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Identification of new biomarker candidates for glucocorticoid induced insulin resistance using literature mining

Wilco WM Fleuren, Erik JM Toonen, Stefan Verhoeven, Raoul Frijters, Tim Hulsen, Ton Rullmann, René van Schaik, Jacob de Vlieg, Wynand Alkema
2013 BioData Mining  
We used this method to create a literature network of genes related to insulin resistance and to evaluate the importance of the genes in this network for glucocorticoid induced metabolic side effects and  ...  Conclusions: With this approach we are able to construct a robust informative literature network of insulin resistance related genes that gave new insights to better understand the mechanisms behind GC  ...  We used CoPubGene to create a network of genes related to insulin resistance and to evaluate the importance of the genes in this network for glucocorticoid induced metabolic side effects and anti-inflammatory  ... 
doi:10.1186/1756-0381-6-2 pmid:23379763 pmcid:PMC3577498 fatcat:kpqmax3ipbcebpzucc2d3s5ndq

Systems Biology Genetic Approach Identifies Serotonin Pathway as a Possible Target for Obstructive Sleep Apnea: Results from a Literature Search Review

Ram Jagannathan, Azizi Seixas, David St-Jules, Lakshmanan Jagannathan, April Rogers, Lu Hu, Girardin Jean-Louis, Mary Ann Sevick
2017 Sleep Disorders  
The objective of this systematic genetic study is to identify "novel" biomarkers for OSA using systems biology approach. Methods.  ...  The gene ontology (GO) analyses and candidate genes prioritization were performed using Enrichr tool. Genes pertaining to the top 10 pathways were extracted and used for Ingenuity Pathway Analysis.  ...  Methodology Literature Mining and Identification of Candidate Genes.  ... 
doi:10.1155/2017/6768323 pmid:29057124 pmcid:PMC5625807 fatcat:pemgonrxingw3ionufyozpyc4i

Network analysis: a new approach to study endocrine disorders

A Stevens, C De Leonibus, D Hanson, A W Dowsey, A Whatmore, S Meyer, R P Donn, P Chatelain, I Banerjee, K E Cosgrove, P E Clayton, M J Dunne
2013 Journal of Molecular Endocrinology  
Analysis of network biology generates interactome models to infer and assess function; to understand mechanisms, and to prioritise candidates for further investigation.  ...  This review provides an overview of network methods used to support this research and an insight into current applications of network analysis applied to endocrinology.  ...  Development of drug-induced insulin resistance: network analysis example of glucocorticoid and GH therapies The development of insulin resistance and T2DM is not only related to obesity, but can also be  ... 
doi:10.1530/jme-13-0112 pmid:24085748 fatcat:oltgm7ezgzdjbdm76qjpzrz6fa

Current advances in biomarkers for targeted therapy in triple-negative breast cancer

Brett Fleisher, Charlotte Clarke, Sihem Ait-Oudhia
2016 Breast Cancer : Targets and Therapy  
Currently, TNBC lacks clinically accepted targets for tailored therapy, warranting the need for candidate biomarkers.  ...  BiomarkerBase, an online platform used to find biomarkers reported in clinical trials, was utilized to screen all potential biomarkers for TNBC and select only the ones registered in completed TNBC trials  ...  Acknowledgments We want to thank Dr Gordon Mills at MD Anderson Cancer Center for reviewing this manuscript and sharing his knowledge of biomarkers and TNBC.  ... 
doi:10.2147/bctt.s114659 pmid:27785100 pmcid:PMC5063595 fatcat:xemqhq6vqvgd3acasnovohro74

The secretome of skeletal muscle cells: a systematic review

Antoine Florin, Cécile Lambert, Christelle Sanchez, Jérémie Zappia, Nancy Durieux, Antonio Martins Tieppo, Ali Mobasheri, Yves Henrotin
2020 Osteoarthritis and Cartilage Open  
secreted by insulin-resistant muscle cells.  ...  Results: A total of 19 papers met the inclusion criteria for this systematic review.  ...  Acknowledgements The authors thank the Belgian Walloon Region for the financial support provided to this research project in the form of two subsidies (N 1320131 & N 7781).  ... 
doi:10.1016/j.ocarto.2019.100019 fatcat:srsrhpvxejf2xd7g3we3th3jpm

