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Genetics and functional genomics of type 2 diabetes mellitus

Ayo Toye, Dominique Gauguier
2003 Genome Biology  
These findings help unravel the complex pathogenesis and inheritance of polygenic type 2 diabetes mellitus.  ...  Genome-wide studies of transcription in the skeletal muscle of type 2 diabetic patients have identified coordinated changes in the expression of genes involved in oxidative phosphorylation, and have underlined  ...  Genetic markers and dense genetic maps allow extensive searches for gene variants that co-segregate with the disease.  ... 
doi:10.1186/gb-2003-4-12-241 pmid:14659011 pmcid:PMC329413 fatcat:csqdaa4bjvbalakjyjm2d6bo54

Extensive metabolic remodeling after limiting mitochondrial lipid burden is consistent with an improved metabolic health profile

Sujoy Ghosh, Shawna E. Wicks, Bolormaa Vandanmagsar, Tamra M. Mendoza, David S. Bayless, J. Michael Salbaum, Stephen P. Dearth, Shawn R. Campagna, Randall L. Mynatt, Robert C. Noland
2019 Journal of Biological Chemistry  
, shifts in nucleotide metabolites, and biogenesis of mitochondria and peroxisomes.  ...  Limiting mitochondrial fat entry predictably improves glucose homeostasis; however, remodeling of glucose metabolism pathways pales compared with adaptations in amino acid and lipid metabolism pathways  ...  This coincides well with the KEGG map for the pyruvate handling pathway (Fig.  ... 
doi:10.1074/jbc.ra118.006074 pmid:31097541 pmcid:PMC6699851 fatcat:br4dgtpwsrexlhy7q4zb2hta3e

Literature-aided interpretation of gene expression data with the weighted global test

R. Jelier, J. J. Goeman, K. M. Hettne, M. J. Schuemie, J. T. den Dunnen, P. A. C. 't Hoen
2010 Briefings in Bioinformatics  
, tissues and other types of concepts.  ...  The weights are the literature association scores and reflect the importance of a gene for the concept of interest.  ...  Christoffels and G. Hooiveld for useful discussions and critical reading of the article.  ... 
doi:10.1093/bib/bbq082 pmid:21183478 fatcat:4q7lybxnojh3jlemfin4fjtpmy

The challenges for molecular nutrition research 4: the "nutritional systems biology level"

Ben van Ommen, Duccio Cavallieri, Helen M. Roche, Ulla I. Klein, Hannelore Daniel
2008 Genes & Nutrition  
Although the achievement of this proposition may currently sound unrealistic, many initiatives in theoretical biology and biomedical sciences work on parts of the solution.  ...  This review provides examples and some recommendations for the molecular nutrition research arena to move onto the systems level.  ...  Finally, a data warehouse with knowledge system allowing the query of these studies (results coupled to their study description) will be useful, as this will allow optimal comparison and integration of  ... 
doi:10.1007/s12263-008-0090-5 pmid:18825427 pmcid:PMC2593015 fatcat:pnneycfvunhg3ifswecxkkea64

Gene regulatory network reveals oxidative stress as the underlying molecular mechanism of type 2 diabetes and hypertension

Jesmin, Mahbubur SM Rashid, Hasan Jamil, Raquel Hontecillas, Josep Bassaganya-Riera
2010 BMC Medical Genomics  
Conclusion: The findings provide a novel comprehensive approach for understanding the pathogenesis of various co-associated chronic inflammatory diseases by combining the power of pathway analysis with  ...  Results: By analyzing the genes related to T2D, HT and OBS, a highly regulated gene-disease integrated network model has been developed that provides useful functional linkages among groups of genes and  ...  Acknowledgements We thank Dr Zaheed Husain (Division of Interdisciplinary Medicine & Biotechnology, BIDMC, Department of Medicine, Harvard Medical School, Boston) for valuable comments and suggestions  ... 
doi:10.1186/1755-8794-3-45 pmid:20942928 pmcid:PMC2965702 fatcat:mcunumuqjvca7mn43jo2kikuoy

