SBMate: A Framework for Evaluating Quality of Annotations in Systems Biology Models

AbstractThe interests in repurposing and reusing systems biology models have been growing in recent years. Semantic annotations play an important role for this, as they provide crucial information on the meanings and functions of models. However, there are a limited number of tools that evaluate the existence or quality of such annotations. In this paper, we introduce SBMate, a python package that would serve as a framework for evaluating the quality of annotations in systems biology models. Three default metrics are provided: coverage, consistency, and specificity. Coverage checks whether annotations exist in a model. Consistency tests if the annotations are appropriate for the given model element. Finally, specificity represents how detailed the annotations are. We analyzed 1,000 curated models from the BioModels repository using the three metrics and discussed the results. Additional metrics can be easily added to extend the current version of SBMate.

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Professional dilemmas for caregivers in Turkish home care settings in Germany

BORDER CROSSING ◽

10.33182/bc.v4i1-2.517 ◽

2014 ◽

Vol 1 (1) ◽

pp. 47-56 ◽

Cited By ~ 1

Author(s):

Jan Basche

Keyword(s):

Healthcare Services ◽

Insurance Companies ◽

Or Education ◽

Migrant Communities ◽

Caregiver Relationship ◽

International Nursing ◽

Nursing Literature ◽

Intercultural Care ◽

The Given

While calling for culturally sensitive healthcare services in migrant communities, the international nursing literature on intercultural care predominantly describes nursing staff as lacking cultural competences and immigrant customers as lacking cleverness to navigate the labyrinths of national healthcare systems. Congruences in language, culture and religion in the customer-caregiver relationship can decisively improve the quality of care. However, they do not automatically guarantee smooth working processes in monocultural in-home settings. On the contrary, new problems occur here for Turkish caregivers which are unknown to the legions of native professionals who feel challenged by migrants and which go beyond differences such as age, sex, income or education. While no cultural or religious brokering is necessary between customers and personnel in the given context in Germany, new challenges arise when caregivers are expected to legally broker between customers and insurance companies or doctors. Conflicting expectations of customers and management as well as their own colliding social and professional roles put the caregivers in a quandary and must be competently managed.

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MODIFIKASI MODEL PEMBELAJARAN TEAM ASSISTED INDIVIDUALIZATION DENGAN STRATEGI PEMBELAJARAN TUGAS DAN PAKSA

Prosiding Seminar Nasional Pendidikan KALUNI ◽

10.30998/prokaluni.v2i0.58 ◽

2019 ◽

Vol 2 ◽

Author(s):

Lea Christy Restu Kinasih ◽

Dewi Fatimah ◽

Veranica Julianti

Keyword(s):

Cooperative Learning ◽

Learning Strategies ◽

Learning Process ◽

Learning Model ◽

Learning Models ◽

Classroom Learning ◽

Quality Of Learning ◽

The Given

The selection and determination of appropriate learning strategies can improve the results to be obtained from the application of classroom learning models. This writing aims to discipline students to develop individual abilities of students to be more active in the learning process and improve the quality of learning. The learning process in Indonesia in general only uses conventional learning models that make students passive and undeveloped. In order for the quality of learning to increase, the Team Assisted Individualization learning model is combined with the task learning and forced strategies. The Team Assisted Individualization cooperative learning model is one of the cooperative learning models that combines learning individually and in groups. Meanwhile, task and forced learning strategies are strategies that focus on giving assignments that require students to complete them on time so that the learning process can run effectively. Students are required to do assignments according to the given deadline. This makes students become familiar with the tasks given by the teacher. Combining or modifying the learning model of the assisted individualization team with forced and forced learning strategies is expected to be able to make students more active, disciplined, independent, creative in learning and responsible for the tasks assigned. Therefore this method of incorporation is very necessary in the learning process and can be applied to improve the quality of learning in schools.

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Integrating Safety-II into Safety Management

10.3218/4023-4 ◽

2021 ◽

Author(s):

Toni Wäfler ◽

Rahel Gugerli ◽

Giulio Nisoli

Keyword(s):

