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Stomach metagenome

ABSTRACT: stomach microbiome shape in two gastric cancer subtypes

PROVIDER: PRJNA641258 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR12073000_1.fastq.gz	Fastqsanger.gz
	SRR12073000_2.fastq.gz	Fastqsanger.gz
	SRR12073001_1.fastq.gz	Fastqsanger.gz
	SRR12073001_2.fastq.gz	Fastqsanger.gz
	SRR12073002_1.fastq.gz	Fastqsanger.gz

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stomach metagenome

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Comparison of exon-wise expression profiling between normal and cancer tissues of human stomach

Project description:Gastric cancers account for the fourth most frequent cancer death worldwide. Although many differential gene expression profiles are reported for gastric cancers, their variation at the post-transcriptional level has not been provided yet. In this study, we compared the gene expressions of normal stomach vs. stomach cancer in an exon-wise manner and compared alternatively spliced transcripts. The RNA from normal and cancer tissues of gastric cancer patients were subjected to Exon 1.0 ST microarrays. Transcriptome analysis of RNAs from normal and cancer tissues of human stomach by exon array. We analyzed 30 pairs of normal-cancer stomach tissues using the Affymetrix Human Exon 1.0 ST platform. Array data was processed by the Affymetrix Exon Array Computational Tool.

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Transcriptional profiles of stomach organoids from human embryonic stem cells.

Project description:Gastric ulcer, which affect many of patients and is deeply related with gastric cancer, is caused by chronic gastric acid stimulation. Stomach fundus, the main body of stomach, is a major source of gastric acid and peptidase for food digestion. Recapturing the main body of stomach requires mainly 3 functionally differentiated cells; parietal (oxyntic) cells, chief (zymogenic) cells, and surface mucous foveolar (pit) cells. We have previously shown the induction of stomach tissue with functional secreting activities by directed differentiation of mouse embryonic stem cells (ES cells) to stomach primordium with both gut epithelium and splanchnic mesoderm. However, generating human stomach with fundus and such functions has been elucidated and a long-desired goal. Here, we describe the method for establishing human embryonic stem cell-derived stomach organoids with fundus gland structure. Along with mouse stomach development and de novo stomach generation from mouse ES cells in vitro, we observed gut-like structure formation from human embryonic stem cells by induction of both endoderm and mesoderm. These human embryonic gut could differentiate into stomach primordium by growth factor stimulation as well as stomach development, and form stomach tissue in three-dimensional organoid culture. Furthermore, these stomach organoids contain fundus-like gland with parietal cells and chief cells, some of secreting activities, and is transcriptionally close to human stomach. Human functional stomach derived from embryonic stem cells represent powerful tools for analying human stomach development, and gastric ulcer related disease including gastric tumorgenesis.

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Human stomach gastric cancer vs dysplasia

Project description:Human stomach gastric cancer vs dysplasia Metagenome

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Comparative genomic hybridization of non-tumor stomach tissue from gastric cancer patients

Project description:Non-tumor stomach tissue from gastric cancer patients.

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A Time-resolved Multi-omic Atlas of the Developing Mouse Stomach

Project description:The mouse stomach secrets digestive enzymes and stomach acid, and plays a key role in food digestion. While there are a few studies on the morphological changes during the stomach development, a comprehensive, systematic omics study is still missing. Here, we present a comprehensive, temporal proteome atlas of the mouse stomach by sequential mapping stomach tissues at multiple developmental stages. The quantitative analysis of 12,108 gene products provides coverage sufficient to observe the protein dynamics of the developing stomach. The whole process of stomach development can be roughly divided into three phases according to changes of RNAs or proteins. The molecular functions of protein modules pinpoint the gain of stomach functions at the longitudinal scale. Dissection of 8 key signaling pathways identified master regulators in governing stomach development and gastric cancer. Remarkably, many proteins differentially expressed in stomach development are also significantly overexpressed in diffuse-type gastric cancer, suggesting a close correlation between development and tumorigenesis. The transcriptome of the developing stomach reveals functionally important isoforms relevant to development. When combined with the proteomes, several functionally unannotated novel splicing junction transcripts were identified and validated at the peptide level. Overall, our study provides a valuable resource to understand stomach development and its connection to gastric cancer.

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Comparison of exon-wise expression profiling between normal and cancer tissues of human stomach

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Stomach ECL cell expression analysis

Project description:Gene expression analysis of stomach ECL cells and mixed gastric fundic epithelial cells Keywords: Gastric ECL cells, Subtractive Hybridization, Comparative genomic hybridization

2006-01-26 | GSE3518 | GEO

Expression data from human stomach cell lines (MKN45 and MKN45P)

Project description:Analysis to find splicing variants that are differentially expressed in a highly metastatic stomach cancer cell line, MKN45P, versus its parental cell line, MKN45 Comparison between highly metastatic gastric cancer cell line MKN45P and its parental cell line MKN45

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MicroRNA profiling of human normal stomach and gastric cancer samples to investigate the role of miRNA involvement in stomach carcinogenesis

Project description:MicroRNA (miRNA) expression profiles for gastric cancers were examined to investigate the miRNA involvement in stomach carcinogenesis. miRNA microarray analysis identified statistical unique profiles, which could discriminate stomach cancers from noncancerous stomach tissues.

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