Dataset Information

Genetic Impact of Chronic Inflammation On Colon Mucosa Cells through Whole Exome Sequencing

ABSTRACT: To investigate whether chronic inflammation contribute to colon carcinogenesis development by somatic mutation accumulation, chronic colitis mouse model was established and then colon mucosa and muscularis mucosae tissue were separated for whole exome sequencing

INSTRUMENT(S): Illumina HiSeq 2500

ORGANISM(S): Mus Musculus

SUBMITTER: The First Peoples Hospital of Foshan,China

PROVIDER: PRJEB48005 | EVA | 2021-10-11

REPOSITORIES: EVA

ACCESS DATA

Dataset's files

Source:

			Action	DRS
	8-W-Derm.GATK.var.accessioned.vcf.gz	Vcf
	8-W-Derm.GATK.var.accessioned.vcf.gz.csi	Vcf
	8-W-Derm.GATK.var.accessioned.vcf.gz.tbi	Vcf
	8-W-Derm.GATK.var.vcf.gz	Vcf
	8-W-Derm.GATK.var.vcf.gz.csi	Vcf

Items per page:

1 - 5 of 60

Similar Datasets

Project description:The periodontium are the tissues supporting and investing the tooth and consists of the periodontal ligament, the gingiva, the root cementum, and the alveolar bone. The functions of the cell populations in health and disease regarding the host-mediated tissue destruction are not well understood. To get a first idea, of which genes might play a distinct role in chronic periodontal disease in vivo, we compared the genom-wide gene expressions of chronic inflamed and healthy periodontal ligament cells by microarray analysis and validated the data by real-time RT-PCR. The expression rates of 14.239 genes were investigated and 3.018 of them were found differentially expressed by at least two-fold, the expression rates of 1.451 genes were significantly up-regulated and the expression rates of 1.567 genes were significantly down-regulated in inflamed PDL cells. We focused on mainly structural components, for example, laminins and integrins, as well as degrading enzymes, for example, MMPs and cathepsins. The molecular composition of the laminin network varies in chronic inflamed compared to healthy PDL cells in vivo. Furthermore, integrin alpha6beta4, together with laminin-332, might be involved in chronic periodontal inflammation. Findings that diverse keratins were upregulated in chronic disease indicate that the epithelial cell rests of Malassez might also be involved in chronic periodontal inflammation. Also cathepsin B and cathepsin C might participate in the connective tissue destruction. The microarray analysis has identified a profile of genes potentially involved in chronic periodontal inflammation in vivo. Further studies are needed to entirely understand cellular activities during chronic periodontal inflammation in vivo. Experiment Overall Design: Periodontal tissue was collected from 32 patients at the Dental Medical School of the University of Goettingen (12 men, 20 women, aged between 18 and 72 years) from March 2005 to Dezember 2005. The tissue probes were taken from teeth, either extracted for orthodontic reasons (healthy periodontium) or because of chronic periodontal lesions. The differentiation between both collectives was performed using clinical and radiological parameters (clinical attachment loss, increase in probing depth, and radiographic bone loss). A detailed anamnesis of each patient was explored. All patients were without a medical history and were not on medication. In addition, the tissue samples used in our study were only taken from non-smokers. The extracted teeth were immediately frozen and stored at -80Â°C. All patients who participated in the study were informed about the nature and aim of this project and gave their written informed consent. The study was approved according to the regulations of the Ethics Committee of the Medical Faculty of the University of Goettingen.

Dataset Information

Genetic Impact of Chronic Inflammation On Colon Mucosa Cells through Whole Exome Sequencing

Dataset's files

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure

Tweets