The EDCMET Project: Metabolic Effects of Endocrine Disruptors

Jenni Küblbeck, Taina Vuorio, Jonna Niskanen, Vittorio Fortino, Albert Braeuning, Khaled Abass, Arja Rautio, Jukka Hakkola, Paavo Honkakoski, Anna-Liisa Levonen
2020 International Journal of Molecular Sciences  
understanding of the molecular mechanisms of metabolic disease and comprehensive in vitro and in vivo methodological skills; and, ultimately, epidemiologists linking environmental exposure to adverse  ...  During its 5-year journey, EDCMET aims to identify novel ED mechanisms of action, to generate (pre)validated test methods to assess the metabolic effects of Eds, and to predict emergent adverse biological  ...  Acknowledgments: We acknowledge the contribution of the entire EDCMET team.  ... 
doi:10.3390/ijms21083021 pmid:32344727 fatcat:65jyzqhwiffidkyualtrezhrlm

Serum miRNA Profile in Diabetic Patients With Ischemic Heart Disease as a Promising Non-Invasive Biomarker

Agnieszka Bielska, Magdalena Niemira, Witold Bauer, Iwona Sidorkiewicz, Anna Szałkowska, Anna Skwarska, Justyna Raczkowska, Damian Ostrowski, Kamil Gugała, Sławomir Dobrzycki, Adam Krętowski
2022 Frontiers in Endocrinology  
Here, we postulate that circulating serum-derived micro RNAs (miRNAs) may serve as potential biomarkers for early IHD diagnosis and support the identification of diabetic individuals with a predisposition  ...  Taken together, our research suggests that circulating miRNAs might have a crucial role in the development of IHD in diabetic patients and may be used as a potential biomarker for early diagnosis.  ...  The development of new molecular biomarkers of identification T2DM patients with risk of IHD can improve the care of such patients.  ... 
doi:10.3389/fendo.2022.888948 pmid:35663309 pmcid:PMC9157821 fatcat:7q3lwxoujjdp3hzv6szzsbf5bu

Integrative Omics for Informed Drug Repurposing: Targeting CNS Disorders [article]

Rammohan Shukla, Nicholas Henkel, Khaled Alganem, Abdul-rizaq Hamoud, James Reigle, Rawan S Alnafisah, Hunter M Eby, Ali S Imami, Justin Creeden, Scott A Miruzzi, Jaroslaw Meller, Robert E Mccullumsmith
2020 bioRxiv   pre-print
These concepts provide a promising new translational avenue for developing new therapies for difficult to treat disorders, and offer the possibility of connecting drug discovery platforms and big data  ...  Repurposing drugs for new indications have lower cost and shorter development timeline compared to that of de novo drug development.  ...  A repository of such signatures can be readily used to repurpose drugs for new indications.  ... 
doi:10.1101/2020.04.24.060392 fatcat:af7hldmvmjeulagxjvbamai2ya

The role of drug profiles as similarity metrics: applications to repurposing, adverse effects detection and drug–drug interactions

Santiago Vilar, George Hripcsak
2016 Briefings in Bioinformatics  
We focus on the discovery of new targets or pathways for drugs already in the pharmaceutical market, also called drug repurposing, in the interaction with off-targets responsible for adverse reactions  ...  Databases related to protein interactions, adverse effects and genomic profiles are available to be used for the construction of computational models.  ...  diseases, identification of adverse effects and detection of new indications for drugs.  ... 
doi:10.1093/bib/bbw048 pmid:27273288 pmcid:PMC6078166 fatcat:yeoxzrbacnbuplvfppmazr6ziq

Detecting the Critical States of Type 2 Diabetes Mellitus Based on Degree Matrix Network Entropy by Cross-Tissue Analysis

