KNOWLEDGE-BASED SIMULATION OF REGULATORY ACTION IN LAMBDA PHAGE

1995 ◽  
Vol 04 (04) ◽  
pp. 511-523 ◽  
Author(s):  
TOMOAKI SHIMADA ◽  
MASAMI HAGIYA ◽  
MASANORI ARITA ◽  
SHIN-YA NISHIZAKI ◽  
CHEW LIM TAN
Keyword(s):  
Computational Analysis ◽  
Discrete Event ◽  
Analysis Data ◽  
Regulatory Action ◽  
Developmental Pathways ◽  
Lambda Phage ◽  
E Coli ◽  
Knowledge Based ◽  
Chemical Equations ◽  
Precise Prediction

We have developed a knowledge-based but partially analytic simulation system. This system simulates regulatory action in lambda phage, a virus which infects E. coli. Specifically, we simulated the decision between its two developmental pathways, lytic and lysogenic growth. Our model is composed of two levels: roughly abstracted level and precisely abstracted level. The former level is discrete-event and knowledge-based. It covers overall regulations inside lambda phage in qualitative representation. On the other hand, the latter is based on quantitative chemical equations describing the sensitive bifurcation within pathways. In this way, qualitatively clear overview of regulatory action is efficiently simulated using knowledge base, and only the unpredictable part is analytically simulated in detail. This system can output not only input knowledge but also precise prediction by computational analysis, data which help molecular biologists find new theories of regulatory actions.

Using Object-Oriented Frame Language for Realizing Discrete Event Simulation

1996 ◽  
Author(s):  
Ming Dong ◽  
Jianzhong Cha ◽  
Mingcheng E
Keyword(s):  
Knowledge Base ◽  
Discrete Event Simulation ◽  
Discrete Event ◽  
Object Oriented ◽  
Simulation Models ◽  
Activity Cycle ◽  
Event Simulation ◽  
Knowledge Based ◽  
Inference Engines ◽  
Reasoning About Knowledge

Abstract In this paper, we realize knowledge-based discrete event simulation model’s representation, reasoning and implementation by means of object-oriented(OO) frame language. Firstly, a classes library of simulation models is built by using the OO frame language. And then, behaviours of simulation models can be generated by inference engines reasoning about knowledge base. Lastly, activity cycle diagrams can be used to construct simulation network logic models by connecting the components classes of simulation models. This kind of knowledge-based simulation models can effectively solve the modeling problems of complex and ill-structure systems.

scholarly journals Metalloadsorption by Escherichia coliCells Displaying Yeast and Mammalian Metallothioneins Anchored to the Outer Membrane Protein LamB

1998 ◽  
Vol 180 (9) ◽  
pp. 2280-2284 ◽  
Author(s):  
Carolina Sousa ◽  
Pavel Kotrba ◽  
Tomas Ruml ◽  
Angel Cebolla ◽  
Víctor De Lorenzo
Keyword(s):  
Membrane Protein ◽  
Outer Membrane ◽  
Outer Membrane Protein ◽  
Metal Binding ◽  
Wild Type ◽  
Lambda Phage ◽  
E Coli ◽  
Hybrid Proteins ◽  
Mammalian Metallothioneins

ABSTRACT Yeast (CUP1) and mammalian (HMT-1A) metallothioneins (MTs) have been efficiently expressed in Escherichia coli as fusions to the outer membrane protein LamB. A 65-amino-acid sequence from the CUP1 protein of Saccharomyces cerevisiae (yeast [Y] MT) was genetically inserted in permissive site 153 of the LamB sequence, which faces the outer medium. A second LamB fusion at position 153 was created with 66 amino acids recruited from the form of human (H) MT that is predominant in the adipose tissue, HMT-1A. Both LamB153-YMT and LamB153-HMT hybrids were produced in vivo as full-length proteins, without any indication of instability or proteolytic degradation. Each of the two fusion proteins was functional as the port of entry of lambda phage variants, suggesting maintenance of the overall topology of the wild-type LamB. Expression of the hybrid proteins in vivo multiplied the natural ability of E. colicells to bind Cd2+ 15- to 20-fold, in good correlation with the number of metal-binding centers contributed by the MT moiety of the fusions.

scholarly journals Knowledge-Based Planning and Controlling with Methods of Artificial Intelligence to Increase Efficiency in IT Projects

