Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

Profiling skin from Carrageenan (CGN) rat model for inflammation pain

ABSTRACT: This program aims at identifying a skin gene signature associated with inflammation pain in rat CGN model The profiling data was analyzed by identifying genes that were up- and down-regulated at selected p value and fold change in the skin of rats treated with CGN (to induce pain) compared to the corresponding non-treated controls.

ORGANISM(S): Rattus norvegicus

SUBMITTER: I-Ming Wang

PROVIDER: E-GEOD-38072 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Publications

Systems analysis of eleven rodent disease models reveals an inflammatome signature and key drivers.

Wang I-Ming IM Zhang Bin B Yang Xia X Zhu Jun J Stepaniants Serguei S Zhang Chunsheng C Meng Qingying Q Peters Mette M He Yudong Y Ni Chester C Slipetz Deborah D Crackower Michael A MA Houshyar Hani H Tan Christopher M CM Asante-Appiah Ernest E O'Neill Gary G Luo Mingjuan Jane MJ Thieringer Rolf R Yuan Jeffrey J Chiu Chi-Sung CS Lum Pek Yee PY Lamb John J Boie Yves Y Wilkinson Hilary A HA Schadt Eric E EE Dai Hongyue H Roberts Christopher C

Molecular systems biology 20120717

Common inflammatome gene signatures as well as disease-specific signatures were identified by analyzing 12 expression profiling data sets derived from 9 different tissues isolated from 11 rodent inflammatory disease models. The inflammatome signature significantly overlaps with known drug targets and co-expressed gene modules linked to metabolic disorders and cancer. A large proportion of genes in this signature are tightly connected in tissue-specific Bayesian networks (BNs) built from multiple ...[more]

PMID: 22806142

Similar Datasets

Project description:Herein we demonstrate the efficacy of an unbiased proteomics screening approach for studying protein expression changes in the KC-Tie2 psoriasis mouse model, identifying multiple protein expression changes in the mouse and validating these changes in human psoriasis. KC-Tie2 mouse skin samples (n=3) were compared with littermate controls (n=3) using gel-based fractionation followed by label-free protein expression analysis. 5482 peptides mapping to 1281 proteins were identified and quantitated: 105 proteins exhibited fold-changes ≥2.0 including: stefin A1 (average fold change of 342.4 and an average P = 0.0082; cystatin A, human orthologue); slc25a5 (average fold change of 46.2 and an average P = 0.0318); serpinb3b (average fold change of 35.6 and an average P = 0.0345; serpinB1, human orthologue); and kallikrein related peptidase 6 (average fold change of 4.7 and an average P = 0.2474; KLK6). We independently confirmed mouse gene expression-based increases of selected genes including serpinb3b (17.4-fold, P < 0.0001), KLK6 (9.0-fold, P = 0.002), stefin A1 (7.3-fold; P < 0.001) and slc25A5 (1.5-fold; P = 0.05) using qRT-PCR on a second cohort of animals (n=8). Parallel LC/MS/MS analyses on these same samples verified protein-level increases of 1.3-fold (slc25a5; P < 0.05), 29,000-fold (stefinA1; P < 0.01), 322-fold (KLK6; P < 0.0001) between KC-Tie2 and control mice. To underscore the utility and translatability of our combined approach, we analyzed gene and protein expression levels in psoriasis patient skin and primary keratinocytes vs. healthy controls. Increases in gene expression for slc25a5 (1.8-fold), cystatin A (3.0-fold), KLK6 (5.8-fold) and serpinB1 (76-fold; all P < 0.05) were observed between healthy controls and involved lesional psoriasis skin and primary psoriasis keratinocytes. Moreover slc25a5, cystatin A, KLK6 and serpinB1 protein were all increased in lesional psoriasis skin compared to normal skin. These results highlight the usefulness of preclinical disease models using readily-available mouse skin and demonstrate the utility of proteomic approaches for identifying novel peptides/proteins that are differentially regulated in psoriasis that could serve as sources of auto-antigens or provide novel therapeutic targets for the development of new anti-psoriatic treatments.

Dataset Information

Profiling skin from Carrageenan (CGN) rat model for inflammation pain

Publications

Systems analysis of eleven rodent disease models reveals an inflammatome signature and key drivers.

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure