scholarly journals Community Evaluation of Glycoproteomics Informatics Solutions Reveals High-Performance Search Strategies of Glycopeptide Data

2021 ◽  
Author(s):  
Rebeca Kawahara ◽  
Kathirvel Alagesan ◽  
Marshall Bern ◽  
Weiqian Cao ◽  
Robert J Chalkley ◽  
...  
Keyword(s):  
Data Analysis ◽  
Team Performance ◽  
High Performance ◽  
Serum Proteins ◽  
Search Strategies ◽  
Tandem Mass Spectra ◽  
Community Evaluation ◽  
Key Variables ◽  
The Many ◽  
Human Proteome Project

AbstractGlycoproteome profiling (glycoproteomics) remains a considerable analytical challenge that hinders rapid progress in glycobiology. The complex tandem mass spectra generated from glycopeptide mixtures require sophisticated analysis pipelines for structural determination. Diverse informatics solutions aiding the process have appeared, but their relative strengths and weaknesses remain untested. Conducted through the Human Proteome Project – Human Glycoproteomics Initiative, this community study comprising both developers and expert users of glycoproteomics software is the first to evaluate the relative performance of current informatics solutions for comprehensive glycopeptide analysis. High-quality LC-MS/MS-based glycoproteomics datasets of N- and O-glycopeptides from serum proteins were shared with all teams. The relative team performance for efficient glycopeptide data analysis was systematically established through multiple orthogonal performance tests. Excitingly, several high-performance glycoproteomics informatics solutions and tools displaying a considerable performance potential were identified. While the study illustrated that significant informatics challenges remain in the analysis of glycopeptide data as indicated by a high discrepancy between the reported glycopeptides, a substantial list of commonly reported high-confidence glycopeptides could be extracted from the team reports. Further, the team performance profiles were correlated to the many study variables, which revealed important performance-associated search settings and search output variables, some intuitive others unexpected. This study concludes that diverse informatics solutions for comprehensive glycopeptide data analysis exist within the community, points to several high-performance search strategies, and specifies key variables that may guide future software developments and assist the experimental decision-making of practitioners in glycoproteomics.

scholarly journals Community evaluation of glycoproteomics informatics solutions reveals high-performance search strategies for serum glycopeptide analysis

2021 ◽  
Author(s):  
Rebeca Kawahara ◽  
Anastasia Chernykh ◽  
Kathirvel Alagesan ◽  
Marshall Bern ◽  
Weiqian Cao ◽  
...  
Keyword(s):  
Data Analysis ◽  
High Performance ◽  
Mass Spectra ◽  
Search Strategies ◽  
High Coverage ◽  
Tandem Mass Spectra ◽  
Software Packages ◽  
Community Evaluation ◽  
Key Variables ◽  
Glycopeptide Analysis

AbstractGlycoproteomics is a powerful yet analytically challenging research tool. Software packages aiding the interpretation of complex glycopeptide tandem mass spectra have appeared, but their relative performance remains untested. Conducted through the HUPO Human Glycoproteomics Initiative, this community study, comprising both developers and users of glycoproteomics software, evaluates solutions for system-wide glycopeptide analysis. The same mass spectrometrybased glycoproteomics datasets from human serum were shared with participants and the relative team performance for N- and O-glycopeptide data analysis was comprehensively established by orthogonal performance tests. Although the results were variable, several high-performance glycoproteomics informatics strategies were identified. Deep analysis of the data revealed key performance-associated search parameters and led to recommendations for improved ‘high-coverage’ and ‘high-accuracy’ glycoproteomics search solutions. This study concludes that diverse software packages for comprehensive glycopeptide data analysis exist, points to several high-performance search strategies and specifies key variables that will guide future software developments and assist informatics decision-making in glycoproteomics.

Content and composition of phospholipids, fatty acids and sterols in commercial natural phospholipid excipients

2020 ◽  
Vol 16 ◽  
Author(s):  
Luxia Zheng ◽  
Xiong Shen ◽  
Yingchun Wang ◽  
Jian Liang ◽  
Mingming Xu ◽  
...  
Keyword(s):  
Fatty Acids ◽  
Cluster Analysis ◽  
Fatty Acid ◽  
High Performance ◽  
Comprehensive Evaluation ◽  
Phospholipid Fatty Acid ◽  
Egg Yolk ◽  
Systematic Research ◽  
Manufacturing Enterprises ◽  
The Many

