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RNA-seq of intestinal organoids after the third passage at day 5

ABSTRACT: RNA-seq of intestinal organoids after the third passage at day 5

PROVIDER: PRJNA728099 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR14466400_1.fastq.gz	Fastqsanger.gz
	SRR14466400_2.fastq.gz	Fastqsanger.gz
	SRR14466401_1.fastq.gz	Fastqsanger.gz
	SRR14466401_2.fastq.gz	Fastqsanger.gz
	SRR14466396_1.fastq.gz	Fastqsanger.gz

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RNA-seq of intestinal organoids after the third passage at day 5

Project description:The impact of MLL1 removal on intestinal organoids was evaluated in intestinal organoids from Mll1FC/+; RosaCreERT2/+ (control) and Mll1FC/FC; RosaCreERT2/+ (knockout) cultures after the third passage at day 5. Using 2x 100 bp reads, 50 million reads per sample with comparable unique mapped reads (68-87%) were obtained. To analyse differentially expressed genes, we applied DESeq2 analysis to the RNA-seq dataset. GO term analysis by DAVID at a false discovery rate (FDR) of 5% revealed that MLL1 was important for regulation of gene expression and differentiation.

2021-11-10 | GSE174070 | GEO

RNA-seq of intestinal organoids after the first passage at day 5

Project description:The impact of MLL1 removal on intestinal organoids was evaluated in intestinal organoids from Mll1FC/+; RosaCreERT2/+ (control) and Mll1FC/FC; RosaCreERT2/+ (knockout) cultures after the first passage at day 5. Using 2x 100 bp reads, 50 million reads per sample with comparable unique mapped reads (74-81%) were obtained. To analyse differentially expressed genes, we applied DESeq2 analysis to the RNA-seq dataset. GO term analysis by DAVID at a false discovery rate (FDR) of 5% revealed that MLL1 was important for regulation of gene expression and differentiation.

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RNA-seq of intestinal organoids after the first passage at day 5

Project description:RNA-seq of intestinal organoids after the first passage at day 5

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RNA-seq of intestinal organoids after the first and third passages at day 5

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scRNA-seq of intestinal epithelial organoids derived from human fetal duodenum

Project description:Here, we used single-cell RNA-sequencing (scRNA-seq) to profile intestinal epithelial only organoids (also known as enteroids) from human fetal duodenum after one passage of in vitro growth. Organoids were grown in the standard 25% LWRN media with either 100 ng/ml of epidermal growth factor (EGF) or 1 ng/ml of EPIREGULIN (EREG) added.

2022-07-17 | E-MTAB-11912 | biostudies-arrayexpress

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Project description:We aimed to investigate gene expression changes in intestinal organoids from different mouse genotypes after treatment with interferon-gamma. Wild-type, villinCreER;KrasG12D/+;Trp53fl/flRosa26N1icd/+ (KPN), and villinCreER;Apcfl/fl;KrasG12D/+;Trp53fl/flTgfbrIfl/fl (AKPT) intestinal organoids were plated, and the media was supplemented with 1 ng/mL of recombinant mouse interferon-gamma protein on Day 3. RNA was collected 24h later and processed for RNA sequencing.

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Project description:We aimed to investigate gene expression changes in intestinal organoids from different mouse genotypes after treatment with TGF-beta. Wild-type, villinCreER;KrasG12D/+;Trp53fl/flRosa26N1icd/+ (KPN), and villinCreER;Apcfl/fl;KrasG12D/+;Trp53fl/flTgfbrIfl/fl (AKPT) intestinal organoids were plated, and the media was supplemented with 5ng/mL of recombinant mouse TGFß1 protein on Day 3. RNA was collected 24h later and processed for RNA sequencing.

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