Risk Factor ◽

Safety Factor ◽

Safety Management ◽

Management Systems ◽

Safety Management Systems ◽

Safety Science ◽

Human Failure ◽

The Given ◽

Freedom Of Action

We all aim for safe processes. However, providing safety is a complex endeavour. What is it that makes a process safe? And what is the contribution of humans? It is very common to consider humans a risk factor prone to errors. Therefore, we implement sophisticated safety management systems (SMS) in order to prevent potential "human failure". These SMS provide an impressive increase of safety. In safety science this approach is labelled "Safety-I", and it starts to be questioned because humans do not show failures only. On the contrary, they often actively contribute to safety, sometimes even by deviating from a procedure. This "Safety-II" perspective considers humans to be a "safety factor" as well because of their ability to adjust behaviour to the given situation. However, adaptability requires scope of action and this is where Safety-I and Safety-II contradict each other. While the former restricts freedom of action, the latter requires room for manoeuvring. Thus, the task of integrating the Safety-II perspective into SMS, which are traditionally Safety-I based, is difficult. This challenge was the main objective of our project. We discovered two methods that contribute to the quality of SMS by integrating Safety-II into SMS without jeopardizing the Safety-I approach.

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Constrained Shape Scaling of Trimmed NURBS Surfaces

Volume 3: 11th International Conference on Design Theory and Methodology ◽

10.1115/detc99/dtm-8755 ◽

1999 ◽

Author(s):

Pifu Zhang ◽

Caiming Zhang ◽

Fuhua (Frank) Cheng

Keyword(s):

Data Exchange ◽

Surface Deformation ◽

Current Data ◽

Free Form ◽

Test Results ◽

Nurbs Surface ◽

Curvature Distribution ◽

The Given ◽

Boundary Curves

Abstract A method to scale and deform a trimmed NURBS surface while holding the shape and size of specific features (trimming curves) unchanged is presented. The new surface is formed by scaling the given surface according to the scaling requirement first; and then attaching the (original) features to the scaled NURBS surface at appropriate locations. The attaching process requires several geometric operations and constrained free-form surface deformation. The resulting surface has the same features as the original surface and same boundary curves as the scaled surface while reflecting the shape and curvature distribution of the scaled surface. This is achieved by minimizing a shape-preserving objective function which covers all the factors in the deformation process such as bending, stretching and spring effects. The resulting surface maintains a NURBS representation and, hence, is compatible with most of the current data-exchange standards. Test results on several car parts with trimming curves are included. The, quality of the resulting surfaces is examined using the highlight line model.

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Study of clay minerals effect on curing characteristics of polymer blends and physical-mechanical properties of prepared vulcanizates

MATEC Web of Conferences ◽

10.1051/matecconf/201815707010 ◽

2018 ◽

Vol 157 ◽

pp. 07010

Author(s):

Beáta Pecušová ◽

Mariana Pajtášová ◽

Zuzana Mičicová ◽

Darina Ondrušová ◽

Andrea Feriancová ◽

...

Keyword(s):

Mechanical Properties ◽

Polymer Blends ◽

Clay Minerals ◽

Structural Type ◽

Partial Replacement ◽

Curing Characteristics ◽

Dioctahedral Smectite ◽

The Common ◽

The Given

The given paper deals with the study of the properties of clay minerals, namely montmorillonite and moreover, it is focused on effect of these clay minerals on the curing characteristics of the polymer blends and the physical-mechanical properties of prepared vulcanizates. Montmorillonite is a major clay mineral which has a wide application in many industrial branches. It belongs to the group of dioctahedral smectite minerals with structural type in the ratio of 2:1. Characteristics of prepared modified and organomodified clay minerals are based on sulphur vulcanisation accelerators which are used for the preparation of real polymer blend where they represent a partial replacement of the common carbon black filler and then, the effect on the curing characteristics of polymer blends as well as physical-mechanical properties of the prepared vulcanizates are investigated. The results exhibit that the clay-based filler (modified and organomodified clay minerals) can be used as a partial replacement while the quality of the prepared blends is preserved.

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Comparison of Metabolic Network between Muscle and Intramuscular Adipose Tissues in Hanwoo Beef Cattle Using a Systems Biology Approach

International Journal of Genomics ◽

10.1155/2014/679437 ◽

2014 ◽

Vol 2014 ◽

pp. 1-6 ◽

Cited By ~ 10

Author(s):

Hyun-Jeong Lee ◽

Hye-Sun Park ◽

Woonsu Kim ◽

Duhak Yoon ◽

Seongwon Seo

Keyword(s):

