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Ontology analysis of global gene expression differences of human bone marrow stromal cells cultured on 3D scaffolds or 2D films

Baker, Bryan A and Pine, Scott P and Chatterjee, Kaushik and Kumar, Girish and Lin, Nancy J and McDaniel, Jennifer H and Salit, Marc L and Simon, Carl G (2014) Ontology analysis of global gene expression differences of human bone marrow stromal cells cultured on 3D scaffolds or 2D films. In: BIOMATERIALS, 35 (25). pp. 6716-6726.

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Official URL: http://dx.doi.org/10.1016/j.biomaterials.2014.04.0...

Abstract

Differences in gene expression of human bone marrow stromal cells (hBMSCs) during culture in three-dimensional (3D) nanofiber scaffolds or on two-dimensional (2D) films were investigated via pathway analysis of microarray mRNA expression profiles. Previous work has shown that hBMSC culture in nanofiber scaffolds can induce osteogenic differentiation in the absence of osteogenic supplements (OS). Analysis using ontology databases revealed that nanofibers and OS regulated similar pathways and that both were enriched for TGF-beta and cell-adhesion/ECM-receptor pathways. The most notable difference between the two was that nanofibers had stronger enrichment for cell-adhesion/ECM-receptor pathways. Comparison of nanofibers scaffolds with flat films yielded stronger differences in gene expression than comparison of nanofibers made from different polymers, suggesting that substrate structure had stronger effects on cell function than substrate polymer composition. These results demonstrate that physical (nanofibers) and biochemical (OS) signals regulate similar ontological pathways, suggesting that these cues use similar molecular mechanisms to control hBMSC differentiation. Published by Elsevier Ltd.

Item Type: Journal Article
Additional Information: Copyright for this article belongs to the ELSEVIER SCI LTD, THE BOULEVARD, LANGFORD LANE, KIDLINGTON, OXFORD OX5 1GB, OXON, ENGLAND
Keywords: 3D scaffolds; Cell differentiation; Cell-material interactions; Human bone marrow stromal cells; mRNA microarrays; Pathway analysis
Department/Centre: Division of Mechanical Sciences > Materials Engineering (formerly Metallurgy)
Depositing User: Id for Latest eprints
Date Deposited: 19 Aug 2014 11:17
Last Modified: 19 Aug 2014 11:17
URI: http://eprints.iisc.ac.in/id/eprint/49620

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