IET Systems Biology
Volume 13, Issue 2, April 2019
Volumes & issues:
Volume 13, Issue 2
April 2019
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- Author(s): Hadi Delavari ; Hamid Heydarinejad ; Dumitru Baleanu
- Source: IET Systems Biology, Volume 13, Issue 2, p. 43 –54
- DOI: 10.1049/iet-syb.2018.5016
- Type: Article
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Type I diabetes is described by the destruction of the insulin-producing beta-cells in the pancreas. Hence, exogenous insulin administration is necessary for Type I diabetes patients. In this study, to estimate the states that are not directly available from the Bergman minimal model a high-order sliding mode observer is proposed. Then fractional calculus is combined with sliding mode control (SMC) for blood glucose regulation to create more robustness performance and make more degree of freedom and flexibility for the proposed method. Then an adaptive fractional-order SMC is proposed. The adaptive SMC protect controller against disturbance and uncertainties while the fractional calculus provides robust performance. Numerical simulation verifies that the proposed controllers have better performance in the presence of disturbance and uncertainties without chattering.
- Author(s): Mehrosh Khalid ; Sharifullah Khan ; Jamil Ahmad ; Muhammad Shaheryar
- Source: IET Systems Biology, Volume 13, Issue 2, p. 55 –68
- DOI: 10.1049/iet-syb.2018.5001
- Type: Article
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Gene Regulatory Networks (GRNs) are reconstructed from the microarray gene expression data through diversified computational approaches. This process ensues in symmetric and diagonal interaction of gene pairs that cannot be modelled as direct activation, inhibition, and self-regulatory interactions. The values of gene co-expressions could help in identifying co-regulations among them. The proposed approach aims at computing the differences in variances of co-expressed genes rather than computing differences in values of mean expressions across experimental conditions. It adopts multivariate co-variances using principal component analysis (PCA) to predict an asymmetric and non-diagonal gene interaction matrix, to select only those gene pair interactions that exhibit the maximum variances in gene regulatory expressions. The asymmetric gene regulatory interactions help in identifying the controlling regulatory agents, thus lowering the false positive rate by minimizing the connections between previously unlinked network components. The experimental results on real as well as in silico datasets including time-series RTX therapy, Arabidopsis thaliana, DREAM-3, and DREAM-8 datasets, in comparison with existing state-of-the-art approaches demonstrated the enhanced performance of the proposed approach for predicting positive and negative feedback loops and self-regulatory interactions. The generated GRNs hold the potential in determining the real nature of gene pair regulatory interactions.
- Author(s): Sumaria Malik ; Rehan Zafar Paracha ; Maryam Khalid ; Maryum Nisar ; Amnah Siddiqa ; Zamir Hussain ; Raheel Nawaz ; Amjad Ali ; Jamil Ahmad
- Source: IET Systems Biology, Volume 13, Issue 2, p. 69 –76
- DOI: 10.1049/iet-syb.2018.5040
- Type: Article
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Lung adenocarcinoma is one of the major causes of mortality. Current methods of diagnosis can be improved through identification of disease specific biomarkers. MicroRNAs are small non-coding regulators of gene expression, which can be potential biomarkers in various diseases. Thus, the main objective of this study was to gain mechanistic insights into genetic abnormalities occurring in lung adenocarcinoma by implementing an integrative analysis of miRNAs and mRNAs expression profiles in the case of both smokers and non-smokers. Differential expression was analysed by comparing publicly available lung adenocarcinoma samples with controls. Furthermore, weighted gene co-expression network analysis is performed which revealed mRNAs and miRNAs significantly correlated with lung adenocarcinoma. Moreover, an integrative analysis resulted in identification of several miRNA–mRNA pairs which were significantly dysregulated in non-smokers with lung adenocarcinoma. Also two pairs (miR-133b/Protein Kinase C Zeta (PRKCZ) and miR-557/STEAP3) were found specifically dysregulated in smokers. Pathway analysis further revealed their role in important signalling pathways including cell cycle. This analysis has not only increased the authors’ understanding about lung adenocarcinoma but also proposed potential biomarkers. However, further wet laboratory studies are required for the validation of these potential biomarkers which can be used to diagnose lung adenocarcinoma.