Systems Biology ◽

Beef Cattle ◽

Metabolic Regulation ◽

Bos Taurus ◽

Adipose Tissues ◽

Chemokine Signaling ◽

Gene Network Analysis ◽

Chemokine Signaling Pathway ◽

Subcutaneous Adipose

The interrelationship between muscle and adipose tissues plays a major role in determining the quality of carcass traits. The objective of this study was to compare metabolic differences between muscle and intramuscular adipose (IMA) tissues in thelongissimus dorsi(LD) of Hanwoo (Bos taurus coreanae) using the RNA-seq technology and a systems biology approach. The LD sections between the 6th and 7th ribs were removed from nine (each of three cows, steers, and bulls) Hanwoo beef cattle (carcass weight of430.2±40.66 kg) immediately after slaughter. The total mRNA from muscle, IMA, and subcutaneous adipose and omental adipose tissues were isolated and sequenced. The reads that passed quality control were mapped onto the bovine reference genome (build bosTau6), and differentially expressed genes across tissues were identified. The KEGG pathway enrichment tests revealed the opposite direction of metabolic regulation between muscle and IMA. Metabolic gene network analysis clearly indicated that oxidative metabolism was upregulated in muscle and downregulated in IMA. Interestingly, pathways for regulating cell adhesion, structure, and integrity and chemokine signaling pathway were upregulated in IMA and downregulated in muscle. It is thus inferred that IMA may play an important role in the regulation of development and structure of the LD tissues and muscle/adipose communication.

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Suitable Land-Use and Land-Cover Allocation Scenarios to Minimize Sediment and Nutrient Loads into Kwan Phayao, Upper Ing Watershed, Thailand

Applied Sciences ◽

10.3390/app112110430 ◽

2021 ◽

Vol 11 (21) ◽

pp. 10430

Author(s):

Jiraporn Kulsoontornrat ◽

Suwit Ongsomwang

Keyword(s):

Land Use ◽

Ecosystem Service ◽

Land Use Changes ◽

Nutrient Export ◽

Nutrient Loads ◽

Landsat Images ◽

Svm Algorithm ◽

Crucial Information ◽

S Model

Human activity and land-use changes have affected the water quality of Kwan Phayao, Upper Ing watershed, due to the associated high sediment load and eutrophication. This study aims to identify suitable LULC allocation scenarios for minimizing sediment and nutrient export into the lake. For this purpose, the LULC status and change were first assessed, based on classified LULC data in 2009 and 2019 from Landsat images, using the SVM algorithm. Later, the land requirements of three scenarios between 2020 and 2029 were estimated, based on their characteristics, and applied to predict LULC change using the CLUE-S model. Then, actual LULC data in 2019 and predicted LULC data under three scenarios between 2020 and 2029 were used to estimate sediment and nutrient export using the SDR and NDR models. Finally, the ecosystem service change index identified a suitable LULC allocation for minimizing sediment or/and nutrient export. According to the results, LULC status and change indicated perennial trees and orchards, para rubber, and rangeland increased, while forest land and paddy fields decreased. The land requirements of the three scenarios provided reasonable results, as expected, particularly Scenario II, which adopts linear programming to calculate the land requirements for maximizing ecosystem service values. For sediment and nutrient export estimation under the predicted LULC for the three scenarios, Scenario II led to the lowest yield of sediment and nutrient exports, and provided the lowest average ESCI value among the three scenarios. Thus, the LULC allocation under Scenario II was chosen as suitable for minimizing sediment or/and nutrient export into Kwan Phayao. These results can serve as crucial information to minimize sediment and nutrient loads for land-use planners, land managers, and decision makers.

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Weak Supervision Enhanced Generative Network for Question Generation

Proceedings of the Twenty-Eighth International Joint Conference on Artificial Intelligence ◽

10.24963/ijcai.2019/528 ◽

2019 ◽

Cited By ~ 1

Author(s):

Yutong Wang ◽

Jiyuan Zheng ◽

Qijiong Liu ◽

Zhou Zhao ◽

Jun Xiao ◽

...

Keyword(s):

Question Answering ◽

Interaction Mechanism ◽

Generation System ◽

Dialogue System ◽

Question Generation ◽

Weak Supervision ◽

Weakly Supervised ◽

The Given ◽

Automatic Question Generation

Automatic question generation according to an answer within the given passage is useful for many applications, such as question answering system, dialogue system, etc. Current neural-based methods mostly take two steps which extract several important sentences based on the candidate answer through manual rules or supervised neural networks and then use an encoder-decoder framework to generate questions about these sentences. These approaches still acquire two steps and neglect the semantic relations between the answer and the context of the whole passage which is sometimes necessary for answering the question. To address this problem, we propose the Weakly Supervision Enhanced Generative Network (WeGen) which automatically discovers relevant features of the passage given the answer span in a weakly supervised manner to improve the quality of generated questions. More specifically, we devise a discriminator, Relation Guider, to capture the relations between the passage and the associated answer and then the Multi-Interaction mechanism is deployed to transfer the knowledge dynamically for our question generation system. Experiments show the effectiveness of our method in both automatic evaluations and human evaluations.

