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- 저자 : Strum,M. (검색결과 3 건)
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Strum, John S.,Nwosu, Charles C.,Hua, Serenus,Kronewitter, Scott R.,Seipert, Richard R.,Bachelor, Robert J.,An, Hyun Joo,Lebrilla, Carlito B. American Chemical Society 2013 ANALYTICAL CHEMISTRY - Vol.85 No.12
<P>Site-specific glycosylation (SSG) of glycoproteins remains a considerable challenge and limits further progress in the areas of proteomics and glycomics. Effective methods require new approaches in sample preparation, detection, and data analysis. While the field has advanced in sample preparation and detection, automated data analysis remains an important goal. A new bioinformatics approach implemented in software called GP Finder automatically distinguishes correct assignments from random matches and complements experimental techniques that are optimal for glycopeptides, including nonspecific proteolysis and high mass resolution liquid chromatography/tandem mass spectrometry (LC/MS/MS). SSG for multiple N- and O-glycosylation sites, including extensive glycan heterogeneity, was annotated for single proteins and protein mixtures with a 5% false-discovery rate, generating hundreds of nonrandom glycopeptide matches and demonstrating the proof-of-concept for a self-consistency scoring algorithm shown to be compliant with the target-decoy approach (TDA). The approach was further applied to a mixture of N-glycoproteins from unprocessed human milk and O-glycoproteins from very-low-density-lipoprotein (vLDL) particles.</P><P><B>Graphic Abstract</B> <IMG SRC='http://pubs.acs.org/appl/literatum/publisher/achs/journals/content/ancham/2013/ancham.2013.85.issue-12/ac4006556/production/images/medium/ac-2013-006556_0005.gif'></P><P><A href='http://pubs.acs.org/doi/suppl/10.1021/ac4006556'>ACS Electronic Supporting Info</A></P>
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Identification and Accurate Quantitation of Biological Oligosaccharide Mixtures
Strum, John S.,Kim, Jaehan,Wu, Shuai,De Leoz, Maria Lorna A.,Peacock, Kyle,Grimm, Rudolf,German, J. Bruce,Mills, David A.,Lebrilla, Carlito B. American Chemical Society 2012 ANALYTICAL CHEMISTRY - Vol.84 No.18
<P>Structure-specific characterization and quantitation is often required for effective functional studies of oligosaccharides. Inside the gut, HMOs are preferentially bound and catabolized by the beneficial bacteria. HMO utility by these bacteria employs structure-specific catabolism based on a number of glycosidases. Determining the activity of these enzymes requires accurate quantitation of a large number of structures. In this study, we describe a method for the quantitation of human milk oligosaccharide (HMO) structures employing LC/MS and isotopically labeled internal standards. Data analysis was accomplished with a newly developed software tool, LC/MS Searcher, that employs a reference structure library to process LC/MS data yielding structural identification with accurate quantitation. The method was used to obtain a meta-enzyme analysis of bacteria, the simultaneous characterization of all glycosidases employed by bacteria for the catabolism of milk oligosaccharides. Analysis of consumed HMO structures confirmed the utility of a β-1,3-galactosidase in <I>Bifidobacterium longum subsp. infantis</I> ATCC 15697 (<I>B. infantis</I>). In comparison, <I>Bifidobacterium breve</I> ATCC 15700 showed significantly less HMO catabolic activity compared to <I>B. infantis</I>.</P><P><B>Graphic Abstract</B> <IMG SRC='http://pubs.acs.org/appl/literatum/publisher/achs/journals/content/ancham/2012/ancham.2012.84.issue-18/ac301128s/production/images/medium/ac-2012-01128s_0002.gif'></P><P><A href='http://pubs.acs.org/doi/suppl/10.1021/ac301128s'>ACS Electronic Supporting Info</A></P>
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A Recursive High Level Synthesis System
Wang,J. C.,Teruya,M. Y.,Neto,J. V. Vale,Strum,M.,Jerraya,A. A. 대한전자공학회 1997 ICVC : International Conference on VLSI and CAD Vol.5 No.1
A hierarchical high level synthesis (HHLS) system, such as AMICAL, allows the obtaining of an architecture for a circuit from its behavioral description, written as a hierarchy of procedures and function calls, proper of large circuits. When specific modules are synthesized and reused as basic hardware modules in another HLS session, the resulting architecture may be inefficient due to operations overlap among the allocated hardware modules. This paper presents the structure of a CAD system that treats this problem by generating new hardware modules through a set of transformations to be applied to existing modules in an original library. We call the procedure of generating and reusing these new modules recursive high level syntheses (RHLS) which leads to a more efficient architecture. We propose a cost function that evaluates the quality of each architecture, taking into account area and time, and we present criteria to select the most promising transformation. The methodology is applied to a motor controller example (PID), showing its feasibility.
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