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RNA sequencing for the paired TNF-free and -treated intestinal enteroids

ABSTRACT: RNA sequencing was performed for the TNF-free and -treated enteroids derived from control (n=8 pairs) and Crohn's disease patients (n=8 pairs).

ORGANISM(S): Homo sapiens

PROVIDER: GSE174792 | GEO | 2021/05/21

REPOSITORIES: GEO

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RNA sequencing for the paired TNF-free and -treated intestinal organoids

Project description:Organoids grown from intestinal crypts of controls and patients with Crohn's disease were sub-cultured at least 6 passages. RNA sequencing was performed for the 12 paired TNF-free and -treated control and Crohn's organoids.

2020-07-03 | GSE153715 | GEO

single cell RNA sequencing for the paired TNF-free and -treated intestinal organoids

Project description:Organoids grown from intestinal crypts of controls and patients with Crohn's disease were sub-cultured at least 6 passages. Single cell RNA sequencing was performed for the paired TNF-free and -treated control and Crohn's organoids.

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RNA sequencing for the paired TNF-free and -treated intestinal enteroids

Project description:RNA sequencing for the paired TNF-free and -treated intestinal enteroids

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RNA sequencing for the paired TNF-free and -treated intestinal organoids

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INFANT AND ADULT HUMAN INTESTINAL ENTEROIDS ARE MORPHOLOGICALLY AND FUNCTIONALLY DISTINCT

Project description:Intestinal tissues from 3 infants and 3 adults were obtained and the stem cells were isolated to generate enteroids. Enteroids were differentiated for 5 days prior to RNA extraction and sequencing.

2023-08-07 | GSE227205 | GEO

Expression data from human intestinal enteroids altered for Tgfbeta signaling

Project description:We treated intestinal enteroids continuously for 6 days with or without TgfbR1/2 inhibitor (LY2109761) or Tgfb1 ligand

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Expression data from intestinal mucosa of patients with CD under anti-TNF-alpha therapy.

2014-04-08 | GSE52746 | GEO

Expression data from intestinal mucosa of patients with CD under anti-TNF-alpha therapy.

Project description:Crohn's Disease (CD) is a chronic inflammatory disease of the intestinal tract. We performed a whole-genome transcriptional analysis using colonic biopsies from CD patients before and after anti-TNF-α therapy. Involved colonic samples from Crohn's disease patients and healthy colonic samples from non-inflammatory controls were collected for RNA extraction and hybridization on Affymetrix microarrays. Inclusion criteria for CD patients were: age between 18 and 70, diagnosis of CD established at least 4 months before inclusion and exclusion of concomitant infection. Active disease was defined by endoscopic and clinical score: endoscopic active disease was defined as a CD endoscopic index of severity (CDEIS) of 5 or more and the presence of large ulcers (> 0.5 cm diameter) in at least one of the explored segments. Clinical activity was defined as a CD activity index (CDAI) above 150. Finally, a total of 39 biopsies were analyzed: 17 healthy controls, 10 active CD without anti-TNF therapy, 5 active CD with anti-TNF therapy (non-responders) and 7 inactive CD with anti-TNF therapy (responders).

2014-04-08 | E-GEOD-52746 | biostudies-arrayexpress

Human norovirus efficiently replicates in differentiated 3D-human intestinal enteroids

Project description:To investigate the effect of human norovirus infection on the trascriptome of intestinal enteroids in the presence of a Jak kinase inhibitor, Ruxolitinib

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Development of in vitro enteroids derived from bovine small intestinal crypts

Project description:In vitro 2D cultures of intestinal epithelial cells or epithelial cell lines have been widely used to study cell function and host-pathogen interactions in the bovine intestine. However, these cultures lack the cellular diversity encountered in the intestinal epithelium, and the physiological relevance of monocultures of transformed cell lines is uncertain. Little is also known of the factors that influence cell differentiation and homeostasis in the bovine intestinal epithelium, and few cell-specific markers that can distinguish the different intestinal epithelial cell lineages have been reported. Here we describe a simple and reliable procedure to establish in vitro 3D enteroid, or “mini gut”, cultures from bovine small intestinal (ileal) crypts. These enteroids contained a continuous central lumen lined with a single layer of polarized enterocytes, bound by tight junctions with abundant microvilli on their apical surfaces. Histological and transcriptional analyses suggested that the enteroids comprised a mixed population of intestinal epithelial cell lineages including intestinal stem cells, enterocytes, Paneth cells, goblet cells and enteroendocrine cells. We show that bovine enteroids can be successfully maintained long-term through multiple serial passages without observable changes to their growth characteristics, morphology or transcriptome. Furthermore, the bovine enteroids can be cryopreserved and viable cultures recovered from frozen stocks. Our data suggest that these 3D bovine enteroid cultures represent a novel, physiologically-relevant and tractable in vitro system in which epithelial cell differentiation and function, and host-pathogen interactions in the bovine small intestine can be studied.

2018-07-10 | GSE112674 | GEO

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