title: Group analysis of regulation of fibroblast genome on low-adhesion nanostructures.
abstract: Nanotopographical material modification represents a possible way of producing surfaces that influence cellular adhesion for biomaterials purposes. Here, two low-adhesion surfaces are studied with human genome microarrays (120nm diameter pits produced by electron beam lithography and 11nm high columns produced by colloidal lithography). In order to present the large numbers of results produced in a succinct and easy to understand manner, two types of recent bioinformatics methods were used; iterative group analysis and Ingenuity pathway analysis. These methods allowed the easy comparison of the nanomaterials and showed large-scale changes in areas of extracellular matrix, cell signalling and inflammation. The results demonstrate that whilst modes of cellular response to low-adhesion materials are similar, the more adhesion is reduced, the further 'shut-down' of critical cellular activities is observed. We also feel that the analysis used could be of interest to biomaterials scientists looking for easy ways to display microarray data efficiently.
authors.affiliation: Centre for Cell Engineering, Joseph Black Building, Institute of Biomedical and Life Sciences, University of Glasgow, Glasgow G12 8QQ, Scotland, UK. m.dalby@bio.gla.ac.uk
authors.forename: Matthew J
authors.initials: MJ
authors.lastname: Dalby
authors.forename: Nikolaj
authors.initials: N
authors.lastname: Gadegaard
authors.forename: Pawel
authors.initials: P
authors.lastname: Herzyk
authors.forename: Hossein
authors.initials: H
authors.lastname: Agheli
authors.forename: Duncan S
authors.initials: DS
authors.lastname: Sutherland
authors.forename: Chris D W
authors.initials: CD
authors.lastname: Wilkinson
mesh_terms: D000268:Adhesiveness; D001672:Biocompatible Materials / Q000737:chemistry; D018929:Cell Culture Techniques / Q000379:methods*; D002478:Cells, Cultured; D002874:Chromosome Mapping / Q000379:methods*; D005347:Fibroblasts / Q000502:physiology*; D020869:Gene Expression Profiling / Q000379:methods*; D005786:Gene Expression Regulation / Q000502:physiology*; D006801:Humans; D049329:Nanostructures / Q000737:chemistry* / Q000648:ultrastructure; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods; D010316:Particle Size; D020543:Proteome / Q000378:metabolism*; D013499:Surface Properties
chemical_list: D001672:Biocompatible Materials; D020543:Proteome