2021 ◽  
Author(s):  
Sascha Brüggen ◽  
◽  
Alexander Holland ◽  
Keyword(s):  
Artificial Intelligence ◽  
Research Question ◽  
Discrete Event ◽  
It Projects ◽  
Event Simulation ◽  
Knowledge Based ◽  
It Project ◽  
Knowledge Based Planning ◽  
Quantitative Results ◽  
The One

Because the success of IT projects in companies is increasingly becoming a competitive factor, this paper aims to analyze how knowledge-based tasks in an IT project can be supported with the help of artificial intelligence methods to carry out the IT project more efficiently. To answer the research question, a qualitative method in form of expert interviews will be used on the one hand and a discrete event simulation on the other hand to achieve quantitative results. In the simulation, it is intended to create a model without the use of AI elements. Under the same conditions, a project will be developed to support the knowledge-based tasks in the second step. The different constellations of the model can be adapted depending on the focus and the question. These models will be operationalized with parameters and will be compared under different constellations to measure the efficiency quantitatively. The findings of this study allow a statement whether it makes sense to support specific tasks in an IT project with the help of AI methods.

scholarly journals The knowledge and perceptions regarding antibiotic stewardship of the interns rotating at the Bloemfontein Academic Complex

2021 ◽  
Vol 63 (1) ◽  
Author(s):  
Anke Archer ◽  
Marna Blom ◽  
Renette De Lange ◽  
Esther Jansen van Vuuren ◽  
Theunis E. Kellerman ◽  
...  
Keyword(s):  
Antibiotic Treatment ◽  
Antibiotic Stewardship ◽  
Cost Effective ◽  
Cross Sectional Study ◽  
Medical Doctors ◽  
Cross Sectional ◽  
E Coli ◽  
Knowledge Based ◽  
Self Administered Questionnaire

Background: Antibiotic resistance (ABR) is a global problem with the overuse of antibiotics accelerating this process. Antibiotic stewardship aims to optimise antibiotic treatment to enable cost-effective therapy and improve patients’ outcome whilst limiting ABR. The study aimed to evaluate intern medical doctors’ knowledge and perceptions about antibiotic stewardship and their perceptions regarding education on relevant topics.Methods: This was a cross-sectional study on interns rotating at Bloemfontein Academic Complex. An anonymous, self-administered questionnaire was completed. The questionnaire recorded demographic information, perception and knowledge of antibiotic stewardship, and the quality of education as perceived by the interns.Results: Of the 120 possible participants, 92 (76.7%) responded to all or part of the questionnaire. The median age of the respondents was 25 years, and 56.7% of the respondents were female. The mean score for the knowledge-based case scenarios was 5.4 out of 10. Only 4.4% participants could manage a drip site infection correctly, whilst 18.5% could treat Escherichia coli (E. coli) bacteraemia. The interns perceived that they have a lack of training and preparedness in certain areas of prescribing antibiotics. Though 77.2% of the interns had received education on starting antibiotic treatment, 29.3% claimed to be unsure when to start antibiotic therapy. Interns indicated that formal lectures (81.3%) and bedside tutorials (86.7%) have a high educational value.Conclusion: Intern medical doctors do not have sufficient knowledge to establish antibiotic stewardship but have a desire for improvement. The results identified specific areas where better antibiotic training is required.

The investigation on infoecology in the field of smart manufacturing

2020 ◽  
Vol ahead-of-print (ahead-of-print) ◽  
Author(s):  
Asefeh Asemi ◽  
Andrea Ko
Keyword(s):  
Graph Mining ◽  
Scientific Evidence ◽  
Research Priorities ◽  
Analysis Data ◽  
Smart Manufacturing ◽  
Future Research ◽  
Content Type ◽  
Knowledge Based ◽  
Future Work ◽  
Start Ups