Connections for Matters of the Heart: Network Medicine in Cardiovascular Diseases

Abhijeet Rajendra Sonawane, Elena Aikawa, Masanori Aikawa
2022 Frontiers in Cardiovascular Medicine  
Like other fields, CVD research has benefitted from the deluge of multiomics biomedical data.  ...  Systems biology offers an alternative to traditional reductionist approaches and provides impetus for a comprehensive outlook toward diseases.  ...  For example, extracting a cardiovascular-specific subnetwork along with mass spectrometry data enabled "knowledge-integrated biomarker discovery" in CVD (46) .  ... 
doi:10.3389/fcvm.2022.873582 fatcat:tii5uxtjl5c3poqbeso3om2znm

T2D-Db: An integrated platform to study the molecular basis of Type 2 diabetes

Shipra Agrawal, Nevenka Dimitrova, Prasanthi Nathan, K Udayakumar, S Sai Lakshmi, S Sriram, N Manjusha, Urmi Sengupta
2008 BMC Genomics  
with type 2 diabetes and appears to contribute to the evidence for linkage in an  ...  Conclusion: Information available in T2D-Db provides an integrated platform for the better molecular level understanding of type 2 diabetes mellitus and its pathogenesis.  ...  Acknowledgements The authors gratefully acknowledge Philips Research Asia, Bangalore, India and Institute of Bioinformatics and Applied Biotechnology, Bangalore, India for funding this project.  ... 
doi:10.1186/1471-2164-9-320 pmid:18605991 pmcid:PMC2491641 fatcat:nwn7yrtbrrccrjmochw26zovku

Creating a Structured Adverse Outcome Pathway Knowledgebase via Ontology-Based Annotations

Cataia Ives, Ivana Campia, Rong-Lin Wang, Clemens Wittwehr, Stephen Edwards
2017 Applied In Vitro Toxicology  
Results-AOP Key Events (KEs) were assigned ontology terms using a concept called the Event Component, which consists of a Process, an Object, and an Action term, with each term originating from ontologies  ...  Introduction-The Adverse Outcome Pathway framework is increasingly used to integrate data generated based on traditional and emerging toxicity testing paradigms.  ...  We also thank the members of the OECD EAGMST Ontology Working Group for guidance with ontology selection and feedback on the extensions made to the AOP ontology.  ... 
doi:10.1089/aivt.2017.0017 pmid:30057931 pmcid:PMC6060416 fatcat:qvd4vsl6wfbolnqj7s2plhlnqa

The Emerging Paradigm of Network Medicine in the Study of Human Disease

S. Y. Chan, J. Loscalzo
2012 Circulation Research  
This review introduces the fundamental concepts of network medicine and explores the feasibility and potential impact of network-based methods for predicting individual manifestations of human disease  ...  The molecular pathways that govern human disease consist of molecular circuits that coalesce into complex, overlapping networks.  ...  Acknowledgments We thank Stephanie Tribuna for expert administrative assistance and Sol Chan for assistance with figures.  ... 
doi:10.1161/circresaha.111.258541 pmid:22821909 pmcid:PMC3425394 fatcat:m4zwmfv42vejrpd3kkbpx2k4h4

Nutrigenomics: The Impact of Biomics Technology on Nutrition Research

Irène Corthésy-Theulaz, Johan T. den Dunnen, Pascal Ferré, Jan M.W. Geurts, Michael Müller, Nico van Belzen, Ben van Ommen
2005 Annals of Nutrition and Metabolism  
The interaction between the human body and nutrition is an extremely complex process involving multi-organ physiology with molecular mechanisms on all levels of regulation (genes, gene expression, proteins  ...  Both the challenges and promises that are offered by the merge of 'biomics' technologies and mechanistic nutrition research are huge, but will eventually evolve in a new nutrition research concept: nutritional  ...  The opinions expressed herein are those of the authors and do not necessarily represent the views of ILSI and ILSI Europe.  ... 
doi:10.1159/000088315 pmid:16179781 fatcat:rzrz6tgvabce7ebywkn3qvplgy

