Alternatives for jet engine control

The development of models of tensor type for a digital simulation of the quiet, clean safe engine (QCSE) gas turbine engine; the extension, to nonlinear multivariate control system design, of the concepts of total synthesis which trace their roots back to certain early investigations under this grant; the role of series descriptions as they relate to questions of scheduling in the control of gas turbine engines; the development of computer-aided design software for tensor modeling calculations; further enhancement of the softwares for linear total synthesis, mentioned above; and calculation of the first known examples using tensors for nonlinear feedback control are discussed

Machine learning and structural analysis of Mycobacterium tuberculosis pan-genome identifies genetic signatures of antibiotic resistance.

Mycobacterium tuberculosis is a serious human pathogen threat exhibiting complex evolution of antimicrobial resistance (AMR). Accordingly, the many publicly available datasets describing its AMR characteristics demand disparate data-type analyses. Here, we develop a reference strain-agnostic computational platform that uses machine learning approaches, complemented by both genetic interaction analysis and 3D structural mutation-mapping, to identify signatures of AMR evolution to 13 antibiotics. This platform is applied to 1595 sequenced strains to yield four key results. First, a pan-genome analysis shows that M. tuberculosis is highly conserved with sequenced variation concentrated in PE/PPE/PGRS genes. Second, the platform corroborates 33 genes known to confer resistance and identifies 24 new genetic signatures of AMR. Third, 97 epistatic interactions across 10 resistance classes are revealed. Fourth, detailed structural analysis of these genes yields mechanistic bases for their selection. The platform can be used to study other human pathogens

The Genetic Basis of Creativity and Ideational Fluency The Genetic Basis of Creativity and Ideational Fluency

Reuter, Roth, Holve, & Hennig (2006) described what they called the first candidate gene for creativity. This study replicated and extended their work for a more careful analysis of five candidate genes: Dopamine Transporter (DAT), Catechol-O-Methyltransferase (COMT), Dopamine Receptor D4 (DRD4), D2 Dopamine Receptor (DRD2), and Tryptophane Hydroxylase (TPH1). Participants were 147 college students who received a battery of tests of creative potential. Multivariate analyses of variance indicated that ideational fluency scores were significantly associated with several genes (DAT, COMT, DRD4, and TPH1). This was apparent in both verbal and figural fluency ideation scores, before and after controlling general intelligence. Yet fluency, alone, is not an adequate measure of creativity, and the index that is by far the most important part of creativity (i.e., originality) had a negligible relationship with the genes under investigation. Hence, in contrast to earlier research, the conclusion offered here is that there is a clear genetic basis for ideational fluency, but that fluency, alone, is not sufficient to predict or guarantee creative performance. Hence, at present, the genetic basis of creativity remains uncertain

Genome-scale metabolic model of the rat liver predicts effects of diet restriction.

Mapping network analysis in cells and tissues can provide insights into metabolic adaptations to changes in external environment, pathological conditions, and nutrient deprivation. Here, we reconstructed a genome-scale metabolic network of the rat liver that will allow for exploration of systems-level physiology. The resulting in silico model (iRatLiver) contains 1,882 reactions, 1,448 metabolites, and 994 metabolic genes. We then used this model to characterize the response of the liver\u27s energy metabolism to a controlled perturbation in diet. Transcriptomics data were collected from the livers of Sprague Dawley rats at 4 or 14 days of being subjected to 15%, 30%, or 60% diet restriction. These data were integrated with the iRatLiver model to generate condition-specific metabolic models, allowing us to explore network differences under each condition. We observed different pathway usage between early and late time points. Network analysis identified several highly connected hub genes (Pklr, Hadha, Tkt, Pgm1, Tpi1, and Eno3) that showed differing trends between early and late time points. Taken together, our results suggest that the liver\u27s response varied with short- and long-term diet restriction. More broadly, we anticipate that the iRatLiver model can be exploited further to study metabolic changes in the liver under other conditions such as drug treatment, infection, and disease

Development of decision support system for the diagnosis of arthritis pain for rheumatic fever patients: Based on the fuzzy approach

Developing a Decision Support System (DSS) for Rheumatic Fever (RF) is complex due to the levels of vagueness, complexity and uncertainty management involved, especially when the same arthritis symptoms can indicate multiple diseases. It is this inability to describe observed symptoms precisely that necessitates our approach to developing a Decision Support System (DSS) for diagnosing arthritis pain for RF patients using fuzzy logic. In this paper we describe how fuzzy logic could be applied to the development of a DSS application that could be used for diagnosing arthritis pain (arthritis pain for rheumatic fever patients only) in four different stages, namely: Fairly Mild, Mild, Moderate and Severe. Our approach employs a knowledge-base that was built using WHO guidelines for diagnosing RF, specialist guidelines from Nepal and a Matlab fuzzy tool box as components to the system development. Mixed membership functions (Triangular and Trapezoidal) are applied for fuzzification and Mamdani-type is used for the fuzzy reasoning process. Input and output parameters are defined based on the fuzzy set rules

Bioinformatics challenges and potentialities in studying extreme environments

Cold environments are populated by organisms able to contravene deleterious effects of low temperature by diverse adaptive strategies, including the production of ice binding proteins (IBPs) that inhibit the growth of ice crystals inside and outside cells. We describe the properties of such a protein (EfcIBP) identified in the metagenome of an Antarctic biological consortium composed of the ciliate Euplotes focardii and psychrophilic non-cultured bacteria. Recombinant EfcIBP can resist freezing without any conformational damage and is moderately heat stable, with a midpoint temperature of 66.4 degrees C. Tested for its effects on ice, EfcIBP shows an unusual combination of properties not reported in other bacterial IBPs. First, it is one of the best-performing IBPs described to date in the inhibition of ice recrystallization, with effective concentrations in the nanomolar range. Moreover, EfcIBP has thermal hysteresis activity (0.53 degrees C at 50 mu M) and it can stop a crystal from growing when held at a constant temperature within the thermal hysteresis gap. EfcIBP protects purified proteins and bacterial cells from freezing damage when exposed to challenging temperatures. EfcIBP also possesses a potential N-terminal signal sequence for protein transport and a DUF3494 domain that is common to secreted IBPs. These features lead us to hypothesize that the protein is either anchored at the outer cell surface or concentrated around cells to provide survival advantage to the whole cell consortium

Toward community standards and software for whole-cell modeling

Whole-cell (WC) modeling is a promising tool for biological research, bioengineering, and medicine. However, substantial work remains to create accurate, comprehensive models of complex cells. Methods: We organized the 2015 Whole-Cell Modeling Summer School to teach WC modeling and evaluate the need for new WC modeling standards and software by recoding a recently published WC model in SBML. Results: Our analysis revealed several challenges to representing WC models using the current standards. Conclusion: We, therefore, propose several new WC modeling standards, software, and databases. Significance:We anticipate that these new standards and software will enable more comprehensive models