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HIGH-THROUGHPUT ANNOTATION OF GLYCAN MASS SPECTRA

Award Number: R01GM074128
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: 06/01/2005
PERIOD OF PERFORMANCE END DATE: 05/31/2010

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HIGH-THROUGHPUT ANNOTATION OF GLYCAN MASS SPECTRA - DESCRIPTION (provided by applicant): The correct functioning of many proteins depends on glycosylation, the addition of sugar molecules (glycans) to selected amino acids in the protein. For example, cancer cells have different glycosylation patterns than ordinary cells, and there is strong evidence that glycoproteins on the surface of egg cells play an essential role in sperm binding. Despite the importance of glycosylation, there are as yet no reliable, high-throughput methods for determining the identity and location of glycans. Glycan identification is currently a manual procedure for experts, involving a combination of chemical assays and mass spectrometry. The automation of the process would have a significant impact on our understanding of this important biological process. The proposed project aims to invent chemical procedures, algorithms, and software for high-throughput analysis of glycan mass spectrometry data. The goal is to bring glycan analysis up to the level of peptide analysis within 3 years. In contrast to peptide analysis, which can leverage genomics data, glycan analysis requires the incorporation of expert knowledge of synthetic pathways, in order to limit the huge number of theoretical combinations of monosaccharides to the much smaller number that are actually synthesized in nature. The project will have to develop novel representations for the evolving expert knowledge, because an exhaustive list- analogous to the human genome- is not currently known. Along with expert knowledge, the project will develop and validate machine learning and statistical techniques for glycan identification. In particular, the project will develop methods for internally calibrating spectra, and will learn fragmentation patterns that can statistically distinguish different types of glycosidic linkages.


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: 2009 ( Subtotal = $329,306 )
2009	2009	PALO ALTO RESEARCH CENTER	3333 COYOTE HILL ROAD	PALO ALTO	CA	94304	SANTA CLARA	USA	Biomedical Research and Research Training	000	5	6/2/2009	NON-COMPETING CONTINUATION	$329,306
														Subtotal = $329,306

Issue Date FY: 2008 ( Subtotal = $329,296 )
2008	2008	PALO ALTO RESEARCH CENTER	3333 COYOTE HILL ROAD	PALO ALTO	CA	94304	SANTA CLARA	USA	Biomedical Research and Research Training	000	4	5/27/2008	NON-COMPETING CONTINUATION	$329,296
														Subtotal = $329,296

Issue Date FY: 2007 ( Subtotal = $318,904 )
2007	2007	PALO ALTO RESEARCH CENTER	3333 COYOTE HILL ROAD	PALO ALTO	CA	94304	SANTA CLARA	USA	Biomedical Research and Research Training	000	3	5/24/2007	NON-COMPETING CONTINUATION	$318,904
														Subtotal = $318,904

Issue Date FY: 2006 ( Subtotal = $324,279 )
2006	2006	PALO ALTO RESEARCH CENTER	3333 COYOTE HILL ROAD	PALO ALTO	CA	94304	SANTA CLARA	USA	Biomedical Research and Research Training	000	2	5/31/2006	NON-COMPETING CONTINUATION	$324,279
														Subtotal = $324,279

Issue Date FY: 2005 ( Subtotal = $353,067 )
2005	2005	PALO ALTO RESEARCH CENTER	3333 COYOTE HILL ROAD	PALO ALTO	CA	94304	SANTA CLARA	USA	Biomedical Research and Research Training	000	1	5/27/2005	NEW	$353,067
														Subtotal = $353,067

Grand Total All Awards = $1,654,852

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HIGH-THROUGHPUT ANNOTATION OF GLYCAN MASS SPECTRA

Award Number: R01GM074128

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: 06/01/2005

PERIOD OF PERFORMANCE END DATE: 05/31/2010

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