Yingke Yang, Zhuanghe Tian, Mengyao Song, Chenxin Ma, Zhenyang Ge, Peiluan Li
2022 Entropy  
By applying the method to the datasets of three different tissues for experiments involving T2DM in rats, the critical states were detected, and the dynamic network biomarkers (DNBs) were successfully  ...  In this study, we developed a new method, i.e., degree matrix network entropy (DMNE), to detect the critical states of T2DM based on a sample-specific network (SSN).  ...  Acknowledgments: We thank Luochen Chen for his kind guidance, and we thank Lin Li for his valuable suggestions. Conflicts of Interest: The authors declare no conflict of interest.  ... 
doi:10.3390/e24091249 pmid:36141135 fatcat:qv6g3xzicfdmvhou7k6k7vwwmm

Targeting the IGF-1R signaling and mechanisms for epigenetic gene silencing in human multiple myeloma

Helena Jernberg-Wiklund, Kenneth Nilsson
2012 Upsala Journal of Medical Sciences  
In this review we will discuss some of the recent results on the functional role and potential clinical use of the IGF-1R, one of the major mediators of growth and survival for MM.  ...  the current view on treatment strategies for MM.  ...  biomarker for tumor incidence or progression (46) (47) (48) .  ... 
doi:10.3109/03009734.2012.659293 pmid:22348393 pmcid:PMC3339548 fatcat:24pr3r6kbvcdhaynptmtpggaeq

Caloric Restriction Mimetics: Metabolic Interventions

R. Weindruch, K. P. Keenan, J. M. Carney, G. Fernandes, R. J. Feuers, R. A. Floyd, J. B. Halter, J. J. Ramsey, A. Richardson, G. S. Roth, S. R. Spindler
2001 The journals of gerontology. Series A, Biological sciences and medical sciences  
Panel 2 focused on two outcomes of CR, reduction of oxidative stress and improved glucoregulation, for which candidate metabolic mimics exist.  ...  These areas are important because either they hold promise for the discovery of new mimetics or they need to be explored prior to initiation of CR trials in humans.  ...  Use of transgenic approaches to modify insulin signaling pathways can help define the importance of insulin resistance for CR effects. Nonhuman primates.  ... 
doi:10.1093/gerona/56.suppl_1.20 pmid:12088209 fatcat:6ogcb6dlhjervjtmcpeahugh6y

Core signaling pathways in ovarian cancer stem cell revealed by integrative analysis of multi-marker genomics data

Tianyu Zhang, Jielin Xu, Siyuan Deng, Fengqi Zhou, Jin Li, Liwei Zhang, Lang Li, Qi-En Wang, Fuhai Li, Gianpaolo Papaccio
2018 PLoS ONE  
Ovarian Cancer Stem Cells (OCSCs) are believed to be responsible for the tumor relapse and drug resistance.  ...  Through literature search validation, 15 of them have been reported in association with cancer stem cells.  ...  Acknowledgments We would like to thank colleagues in Biomedical Informatics Department for the helpful discussions.  ... 
doi:10.1371/journal.pone.0196351 pmid:29723215 pmcid:PMC5933740 fatcat:and5oxbzyvcipngurqatd3cxwe

Transitioning from Basic toward Systems Pharmacodynamic Models: Lessons from Corticosteroids

Vivaswath S. Ayyar, William J. Jusko, Eric L. Barker
2020 Pharmacological Reviews  
of genes, biomarkers, physiologic responses, and disease symptoms.  ...  foundation for enhanced PK/PD to comprehensive QSP models.  ...  Our references cite the numerous valuable contributions of previous graduate students, post-doctoral fellows, and collaborators who were part of the Jusko Laboratory.  ... 
doi:10.1124/pr.119.018101 pmid:32123034 pmcid:PMC7058984 fatcat:j5enyzfzvzetbp2uuv6gebtfh4

Peripheral and central mechanisms of stress resilience

Madeline L. Pfau, Scott J. Russo
2015 Neurobiology of Stress  
Viable new treatments for depression and anxiety have been slow to emerge, likely owing to the complex and incompletely understood etiology of these disorders.  ...  A budding area of research with great therapeutic promise involves the study of resilience, the adaptive maintenance of normal physiology and behavior despite exposure to marked psychological stress.  ...  Further mining of these data sets may reveal promising patterns and candidate genes for further understanding of sexdependent stress resilience.  ... 
doi:10.1016/j.ynstr.2014.09.004 pmid:25506605 pmcid:PMC4260357 fatcat:fhkgmgjb3bbqhbf5tgwphnlyfy
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