PurposeThe present study is aimed to determine the infoecology of scientific articles in the field of smart manufacturing (SM). The researchers designed a general framework for the investigation of infoecology.Design/methodology/approachThe qualitative and quantitative data collection methods are applied to collect data from the Scopus and experts. The bibliometric technique, clustering and graph mining are applied to analysis data by Scopus data analysis tools, VOSviewer and Excel software.FindingsIt is concluded that researchers paid attention to “Flow Control”, “Embedded Systems”, “IoT”, “Big Data” and “Cyber-Physical System” more than other infocenose. Finally, a thematic model presented based on the infoecology of SM in Scopus for future studies. Also, as future work, designing a “research-related” metamodel for SM would be beneficial for the researchers, to highlight the main future research directions.Practical implicationsThe results of the present study can be applied to the following issues: (1) To make decisions based on research and scientific evidence and conduct scientific research on real needs and issues in the field of SM, (2) Holding the workshops on infoecology to determine research priorities with the presence of experts in related industries, (3) Determining the most important areas of research in order to improve the index of applied research, (4) Assist in prioritizing research in the field of SM to select a set of research and technological activities and allocate resources effectively to these activities, (5) Helping to increase the relationship between research and technological activities with the economic and long-term goals of industry and society, (6) Helping to prioritize the issues of SM in research and technology in order to target the allocation of financial and human capital and solving the main challenges and take advantage of opportunities, (7) Helping to avoid fragmentation of work and providing educational infrastructure based on prioritized research needs and (8) Helping to hold start-ups and the activities of knowledge-based companies based on research priorities in the field of SM.Originality/valueThe analysis results demonstrated that the information ecosystem of SM studies dynamically developed over time. The continuous conduction flow of scientific studies in this field brought continuous changes into the infoecology of this field.

Isolation of trans-acting genes that enhance soluble expression of scFv antibodies in the E. coli cytoplasm by lambda phage display

2007 ◽  
Vol 321 (1-2) ◽  
pp. 164-173 ◽  
Author(s):  
Raphael Levy ◽  
Ian J. Molineux ◽  
Brent L. Iverson ◽  
George Georgiou
Keyword(s):  
Phage Display ◽  
Soluble Expression ◽  
Lambda Phage ◽  
E Coli

scholarly journals Towards Single-Copy Gene Expression Systems Making Gene Cloning Physiologically Relevant: Lambda InCh, a Simple Escherichia coli Plasmid-Chromosome Shuttle System

2000 ◽  
Vol 182 (3) ◽  
pp. 842-847 ◽  
Author(s):  
Dana Boyd ◽  
David S. Weiss ◽  
Joseph C. Chen ◽  
Jon Beckwith
Keyword(s):  
Escherichia Coli ◽  
Attachment Site ◽  
Single Copy ◽  
Single Copy Gene ◽  
Expression Systems ◽  
Lambda Phage ◽  
E Coli ◽  
Copy Gene ◽  
Coli Plasmid ◽  
Shuttle System

ABSTRACT We describe a simple system for reversible, stable integration of plasmid-borne genes into the Escherichia coli chromosome. Most ordinary E. coli strains and a variety of pBR322-derived ampicillin-resistant plasmids can be used. A single genetic element, a lambda phage, is the only specialized vector required. The resultant strains have a single copy of the plasmid fragment inserted stably at the lambda attachment site on the chromosome, with nearly the entire lambda genome deleted.

BOUND WATER, INOSITOL, AND THE BIOSYNTHESIS OF TEMPERATE AND VIRULENT BACTERIOPHAGES BY AIR-DRIED ESCHERICHIA COLI

1965 ◽  
Vol 11 (2) ◽  
pp. 141-150 ◽  
Author(s):  
S. J. Webb ◽  
M. D. Dumasia ◽  
J. Singh Bhorjee
Keyword(s):  
Water Content ◽  
Bound Water ◽  
Rapid Decline ◽  
Lambda Phage ◽  
E Coli ◽  
G Cell ◽  
A Cell ◽  
Infected Cells ◽  
Bound Water Content ◽  
Phage Inactivation

The effect of relative humidity (R.H.) and inositol on the capacity of semidried cells of E. coli B to manufacture five bacteriophages, together with the effect of drying on the vegetative phages of infected cells, has been studied. Also, the action of drying and inositol on the induction of lysis and production of lambda phage by E. coli K12 has been examined. It was found that the bound-water content of a cell determined the response of all phenomena to drying. As the R.H. was lowered from 70%, where the bound-water content is approximately 25 g/100 g cell solids, to 40% (10 g/100 g cell solids) a rapid decline in the resistance of both the capacity and vegetative phage occurred. In addition, the extent of vegetative phage inactivation was found to depend on the time after infection and prior to drying. All vegetative phages showed their maximum sensitivity immediately and up to 7 minutes after infection, then their sensitivity decreased and maximal stability occurred 15 minutes after infection. Inositol completely prevented capacity or vegetative phage inactivation under the conditions described. Desiccation was found to induce the lysis of E. coli K12 and the production of lambda phage. In terms of the percentage of viable cells lysed a greater proportion of the cells surviving desiccation at 30% R.H. was found to undergo lysis than those desiccated at 70% R.H., or at all R.H. levels in the presence of inositol.

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