproteomics: Species Identification

of Enterobacteriaceae using matrix assisted laser desorption time-of flight,” J. Mol. Microbiol.

Biotechnol., 3(1) 103-112, 2001.

P.E. Leopold, E.I Shaknovich “Protein folding kinetics in the dense phase,” in Proceedings of the 26th Annual

Hawaii International Conference on System Sciences: Architecture and Biotechnology, ed. T.N.

Mudge, V. Milutinovic, L. Hunter, 1, 726-735, 1993.

P.E. Leopold, M. Montal, J.N. Onuchic “Protein folding funnels: a kinetic approach to the sequence-structure

relationship.” Proc Natl Acad Sci U S A 89(18), 8721-5, 1992.

Patents

D.E. Palmer-Toy, D. A. Sarracino, D. Sgroi, P.E. Leopold, “Methods and apparatus for cell analysis,” USPTO

#6531318, 2003.

Contact this candidate