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MLN

ABSTRACT: MLN

PROVIDER: PRJEB7634 | ENA |

REPOSITORIES: ENA

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Dataset's files

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			Action	DRS
	ERR755801_1.fastq.gz	Fastqsanger.gz
	ERR755801_2.fastq.gz	Fastqsanger.gz
	ERR755802_1.fastq.gz	Fastqsanger.gz
	ERR755802_2.fastq.gz	Fastqsanger.gz
	ERR755803_1.fastq.gz	Fastqsanger.gz

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Project description:Transcriptomics of MLN-expressing cells in human duodenum organoids

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In-vitro response pattern of mesenteric lymph node (MLN) cells to specific gut commensal microbes

Project description:Gut microbiota plays a significant role in shaping gut and systematic immune and huge strain- and species- dependent differences exit. Using in-vitro MLN co-culture models, we want to initially uncover these differences. MLN cells were isolated from C57BL/6 mice and co-cultured with bacterial cells with or without anti-CD3 and anti-CD28 antibodies for three days. After that, IL-10 in cell supernatant was measured and RNA was extracted using Trizol reagent. RNA-seq was performed on Illumina Hiseq X ten. Raw sequenced data were filtered by fastp and clean data were mapped to reference genome (Mus_musculus, GRCm39). Data processing adopted featurecounts in subread, abundance_estimates_to_matirx.pl in Trinity, DEseq and ClusterProfiler. We found that all bacterial species activated the innate immunity response. However, only Akkermansia muciniphila and Clostridium butyricum had cognate T cell antigen and activated adaptive immunity responses even without stimulus.

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