scholarly journals Comprehensive assessment of automatic structural alignment against a manual standard, the scop classification of proteins

1998 ◽  
Vol 7 (2) ◽  
pp. 445-456 ◽  
Author(s):  
Mark Gerstein ◽  
Michael Levitt
Keyword(s):  
Structural Alignment ◽  
Comprehensive Assessment ◽  
Scop Classification

DECISION TREE BASED INFORMATION INTEGRATION FOR AUTOMATED PROTEIN CLASSIFICATION

2005 ◽  
Vol 03 (03) ◽  
pp. 717-742 ◽  
Author(s):  
ORHAN ÇAMOĞLU ◽  
TOLGA CAN ◽  
AMBUJ K. SINGH ◽  
YUAN-FANG WANG
Keyword(s):  
Protein Structure ◽  
Information Integration ◽  
Ensemble Classifier ◽  
Error Rates ◽  
Structure Comparison ◽  
Fold Level ◽  
The Family ◽  
Scop Classification ◽  
The Individual

We propose a novel technique for automatically generating the SCOP classification of a protein structure with high accuracy. We achieve accurate classification by combining the decisions of multiple methods using the consensus of a committee (or an ensemble) classifier. Our technique, based on decision trees, is rooted in machine learning which shows that by judicially employing component classifiers, an ensemble classifier can be constructed to outperform its components. We use two sequence- and three structure-comparison tools as component classifiers. Given a protein structure and using the joint hypothesis, we first determine if the protein belongs to an existing category (family, superfamily, fold) in the SCOP hierarchy. For the proteins that are predicted as members of the existing categories, we compute their family-, superfamily-, andfold-level classifications using the consensus classifier. We show that we can significantly improve the classification accuracy compared to the individual component classifiers. In particular, we achieve error rates that are 3–12 times less than the individual classifiers' error rates at the family level, 1.5–4.5 times less at the superfamily level, and 1.1–2.4 times less at the fold level.

scholarly journals Ranking of Urban Areas for the Comprehensive Assessment of Fire Damage

2020 ◽  
Vol 16 (4) ◽  
pp. 1239-1253
Author(s):  
Ivan D. Oparin ◽  
Aleksandr A. Iashin
Keyword(s):  
Rural Areas ◽  
Urban Areas ◽  
Objective Assessment ◽  
Comprehensive Assessment ◽  
Economic Damage ◽  
Fire Damage ◽  
Ranking Methods ◽  
Macroeconomic Indicators ◽  
Analytical Research

One of the most important causes of partial or complete destruction of property is fire. Social and economic damage from fire substantially reduces the regional macroeconomic indicators. Thus, a complete and objective assessment of fire damage is a necessity. We hypothesise that a comprehensive assessment of fire damage significantly depends on the characteristics of areas and facilities, where the fire occurred. Such comprehensive assessment should necessarily include the ranking of urban areas and consider the characteristics of facilities located there. We noted that areas and facilities with heterogeneous functions are characterised by increased fire damage (partial or complete). We applied analytical research methods, as well as classification, typology and ranking methods. Based on a detailed analysis of domestic and foreign experience in the field of zoning and ranking of areas, we created a classification of facilities and areas for the comprehensive assessment of fir e damage . A s a result , we constructed a map of Ekaterinburg areas, taking into account the issues of the comprehensive assessment of fire damage. On the example of Ekaterinburg, we analysed atypical conjunctions of facilities and areas and proposed an index for adjusting complex fire damage. We suggested a simple and versatile approach to ranking areas that considers the heterogeneity of facilities and areas. Additionally, we analysed this phenomenon and its impact on the comprehensive assessment of fire damage. A promising direction for further research is the examination of the comprehensive assessment of fire damage in rural areas.

scholarly journals Selection of Comprehensive Assessment Categories Based on the International Classification of Functioning, Disability, and Health for Elderly Patients with Heart Failure: A Delphi Survey among Registered Instructors of Cardiac Rehabilitation

2021 ◽  
Vol 2021 ◽  
pp. 1-9
Author(s):  
Shigehito Shiota ◽  
Makiko Naka ◽  
Toshiro Kitagawa ◽  
Takayuki Hidaka ◽  
Naoki Mio ◽  
...  
Keyword(s):  
Heart Failure ◽  
Occupational Therapy ◽  
Elderly Patients ◽  
Cardiac Rehabilitation ◽  
Comprehensive Assessment ◽  
Delphi Survey ◽  
International Classification Of Functioning ◽  
Disability And Health ◽  
Patients With Heart Failure

