title: High density gene expression microarrays and gene ontology analysis for identifying processes in implanted tissue engineering constructs.
abstract: The in vivo performance of tissue-engineered constructs is often based on generally accepted read-out parameters, like (immuno)histology. In this study, high-density gene expression microarrays and gene ontology (GO) analysis were used as a read-out tool to identify the biological processes occurring after implantation of an acellular collagen-based skin construct using a rat full-thickness wound model. A freely-available program (DAVID) was used to identify up/downregulated biological processes (GO-terms) and results were compared to wound healing/regeneration without a construct. The entire process from RNA isolation to biological interpretation is explained step-by-step. Conventional (immuno)histology was used to validate the biological processes identified and indicate that microarray analysis may provide a valuable, fast and unbiased tool to evaluate the in vivo performance of tissue-engineered constructs. However, challenges remain e.g. with regards to the development of specific GO-terms and annotation of the (rat) genome.
authors: Department of Biochemistry 280, Nijmegen Centre for Molecular Life Sciences, Radboud University Nijmegen Medical Centre, P.O. Box 9101, 6500 HB Nijmegen, The Netherlands.
authors: Gerwen
authors: G
authors: Lammers
authors: Christian
authors: C
authors: Gilissen
authors: Suzan T M
authors: ST
authors: Nillesen
authors: Peter J E
authors: PJ
authors: Uijtdewilligen
authors: Ronnie G
authors: RG
authors: Wismans
authors: Joris A
authors: JA
authors: Veltman
authors: Willeke F
authors: WF
authors: Daamen
authors: Toin H
authors: TH
authors: van Kuppevelt
mesh_terms: D000818:Animals; D020869:Gene Expression Profiling / Q000295:instrumentation; D005786:Gene Expression Regulation; D008297:Male; D020411:Oligonucleotide Array Sequence Analysis / Q000295:instrumentation; D012313:RNA / Q000235:genetics / Q000302:isolation & purification; D051381:Rats; D017208:Rats, Wistar; D012867:Skin / Q000378:metabolism / Q000648:ultrastructure; D017768:Skin, Artificial; D023822:Tissue Engineering
chemical_list: D012313:RNA