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Cross-species single-cell transcriptomic analysis reveals the landscape of animal gastric antrum

ABSTRACT: Cross-species single-cell transcriptomic analysis reveals the landscape of animal gastric antrum

PROVIDER: PRJNA934886 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR23455348_1.fastq.gz	Fastqsanger.gz
	SRR23455348_2.fastq.gz	Fastqsanger.gz
	SRR23455349_1.fastq.gz	Fastqsanger.gz
	SRR23455349_2.fastq.gz	Fastqsanger.gz
	SRR23455350_1.fastq.gz	Fastqsanger.gz

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Cross-species single-cell transcriptomic analysis reveals the landscape of animal gastric antrum [scRNA-Seq]

Project description:Purpose: To reveal the consistency and difference of gastric antrum epithelial cells among species and provides insights into the selection of model organisms in different research directions in the future. Methods:In this study, we collected antrum epithelial tissues from human, pig, rat and mouse for scRNA-seq and conducted cross species analysis. Results: In pig antral epithelium, we identify a novel cell cluster. We also discovered that the porcine antral epithelium owns stronger immune function than the other species. Further analysis reveals this may be due to the insufficient function of porcine immune cells. Conclusions:Our results replenish the information of multiple species of gastric antral epithelium at the single cell level, providing data resources for understanding the basic situation of gastric antrum epithelial cells.

2023-09-11 | GSE225275 | GEO

Cross-species single-cell transcriptomic analysis reveals the landscape of animal gastric antrum [RNA-Seq]

Project description:Cross-species single-cell transcriptomic analysis reveals the landscape of animal gastric antrum [RNA-Seq]

| PRJNA934889 | ENA

Cross-species single-cell transcriptomic analysis reveals the landscape of animal gastric antrum [scRNA-Seq]

Project description:Cross-species single-cell transcriptomic analysis reveals the landscape of animal gastric antrum [scRNA-Seq]

| PRJNA934888 | ENA

Cross-species single-cell transcriptomic analysis reveals the landscape of animal gastric antrum

Project description:This SuperSeries is composed of the SubSeries listed below.

2023-09-11 | GSE225276 | GEO

Cross-species single-cell transcriptomic analysis reveals the landscape of animal gastric antrum [RNA-Seq]

Project description:Purpose: One goal of the bulk RNA-seq of organoids is to verify the differentially expressed genes between species identified by scRNA-seq .The other goal is to detected the differentially expressed genes when organoids from different species were treated with TNFα Methods: The total RNA from organoids was extracted by RNeasy Mini Kit (Qiagen). After total RNA extraction and then subjected to high-throughput sequencing on an Illumina Novaseq 6000 platform. Results: Most of the differentially expressed genes between species identified by bulk RNA-seq are consistent with the genes filtered by scRNA-seq. Conclusions: F3 and CLCA1 show higher expression in organoids of pig antral epithelium than in other three species. TNFα treatment upregulated the expression of immune response genes in all species

2023-09-11 | GSE225274 | GEO

miRNA analysis in myofibroblats derived from normal stomach, both antrum (A) and corpus (C) separately and gastric cancers

Project description:We prepared miRNA from myofibroblats derived from normal stomach, both antrum (A) and corpus (C) separately and gastric cancers. miRCURYTM LNA Array ver5 was performed and comparisons were made by the dual (reference) method.

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Cross-species single-cell transcriptomic analysis of animal gastric antrum reveals intense porcine mucosal immunity.

Project description:As an important part of the stomach, gastric antrum secretes gastrin which can regulate acid secretion and gastric emptying. Although most cell types in the gastric antrum are identified, the comparison of cell composition and gene expression in the gastric antrum among different species are not explored. In this study, we collected antrum epithelial tissues from human, pig, rat and mouse for scRNA-seq and compared cell types and gene expression among species. In pig antral epithelium, we identified a novel cell cluster, which is marked by high expression of AQP5, F3, CLCA1 and RRAD. We also discovered that the porcine antral epithelium has stronger immune function than the other species. Further analysis revealed that this may be due to the insufficient function of porcine immune cells. Together, our results replenish the information of multiple species of gastric antral epithelium at the single cell level and provide resources for understanding the homeostasis maintenance and regeneration of gastric antrum epithelium.

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Healthy Antrum miRnome

Project description:A small RNA library of stomach antrum tissue was sequenced using high-throughput SOLiD sequencing technology. The study aims to provide complementary information of the role of miRNAs in molecular regulation process in the healthy human stomach, in order to establish a reference for future comparisons of altered miRNA expression due to the gastric tract diseases.

2014-03-26 | E-MTAB-2273 | biostudies-arrayexpress

Metabolomics Workbench ST000354 - GNPS - Metabolite comparison of mouse gastric tissue and glands

Project description:The goal of this project was to compare the metabolite profiles of the: mouse gastric antrum and the mouse gastric corpus, the mouse gastric antrum and the mouse gastric antrum isolated glands, and the mouse gastric corpus and the mouse gastric corpus isolated glands.

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miRNA expression from gp130F/F mice antrum at 4 weeks of age

Project description:The molecular events promoting the initiation of gastric cancer (GC), the third most lethal cancer worldwide, are ill-defined. Here, we demonstrate that upregulation of miR-200 family members is associated with tumor initiation in the gp130F/F mouse model of early GC. The onset of gastric inflammation-associated adenomatous hyperplasia in gp130F/F mice occurs at ~6 weeks of age, with established intestinal-type tumors (3 months of age) progressively growing until a maximum size is reached at 6 months of age, with some evidence of carcinoma in situ. Since this phenotype histologically mimics early stage human GC, we therefore utilized gp130F/F mice as a model to identify miRNAs involved in the initiating molecular events leading to early stage GC. For this purpose, we performed miRNA microarrays on mouse gastric antrum tissue from gp130F/F and sex-matched littermate wild-type (gp130+/+) control mice aged 4 weeks; this age was chosen since antrum tissue from 4 week old (wo) gp130F/F mice is devoid of any histological signs of inflammation or hyperplasia, and is thus comparable to wild-type gastric antrum tissue

2017-12-01 | GSE93169 | GEO

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