DisGeNET: a discovery platform for the dynamical exploration of human diseases and their genes

J. Pinero, N. Queralt-Rosinach, A. Bravo, J. Deu-Pons, A. Bauer-Mehren, M. Baron, F. Sanz, L. I. Furlong
2015 Database: The Journal of Biological Databases and Curation  
DisGeNET integrates expert-curated databases with text-mined data, covers information on Mendelian and complex diseases, and includes data from animal disease models.  ...  DisGeNET: a discovery platform for the dynamical exploration of human diseases and their genes.  ...  Funding for open access charge: Instituto de Salud Carlos III-Fondo Europeo de Desarrollo Regional (PI13/00082).  ... 
doi:10.1093/database/bav028 pmid:25877637 pmcid:PMC4397996 fatcat:rf3dotjr2bbz3odfwvsuefnlli

A sample copy of the textbook Principles of Cell and Tissue Biology

George N. Chaldakov
2020 Biomedical Reviews  
proteases) by mitochondrial cytochrome c is a key step in the apoptosis pathway, MOMP being the key trigger of that pathway.  ...  Of course, we should know the scientific facts, but I believe that they are required primarily to incorporate them into knowledge, hypotheses, and concepts.  ...  And in the heart, heart, heart, heart. It is the same for love-of-knowledge. Educating the mind without educating the heart is no education at all.  ... 
doi:10.14748/bmr.v31.7716 fatcat:7tgzg72st5gl5kpmk3qhzimfha

Harnessing Systems Biology Approaches to Engineer Functional Microvascular Networks

Lauren S. Sefcik, Jennifer L. Wilson, Jason A. Papin, Edward A. Botchwey
2010 Tissue engineering. Part B, Reviews  
Systems biology integrates complex biological data from a variety of experimental sources (-omics) and analyzes how the interactions of the system components can give rise to the function and behavior  ...  Despite a continued growth in the understanding of signaling pathways involved in the formation and maturation of new blood vessels, approximately half of all compounds entering clinical trials will fail  ...  Botchwey and NSF CAREER award #0643548 to Dr. J.A. Papin. Disclosure Statement No competing financial interests exist.  ... 
doi:10.1089/ten.teb.2009.0611 pmid:20121415 pmcid:PMC2946904 fatcat:64beiuj6qvhqvkrlw2dttqnc7i

Systems Biology Elucidates Common Pathogenic Mechanisms between Nonalcoholic and Alcoholic-Fatty Liver Disease

Silvia Sookoian, Carlos J. Pirola, Christina Chan
2013 PLoS ONE  
We observed that the leading disease pathways associated with NAFLD did not significantly differ from those of AFLD.  ...  Our primary aim was to integrate omics and physiological data to answer the question of whether NAFLD and AFLD share molecular processes that lead to disease development.  ...  Hence, the results of this study only integrate the published knowledge about both the diseases.  ... 
doi:10.1371/journal.pone.0058895 pmid:23516571 pmcid:PMC3596348 fatcat:ccotipqsdzh7zfuhtlqa42hozm

Exploring the human diseasome: the human disease network

K.-I. Goh, I.-G. Choi
2012 Briefings in Functional Genomics  
Advances in genome-scale molecular biology and molecular genetics have greatly elevated our knowledge on the basic components of human biology and diseases.  ...  The use of the diseasome in combination with various interactome networks and other disease-related factors is also reviewed.  ...  Acknowledgement We thank Joseph Song for a careful proofreading of this article.  ... 
doi:10.1093/bfgp/els032 pmid:23063808 fatcat:s5k7rc7brzf4tda6ngym4cq4ba
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