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DYNAMICS OF INFECTIOUS AND PARASITOGENIC MORBIDITY AT THE CHILDREN POPULATION IN THE RURAL DISTRICTS AND CORELATION WITH WATER FACTOR

Wiadomości Lekarskie ◽

10.36740/wlek201905214 ◽

2019 ◽

Vol 72 (5) ◽

pp. 1029-1032

Author(s):

Lubov V. Hryhorenko ◽

Volodymyr M. Baibakov ◽

Iryna A. Zayats ◽

Mykhailo V. Solomenko ◽

Oleksandr A. Romanenko

Keyword(s):

Intestinal Parasites ◽

Parasitic Infections ◽

Rural Districts ◽

Water Factor ◽

Influence Of Water ◽

Icd 10 ◽

Calcium Magnesium ◽

Sanitation Systems ◽

The Given

Introduction: Intestinal parasites are important enteric pathogens. Poverty, low quality of food and water supply and poor sanitation systems are the important factors associated with intestinal parasitic infections. These kinds of infections can be a good index for hygienic and sanitation status of the society. The aim: To study dynamics of infectious and parasitic diseases (for 2008-2013 years) among the children population in Dnipro region and to define influence of water factor on the disease and prevalence given class of illnesses. Materials and methods: Retrospective study of infectious and parasitogenic diseases (І class by ICD-10) among children population from rural districts of Dnipropetrovsk region for 2008-2013 years was carried out. Results: It was spent correlation analysis between some indicators of potable water quality of diseases of the given class in all districts. In the majority of rural districts, was shown increasing І class of diseases from (1.4 to 1.63) times in dynamics. In some districts was reveled an average correlation link between content in water of the dry residue, chlorides, sulphates, calcium, magnesium, except rigidity and iron and prevalence І class of diseases (r=0.50, p<0.001). Prevalence of the given class of diseases was correlated with рН, nitrates, oxidability in the three rural districts of Dnipropetrovsk region (r=0.74-0.89, p<0.001). Conclusions: It has been shown that the composition of drinking water consumed by the rural population remains one of the basic factors in the formation of public health in the conditions of small exposure of the influence individual indicators of salt and chemical composition. The children’s cohorts were the most sensitive to these indicators.

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The problems that face the six grade students in Kuwait state in learning science subject from the point of students and teachers view in Mubarak Al-Kabeer area: المشكلات التي تواجه طلاب الصف السادس بدولة الكويت في تعلم مادة العلوم من وجهة نظر المعلمين والطلاب في منطقة مبارك الكبير

المجلة العربية للعلوم ونشر الأبحاث مجلة العلوم التربوية والنفسية ◽

10.26389/ajsrp.n090919 ◽

2020 ◽

Vol 4 (7) ◽

Author(s):

Nuzha Abdulaziz Alrashed

Keyword(s):

Science Teachers ◽

Science Learning ◽

Sixth Grade ◽

Validity And Reliability ◽

Teaching Aids ◽

Sixth Grade Students ◽

Teachers And Students ◽

The Given ◽

Academic Year

This research aims to identify the difficulties of science learning among sixth grade students as determined and estimated by science teachers and students. To achieve the aims of this research, the researcher depends on the analysis descriptive approach. It identifies the percentages of the difficulty aspects included in questionnaires. For this purpose, the researcher designed two templates of questionnaires. First questionnaire consists of 20 items regarding the difficulties of science learning from students' perspective. Second questionnaire consists of 22 items regarding impediments of science learning from teachers' perspective. The validity and reliability of questionnaires were established. A random sample of 24 science teachers and 295 sixth grade students was used in Mubarak Al-kabeer area. The study was conducted in the second semester of the academic year 2018-2019.The findings reveal that there are no significant differences in the responses of students in different schools about the difficulties of science learning listed in the questionnaires such as the required topics quantity that forms a common difficulty for the student and the teacher in the same time , and some topics that needs longer time more than the given time in the lesson plans to explain and simplify them for the students. In light of the findings of the research were presented a number of recommendations and proposals, including: the need for attention to quantity and quality of academic content, where suitable for students in the sixth grade level and the specificity of the stage they are going through, the need to use teaching methods, activities and teaching aids, and to train in-service teachers on modern trends in science education.

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