Background: Phospholipids are widely used in food and pharmaceutical industry as functional excipients. In spite of the many analytical methods reported, there are very limited reports concerning systematic research and comparison of phospholipid excipients. Objective: To present a comprehensive evaluation of commercial natural phospholipid excipients (CNPEs). Methods: Seventeen batches of CNPEs from five manufacturing enterprises, isolated either from soybean or egg yolk, were investigated. The content and composition of phospholipids, fatty acids and sterols as a whole were considered as the evaluative index of CNPEs. Eight kinds of phospholipids were determined by supercritical fluid chromatography (SFC), twenty-one kinds of fatty acids were determined by gas chromatography (GC) after boron trifluoride-methanol derivatization, and nine kinds of sterols were determined by high performance liquid chromatography (HPLC) after separation and derivatization of the unsaponifiable matter. Cluster analysis was employed for classification and identification of the CNPEs. Results: The results showed that each kind of CNPEs had its characteristic content and composition of phospholipids, fatty acids and sterols. Seventeen batches of samples were divided into eight groups in cluster analysis. CNPEs of the same type from different source (soybean or egg yolk) or enterprises presented different content and composition of phospholipids, fatty acids and sterols. Conclusion: Each type of CNPEs had its characteristic content and composition of phospholipid, fatty acid and sterol. The compositions of phospholipid, fatty acid and sterol as a whole can be applied as an indicator of the quality and characteristics for CNPEs.

scholarly journals DESIGNING AN EXPERIMENT FOR EVALUATING SEATING POSITIONS IN PARALYMPIC ROWING

2020 ◽  
Vol 1 ◽  
pp. 2485-2494
Author(s):  
S. W. Eikevåg ◽  
A. Kvam ◽  
M. K. Bjølseth ◽  
J. F. Erichsen ◽  
M. Steinert
Keyword(s):  
High Performance ◽  
Substantial Impact ◽  
Rowing Performance ◽  
Rowing Ergometer ◽  
Design Challenge ◽  
The Many ◽  
Seating Position

AbstractWhen designing high performance sports equipment for Paralympic athletes, there are many unknowns for the design engineer to consider. The design challenge is an optimisation task per individual athlete. However, modelling this optimisation is difficult due to the many variables. This article presents the design of an experiment for identifying and evaluating various seating positions in Paralympic rowing by using a rowing ergometer with a modified seat. Results indicate that changing seating position has a substantial impact on per-athlete rowing performance.

scholarly journals Additive Manufacturing of Sensors for Military Monitoring Applications

Polymers ◽  
2021 ◽  
Vol 13 (9) ◽  
pp. 1455
Author(s):  
David T. Bird ◽  
Nuggehalli M. Ravindra
Keyword(s):  
Additive Manufacturing ◽  
High Performance ◽  
Sensor Technology ◽  
Distinct Advantage ◽  
Industrial Sectors ◽  
Sensor Fabrication ◽  
The Us ◽  
3D Printed ◽  
Maximum Protection ◽  
The Many

The US Department of Defense (DoD) realizes the many uses of additive manufacturing (AM) as it has become a common fabrication technique for an extensive range of engineering components in several industrial sectors. 3D Printed (3DP) sensor technology offers high-performance features as a way to track individual warfighters on the battlefield, offering protection from threats such as weaponized toxins, bacteria or virus, with real-time monitoring of physiological events, advanced diagnostics, and connected feedback. Maximum protection of the warfighter gives a distinct advantage over adversaries by providing an enhanced awareness of situational threats on the battle field. There is a need to further explore aspects of AM such as higher printing resolution and efficiency, with faster print times and higher performance, sensitivity and optimized fabrication to ensure that soldiers are more safe and lethal to win our nation’s wars and come home safely. A review and comparison of various 3DP techniques for sensor fabrication is presented.

Knowledge-Based System for Estimating Incident Clearance Duration for Maryland I-95

2018 ◽  
Vol 2672 (14) ◽  
pp. 61-72 ◽  
Author(s):  
Minsu Won ◽  
Hyeonmi Kim ◽  
Gang-Len Chang
Keyword(s):  
Preliminary Evaluation ◽  
Incident Response ◽  
Knowledge Based System ◽  
Confidence Levels ◽  
Knowledge Based ◽  
Incident Duration ◽  
Response Team ◽  
Key Variables ◽  
Incident Reports ◽  
The Many

For incident response operations to be appreciated by the general public, it is essential that responsible highway agencies are capable of providing the estimated clearance duration of a detected incident at a level sufficiently reliable for motorists to make proper decisions such as selecting a detour route. Depending on the estimated clearance duration, the incident response center can then implement proper strategies to interact with motorists, ranging from providing incident information only to executing mandatory detouring operations. This study presents a knowledge-based system, based on detailed incident reports collected by the Maryland-CHART (Coordinated Highway Action Response Team) program between years 2012 and 2016, for such needs. The proposed system features the use of interval-based estimates derived from knowledge of historical data, with different confidence levels for each estimated incident clearance duration, and its rule-based structure for convenient updates with new data and available expertise from field operators. As some key variables associated with incident duration often only become available as the clearance operations progress, the developed system with its sequential nature allows users to dynamically revise the estimated duration when additional data have been reported. The preliminary evaluation results have shown the promise of the developed system which, with its invaluable historical information, can circumvent the many data quality and availability issues which have long plagued the applicability of some state-of-the-art models on this subject.

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