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Protein Sequencing Tools for Biological Therapeutics

Award Number: R42GM103362
ORGANIZATION: NATIONAL INSTITUTE OF GENERAL MEDICAL SCIENCES
OPDIV: NIH
AWARD CLASS: DISCRETIONARY
AWARD ACTIVITY TYPE: SCIENTIFIC/HEALTH RESEARCH (INCLUDES SURVEYS)
PERIOD OF PERFORMANCE START DATE: 09/03/2012
PERIOD OF PERFORMANCE END DATE: 12/31/2017

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Protein Sequencing Tools for Biological Therapeutics - ¿ DESCRIPTION (provided by applicant): Mass spectrometry has become a method of choice for identifying and characterizing small quantities of proteins in complex mixtures. However, the ability to perform the identification in a high-throughput fashion has depended on the availability of high-quality protein sequence databases. This means that proteins from organisms with unsequenced or poorly sequenced genomes (e.g. peptide toxins) and proteins that modify their primary sequences rapidly in response to the environment (e.g. antibodies) have been excluded from high-throughput analysis. Widespread availability of Next Generation Sequencing (NGS) has not alleviated this problem, but rather NGS has led to a proliferation of lower quality, uncurated protein sequence databases, including personalized databases, cancer databases, and databases with uncertain assembly. The traditional division between database-search proteomics and de novo peptide sequencing no longer holds; many of the most interesting biological questions are now best addressed by data analysis that combines the best of both techniques. In this Phase II STTR project, we propose to develop two commercial software products for sequencing biologically interesting peptides and proteins, regardless of the quality of sequence databases. One product will be aimed at the peptide level, with applications to variable regions of circulating antibodies, peptide toxins, and human leukocyte antigens. The other product will be aimed at the protein level, with applications to end-to-end sequencing of purified proteins, especially therapeutic monoclonal antibodies. This system will include the peptide-level sequencer as a component, as well as tools for assembly of the peptides into the full sequence and for visualization and manual validation. The proposed project has the potential for great impact on human health in areas such as vaccine development, therapeutic antibody development, and cancer immunotherapies.


Issue Date FY	Funding FY	Legal Entity Name	Legal Entity Address	Legal Entity City	Legal Entity State	Legal Entity Zip Code	Legal Entity COUNTY	Legal Entity COUNTRY	Assistance Listing	Award Code	Budget Year	Action Date	Action Type	Action Amount

Issue Date FY: 2018 ( Subtotal = $0 )
2018	2016	PROTEIN METRICS INC.	1622 SAN CARLOS AVE, SUITE C	SAN CARLOS	CA	94070	SAN MATEO	USA	Biomedical Research and Research Training	000	4	5/7/2018	NON-COMPETING CONTINUATION	$0
														Subtotal = $0

Issue Date FY: 2016 ( Subtotal = $494,418 )
2016	2016	PROTEIN METRICS INC	POST OFFICE BOX 414	SAN CARLOS	CA	94070	SAN MATEO	USA	Biomedical Research and Research Training	000	4	6/23/2016	NON-COMPETING CONTINUATION	$494,418
														Subtotal = $494,418

Issue Date FY: 2015 ( Subtotal = $494,418 )
2015	2015	PROTEIN METRICS INC	POST OFFICE BOX 414	SAN CARLOS	CA	94070	SAN MATEO	USA	Biomedical Research and Research Training	000	3	6/30/2015	COMPETING CONTINUATION	$494,418
														Subtotal = $494,418

Grand Total All Awards = $988,836

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Protein Sequencing Tools for Biological Therapeutics

Award Number: R42GM103362

ORGANIZATION: NATIONAL INSTITUTE OF GENERAL MEDICAL SCIENCES

OPDIV: NIH

AWARD CLASS: DISCRETIONARY

AWARD ACTIVITY TYPE: SCIENTIFIC/HEALTH RESEARCH (INCLUDES SURVEYS)

PERIOD OF PERFORMANCE START DATE: 09/03/2012

PERIOD OF PERFORMANCE END DATE: 12/31/2017

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