The development of a comprehensive assessment tool based on the International Classification of Functioning, Disability, and Health (ICF) for elderly patients with heart failure is urgently required. In this study, we classified the ICF categories relevant to heart failure in the elderly through a Delphi survey (3-step questionnaire survey) of 108 Registered Instructors of Cardiac Rehabilitation in the Hiroshima Prefecture. Questionnaires were conducted using postal mail or a web-based platform. The survey was conducted three times, and the survey results were provided as feedback to the participants in the second and third rounds. More than 80% of the respondents selected categories according to the ICF core set methodology. Data were collected from December 2018 to March 2019, with 67, 54, and 46 participants in the first, second, and third rounds, respectively. A total of 58 ICF items were adopted based on the results: 27 body function items, 4 body structure items, 20 activity and participation items, and 7 environmental factor items. This study is characterised by the inclusion of a large number of ICF items for mental function. This result seems to be influenced by the increasing interest in cognitive dysfunction in elderly patients with heart failure. The ICF categories selected for this study allow for a comprehensive assessment of clients for occupational therapy. The findings of this study are expected to provide a basis for an outcome measure to determine the effectiveness of occupational therapy for these patients.

scholarly journals STRUCTURAL CLASSIFICATION OF PROTEINS USING IMAGE BASED MACHINE LEARNING

2021 ◽  
Author(s):  
Daniel Franklin
Keyword(s):  
Machine Learning ◽  
Linear Chain ◽  
Three Dimensional ◽  
Structural Classification ◽  
Class Prediction ◽  
Novel Approach ◽  
Scop Classification ◽  
Structural Classification Of Proteins ◽  
Better Than

Classification of proteins is an important area of research that enables better grouping of proteins either by their function, evolutionary similarities or in their structural makeup. Structural classification is the area of research that this thesis focuses on. We use visualizations of proteins to build a machine learning class prediction model, that successfully classifies proteins using the Structural Classification of Proteins (SCOP) framework. SCOP is a well-researched classification with many approaches using a representation of a proteins secondary structure in a linear chain of structures. This thesis uses a novel approach of rendering a three dimensional visualization of the protein itself and then applying image based machine learning to determine a protein’s SCOP classification. The resulting convolutional neural network (CNN) method has achieved average accuracies in the range 78-87% on the 25PDB dataset, which is better than or equal to the existing methods.

scholarly journals Identification of Restricting Criteria for Comprehensive Assessment of Logistics Chains in Intermodal Transport

2018 ◽  
Vol 9 (2) ◽  
pp. 18-27 ◽  
Author(s):  
Stefan Kudlac ◽  
Jozef Gasparik ◽  
Milan Dedik ◽  
Petr V. Kurenkov
Keyword(s):  
Negative Impact ◽  
Comprehensive Assessment ◽  
Intermodal Transport ◽  
Scientific Methods ◽  
Effective Functioning ◽  
Logistic Chain

Abstract An effective functioning of logistic chains through the use of intermodal transport inevitably necessitates elimination of potential constraints, which have a negative impact on the logistic chains implementation. The objective of the contribution is the analysis, definition as well as classification of constraints related to the logistic chains in the intermodal transport, which should enable to compare levels of constraints in different alternatives of the logistic chain implementation. Based on the comparison of the restriction levels, it is possible to select a more convenient way of the logistic chain implementation. The defined relevant constraints are assessed using scientific methods. These identified constraints have formed the basis for establishing a methodology, which enables to determine weights of constraints as well as to compare their levels on the basis of specific needs of entities.

scholarly journals Comprehensive assessment of the efficiency of high-rise construction projects in the form of urban blocks

2018 ◽  
Vol 33 ◽  
pp. 01048
Author(s):  
Alexandr Orlov ◽  
Irina Chubarkina
Keyword(s):  
Mathematical Model ◽  
Construction Projects ◽  
Comprehensive Assessment ◽  
Point Of View ◽  
Economic Point ◽  
High Rise ◽  
Functional Distribution

The paper is dedicated to main modern trends in the area of high-rise construction. The classification of buildings and structures by height is given. Functional distribution by the height of buildings is presented. A review of positive and negative aspects of high-rise construction from the economic point of view is given. On the basis of the data obtained, it is proposed to build up residential microdistricts in the form of urban blocks. A plan of microdistricts development is presented. It takes into account urban blocks and includes their main characteristics. An economic and mathematical model was developed to carry out a comprehensive assessment of the effectiveness of high-rise construction projects.

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