- Author(s): Sadaf Vahdat and Behnaz Bakhshandeh
- Source: IET Systems Biology, Volume 13, Issue 2, p. 77 –83
- DOI: 10.1049/iet-syb.2018.5037
- Type: Article
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Human pluripotent stem cell-derived cardiovascular progenitor cells (CPCs) are considered as powerful tools for cardiac regenerative medicine and developmental study. Mesoderm posterior1+ (MESP1+) cells are identified as the earliest CPCs from which almost all cardiac cell types are generated. Molecular insights to the transcriptional regulatory factors of early CPCs are required to control cell fate decisions. Herein, the microarray data set of human embryonic stem cells (hESCs)-derived MESP1+ cells was analysed and differentially expressed genes (DEGs) were identified in comparison to undifferentiated hESCs and MESP1-negative cells. Then, gene ontology and pathway enrichment analysis of DEGs were carried out with the subsequent prediction of putative regulatory small molecules for modulation of CPC fate. Some key signalling cascades of cardiogenesis including Hippo, Wnt, transforming growth factor-β, and PI3K/Akt were highlighted in MESP1+ cells. The transcriptional regulatory network of MESP1+ cells were visualised through interaction networks of DEGs. Additionally, 35 promising chemicals were predicted based on correlations with gene expression signature of MESP1+ cells for effective in vitro CPC manipulation. Studying the transcriptional profile of MESP1+ cells resulted into the identification of important signalling pathways and chemicals which could be introduced as powerful tools to manage proliferation and differentiation of hESC-derived CPCs more efficiently.
- Author(s): Anirudh Nath and Rajeeb Dey
- Source: IET Systems Biology, Volume 13, Issue 2, p. 84 –91
- DOI: 10.1049/iet-syb.2018.5054
- Type: Article
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This paper deals with the design of robust observer based output feedback control law for the stabilisation of an uncertain nonlinear system and subsequently apply the developed method for the regulation of plasma glucose concentration in Type 1 diabetes (T1D) patients. The principal objective behind the proposed design is to deal with the issues of intra-patient parametric variation and non-availability of all state variables for measurement. The proposed control technique for the T1D patient model is based on the attractive ellipsoid method (AEM). The observer and controller conditions are obtained in terms of linear matrix inequality (LMI), thus allowing to compute easily both the observer and controller gains. The closed-loop response obtained using the designed controller avoids adverse situations of hypoglycemia and post-prandial hyperglycemia under uncertain conditions. Further to validate the robustness of the design, closed-loop simulations of random 200 virtual T1D patients considering parameters within the considered ranges are presented. The results indicate that hypoglycemia and post-prandial hyperglycemia are significantly reduced in the presence of bounded () parametric variability and uncertain exogenous meal disturbance.
- Author(s): Korosh Rouhollahi ; Mehran Emadi Andani ; Javad Askari Marnanii ; Seyed Mahdi Karbassi
- Source: IET Systems Biology, Volume 13, Issue 2, p. 92 –99
- DOI: 10.1049/iet-syb.2018.5043
- Type: Article
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One of the efficient methods in controlling the Parkinson's tremor is Deep Brain Stimulation (DBS) therapy. The stimulation of Basal Ganglia (BG) by DBS brings no feedback though the existence of feedback reduces the additional stimulatory signal delivered to the brain. So this study offers a new adaptive architecture of a closed-loop control system in which two areas of BG are stimulated simultaneously to decrease the following three indicators: hand tremor, the level of a delivered stimulation signal in the disease condition, and the level of a delivered stimulation signal in health condition to the disease condition. One area (STN: subthalamic nucleus) is stimulated with an adaptive sliding mode controller and the other area (GPi: Globus Pallidus internal) with partial state feedback controller. The simulation results of stimulating two areas of BG showed satisfactory performance.
Adaptive fractional-order blood glucose regulator based on high-order sliding mode observer
Identification of self-regulatory network motifs in reverse engineering gene regulatory networks using microarray gene expression data
MicroRNAs and their target mRNAs as potential biomarkers among smokers and non-smokers with lung adenocarcinoma
Prediction of putative small molecules for manipulation of enriched signalling pathways in hESC-derived early cardiovascular progenitors by bioinformatics analysis
Robust observer based control for plasma glucose regulation in type 1 diabetes patient using attractive ellipsoid method
Rehabilitation of the Parkinson's tremor by using robust adaptive sliding mode controller: a simulation study
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