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Fuzzy logic based approaches for gene regulatory network inference [article]

Khalid Raza
2018 arXiv   pre-print
based approaches, probabilistic approaches (Bayesian networks, naive byes), artificial neural networks, and fuzzy logic.  ...  Some of these techniques are microarray and next generation sequencing which provides genome level insight of living cells.  ...  Barman et al. (2016) developed adaptive ANN and self-organising map (SOM) based GRNs of Hepatitis C virus infection effect on Huh7 hepatoma cell time-series gene expression data, where they applied fuzzy  ... 
arXiv:1804.10775v1 fatcat:ct4yxzdq45ebdobxdsuwb3zlmy

The hepatic transcriptome in human liver disease

Nicholas A Shackel, Devanshi Seth, Paul S Haber, Mark D Gorrell, Geoffrey W McCaughan
2006 Comparative Hepatology  
The approaches covered include gene array analysis, serial analysis of gene expression, subtractive hybridization and differential display.  ...  This review outlines commonly used methods of transcriptome analysis, especially gene array analysis, focusing on publications utilizing these methods to understand human liver disease.  ...  Alternative approaches include self-organising maps, Bayesian clustering, k-means clustering and neural networks [57, 60, 63] .  ... 
doi:10.1186/1476-5926-5-6 pmid:17090326 pmcid:PMC1665460 fatcat:4dkhmd4p6rekhoj7urpnsqnvni

AASLD Abstracts 1353-1605

2008 Hepatology  
and aims: NF-κB is an important regulator of cell proliferation and survival.  ...  The expression of growth regulating genes was studied with Taq-Man Low Density Array (TLDA) and real-time PCR.  ...  antigen presenting cells and the initiation of adaptive immune responses.  ... 
doi:10.1002/hep.22646 fatcat:dlppwydrjnacbk5fyfcpjt7p2q

AASLD Abstract (pp. 162A–266A)

2004 Hepatology  
The last decade of transplantation for biliary atresia has witnessed major technical advances and substantially improved outcomes, leading us to question whether and how the profile of transplant candidates  ...  and 8 leaks plus stricture for an incidence of 34%.  ...  In this study we have constructed a self-organising map (SOM: this is a neural network or non-linear mode of decision analysis suitable For modelling complex multidimensional relationships) in a population  ... 
doi:10.1002/hep.1840400506 fatcat:n5a3zewdefgs3m7pl3rdzfdqdq

Modern Therapeutics 2012: Advances in Physiology, Pharmacology, and Pharmaceutical Sciences. An international symposium held jointly by CSPS, CSPT, and CPS, Toronto, ON, Canada, June 2012

Beverley Berekoff
2012 Journal of Pharmacy & Pharmaceutical Sciences  
Determinants of CYP3A4 Expression and Metabolic Activity in the Huh7 Human Hepatoma Cell Model of Non-alcoholic Fatty LiverDisease ......................................................................  ...  These cells are in an undifferentiated state capable of self-renewal and exhibit distinct patterns of gene expression.  ...  Determinants of CYP3A4 Expression and Metabolic Activity in the Huh7 Human Hepatoma Cell Model of Non-alcoholic Fatty Liver Disease Woolsey SJ, Tanner J, Beaton M, Tirona RG (The University of Western  ... 
doi:10.18433/j3jw2n fatcat:5e2mj2camzdwxaykx6szzc7fqi

Deutsche Gesellschaft für Experimentelle und Klinische Pharmakologie und Toxikologie e.V. Abstracts of the 81th Annual Meeting, March 10-12, 2015, Kiel, Germany

2015 Naunyn-Schmiedeberg's Archives of Pharmacology  
Acknowledgements: Bavarian State Ministry of the Environment and Consumer Protection.  ...  Based on microarray data, candidate genes and miRNAs were selected and validated in the remaining cases of iCMP and DCM using the real-time PCR BioMark system (Fluidigm).  ...  The impact of microRNAs during adaptation was analysed for the pair BCMO1/miR-301a and bile acid was identified as potential regulatory factor for gene expressionin adaptation. 176 Aggravation of inflammatory  ... 
doi:10.1007/s00210-015-1087-4 pmid:25630830 fatcat:wxewzlugk5hvbglugeap75es5u

AASLD Abstracts (pp. 282A–382A)

2003 Hepatology  
PCNA immunostaining was used to estimate proliferating index of endothelial cells (EC) both in vessels and sinusoids (SEC).  ...  Background: Enzymatic degradation of heparan sulfate proteoglycans (HSPGs) in extracellular matrix (ECM) by heparanase has multifunctional effect on cell-cell interaction, cell invasion, angiogenesis and  ...  In this study we have constructed a self-organising map (SOM: this is a neural network or non-linear mode of decision analysis suitable for modelling complex multidimensional relationships) and then validated  ... 
doi:10.1002/hep.1840380505 fatcat:77tzxv4iprdmnbmff5rwhcmury

Defining the role and mechanisms of miRNAs in cartilage ageing and disease

Panagiotis Balaskas
In this thesis, the use of microarray analysis allowed the identification of several DE miRNAs between young ACL cartilage and old OA human cartilage.  ...  and lesioned cartilage from old (age±SD=62.6±7.3) patients undergoing total knee replacement (TKA) by using microarray analysis.  ...  Conflicts of Interest: T.J.M Welting is listed as inventors on patents WO2017178251 and WO2017178253. T.J.M Welting has shares in Chondropeptix.  ... 
doi:10.17638/03139415 fatcat:grly6xpwnfhbfmuw7yknwlrami