High density gene expression microarrays and gene ontology analysis for identifying processes in implanted tissue engineering constructs

Lammers, Gerwen; Gilissen, Christian; Nillesen, Suzan T.M.; Uijtdewilligen, P.J.E.; Wismans, Ronnie G.; Veltman, Joris A.; Daamen, Willeke F.; Kuppevelt, Toin H. Van

doi:10.1016/j.biomaterials.2010.07.055

Cited by 20 publications

(19 citation statements)

References 26 publications

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“…6). 126 By using a freely available Webbased tool, gene ontology terms for biological processes which are up-and downregulated in the construct versus normal skin were identified. Subsequently, these altered processes were validated (immuno)histochemically.…”

Section: Lammers Et Almentioning

confidence: 99%

An Overview of Methods for theIn VivoEvaluation of Tissue-Engineered Skin Constructs

Lammers

Verhaegen

Ulrich

et al. 2011

Tissue Engineering Part B: Reviews

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Cutaneous wounding often leads to contraction and scarring, which may result in a range of functional, cosmetic, and psychological complications. Tissue-engineered skin substitutes are being developed to enhance restoration of the skin and improve the quality of wound healing. The aim of this review is to provide researchers in the field of tissue engineering an overview of the methods that are currently used to clinically evaluate skin wound healing, and methods that are used to evaluate tissue-engineered constructs in animal models. Clinically, the quality of wound healing is assessed by noninvasive subjective scar assessment scales and objective techniques to measure individual scar features. Alternatively, invasive technologies are used. In animal models, most tissue-engineered skin constructs studied are at least evaluated macroscopically and by using conventional histology (hematoxylin-eosin staining). Planimetry and immunohistochemistry are also often applied. An overview of antibodies used is provided. In addition, some studies used methods to assess gene expression levels and mRNA location, transillumination for blood vessel observation, in situ/in vivo imaging, electron microscopy, mechanical strength assessment, and microbiological sampling. A more systematic evaluation of tissue-engineered skin constructs in animal models is recommended to enhance the comparison of different constructs, thereby accelerating the trajectory to application in human patients. This would be further enhanced by the embracement of more clinically relevant objective evaluation methods. In addition, fundamental knowledge on construct-mediated wound healing may be increased by new developments in, for example, gene expression analysis and noninvasive imaging.

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Section: Lammers Et Almentioning

confidence: 99%

An Overview of Methods for theIn VivoEvaluation of Tissue-Engineered Skin Constructs

Lammers

Verhaegen

Ulrich

et al. 2011

Tissue Engineering Part B: Reviews

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“…From the other SCI subjects we obtained insufficient RNA, which probably relates to the dramatic changes in muscle mass and composition (lots of intramuscular fat) after a SCI, which is further discussed in the Limitations section. Total RNA (100 ng) was amplified and labeled according to the Affymetrix GeneChip whole transcript sense target labeling assay and hybridized on Affymetrix GeneChip Human Gene 1.0 ST arrays (Affymetrix) (28). Arrays were scanned, processed, and imported into Genomic Suite software (v. 6.4; Partek, St. Louis, MO).…”

Section: Gene Expression Microarray Analysismentioning

confidence: 99%

Expression of genes involved in fatty acid transport and insulin signaling is altered by physical inactivity and exercise training in human skeletal muscle

Lammers

Poelkens

Duijnhoven

et al. 2012

American Journal of Physiology-Endocrinology and Metabolism

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Lammers G, Poelkens F, van Duijnhoven NT, Pardoel EM, Hoenderop JG, Thijssen DH, Hopman MT. Expression of genes involved in fatty acid transport and insulin signaling is altered by physical inactivity and exercise training in human skeletal muscle. Am J Physiol Endocrinol Metab 303: E1245-E1251, 2012. First published October 9, 2012; doi:10.1152/ajpendo.00356.2012.-Physical deconditioning is associated with the development of chronic diseases, including type 2 diabetes and cardiovascular disease. Exercise training effectively counteracts these developments, but the underlying mechanisms are largely unknown. To gain more insight into these mechanisms, muscular gene expression levels were assessed after physical deconditioning and after exercise training of the lower limbs in humans by use of gene expression microarrays. To exclude systemic effects, we used human models for local physical inactivity (3 wk of unilateral limb suspension) and for local exercise training (6 wk of functional electrical stimulation exercise of the extremely deconditioned legs of individuals with a spinal cord injury). The most interesting subset of genes, those downregulated after deconditioning as well as upregulated after exercise training, contained 18 genes related to both the "insulin action" and "adipocytokine signaling" pathway. Of these genes, the three with strongest up/downregulation were the muscular fatty acid-binding protein-3 (FABP3), the fatty acid oxidizing enzyme hydroxyacyl-CoA dehydrogenase (HADH), and the mitochondrial fatty acid transporter solute carrier 25 family member A20 (SLC25A20). The expression levels of these genes were confirmed using RT-qPCR. The results of the present study indicate an important role for a decreased transport and metabolism of fatty acids, which provides a link between physical activity levels and insulin signaling.transcriptome; microarray; fatty acid metabolism; insulin resistance THE HUMAN GENOME HAS EVOLVED on the basis of a physically active lifestyle, but our society has become increasingly sedentary. Physical inactivity has detrimental health consequences, including the development of insulin resistance and eventually type 2 diabetes and cardiovascular disease (8, 41). Recently, it has been demonstrated that even a 2-wk reduction in daily activity level can be sufficient to increase insulin resistance in healthy subjects, as does 9 days of strict bed rest (1, 26). On the other end of the spectrum, a single bout of exercise can reduce insulin resistance (17), regular physical activity reduces the risk of developing diabetes (21, 29), and significant exercise effects have been reported in diabetics (9), making exercise a powerful tool in the prevention and management of type 2 diabetes.Skeletal muscle accounts for the majority of insulin-induced glucose uptake. Binding of insulin to its receptor on the cellular plasma membrane leads, via the activation of intracellular insulin receptor substrates 1 and 2 (IRS1/2), to translocation of the GLUT4 glucose transporter to the plasma membr...

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“…23,24 In addition, a microarray provides a ready means for evaluating the composition of engineered skin substitutes after implantation and for gathering information about the associated biological processes. 25,26 Despite the overwhelming success of microarray technology, it has become increasingly clear in the last several years that the granularity afforded by such traditional population-averaging techniques is often insufficient to capture the complex patterns inherent in heterogeneous populations (Fig. 1).…”

Section: Discussion Of Findings and Relevant Literature Dna Microarramentioning

confidence: 99%

High-Throughput Single-Cell Analysis for Wound Healing Applications

Januszyk

Gurtner

2013

Advances in Wound Care

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The intrinsically heterogeneous nature of injured tissue, in conjunction with its temporal dynamics, makes wound repair and tissue regeneration an attractive target for high-throughput single-cell analysis. Given the staggering costs associated with chronic and non-healing wounds, the development of predictive and diagnostic tools using this technology would likely be attractive to healthcare providers.

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High density gene expression microarrays and gene ontology analysis for identifying processes in implanted tissue engineering constructs

Cited by 20 publications

References 26 publications

An Overview of Methods for theIn VivoEvaluation of Tissue-Engineered Skin Constructs

An Overview of Methods for theIn VivoEvaluation of Tissue-Engineered Skin Constructs

Expression of genes involved in fatty acid transport and insulin signaling is altered by physical inactivity and exercise training in human skeletal muscle

High-Throughput Single-Cell Analysis for Wound Healing Applications

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