MAGE-TAB Version 1.1 Investigation Title Transcription profiling of mechanical shear effects on flexor tendon cells Experimental Design time_series_design transcription profiling by array Experimental Design Term Source REF mo EFO Experimental Design Term Accession Number Experimental Factor Name Experimental Factor Type Experimental Factor Term Source REF Experimental Factor Term Accession Number Person Last Name Demeter Fong Person First Name Janos Kenton Person Mid Initials Person Email jdemeter@genome.stanford.edu chronometer300@yahoo.com Person Phone 726-0075 650-736-1704 Person Fax 723-7016 650-736-1705 Person Address Dept. Genetics, CCSR 2255, Stanford, CA, USA, 94305 Department of Surgery, CBRL, 257 Campus Drive, Stanford, CA, USA, 94122 Person Affiliation Stanford University Stanford University Person Roles submitter submitter Person Roles Term Source REF mo Person Roles Term Accession Number Quality Control Type Quality Control Term Source REF Quality Control Term Accession Number Replicate Type Replicate Term Source REF Replicate Term Accession Number Normalization Type Normalization Term Source REF Normalization Term Accession Number Date of Experiment Public Release Date 2005-11-09 PubMed ID 16217485 Publication DOI 16217485 Publication Author List Fong KD , Trindade MC , Wang Z , Nacamuli RP , Pham H , Fang TD , Song HM , Smith RL , Longaker MT , Chang J Publication Title Microarray analysis of mechanical shear effects on flexor tendon cells. Publication Status journal_article Publication Status Term Source REF Publication Status Term Accession Number Experiment Description Adhesion formation after flexor tendon repair remains a clinical problem. Early postoperative motion after tendon repair has been demonstrated to reduce adhesion formation while increasing tendon strength. It is hypothesized that during mobilization, tendon cells experience mechanical shear forces that alter their biology in a fashion that reduces scar formation but also activates key genes involved in tendon healing. To test this hypothesis, primary intrinsic tenocyte cultures were established from flexor tendons of 20 Sprague-Dawley rats and sheared at 50 rpm (0.41 Pa) using a cone viscometer for 6 and 12 hours. Total RNA was harvested and compared with time-matched unsheared controls using cDNA microarrays and Northern blot analysis. Microarray analysis demonstrated that mechanical shear stress induced an overall "antifibrotic" expression pattern with decreased transcription of collagen type I and collagen type III. Shear stress down-regulated profibrotic molecules in the platelet-derived growth factor, insulin-like growth factor, and fibroblast growth factor signaling pathways. In addition, shear stress induced an overall decrease in transforming growth factor (TGF)-beta signaling pathway molecules with down-regulation of TGF-beta2, TGF-beta3, TGF-RI, and TGF-RII expression. Moreover, sheared tendon cells increased expression of matrix metalloproteinases and decreased expression of tissue inhibitors of metalloproteinase, an expression pattern consistent with an antifibrotic increase in extracellular matrix degradation. However, up-regulation of genes implicated in tendon healing, specifically, vascular endothelial growth factor-A and several bone morphogenetic proteins. Interestingly, the known mechanoresponsive gene, TGF-beta1, also implicated in tendon healing, was differentially up-regulated by shear stress. Northern blot validation of our results for TGF-beta1, TGF-beta2, TGF-beta3, and collagen type I demonstrated direct correlation with microarray data. Protocol Name Protocol Type Protocol Term Source REF Protocol Term Accession Number Protocol Description Protocol Parameters Protocol Hardware Protocol Software Protocol Contact SDRF File E-SMDB-3543.sdrf.txt Term Source Name ncbitax mo ArrayExpress mo EFO Term Source File http://www.ncbi.nlm.nih.gov/Taxonomy/taxonomyhome.html http://mged.sourceforge.net/ontologies/MGEDontology.php http://www.ebi.ac.uk/arrayexpress http://mged.sourceforge.net/ontologies/MGEDontology.php http://www.ebi.ac.uk/efo/ Term Source Version Comment[Submitted Name] Fong_etal_2005 Comment[MAGETAB TimeStamp_Version] 2010-08-12 12:28:12 Last Changed Rev: 13058 Comment[ArrayExpressAccession] E-SMDB-3543 Comment[AEMIAMESCORE] 3 Comment[ArrayExpressReleaseDate] 2005-11-09