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High-throughput sequencing Transcriptomes Analysis of WT and Kcnj2 KO mouse BMDMs treated with LPS or kir2.1 inhibitor

ABSTRACT: High-throughput sequencing Transcriptomes Analysis of WT and Kcnj2 KO mouse BMDMs treated with LPS or kir2.1 inhibitor

PROVIDER: PRJNA609623 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR11213110_1.fastq.gz	Fastqsanger.gz
	SRR11213110_2.fastq.gz	Fastqsanger.gz
	SRR11213111_1.fastq.gz	Fastqsanger.gz
	SRR11213111_2.fastq.gz	Fastqsanger.gz
	SRR11213112_1.fastq.gz	Fastqsanger.gz

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High-throughput sequencing Transcriptomes Analysis of WT and Kcnj2 KO mouse BMDMs treated with LPS or kir2.1 inhibitor

Project description:Purpose:Mouse BMDM is the universal cell type of studying innate immunity.This study was to analyze LPS induced innate immune response and the relationship between the inward rectifier potassium channel Kir2.1 and LPS induced innate immune respone Methods: WT and Kcnj2 KO BMDM cells were treated with or without LPS for 6 hours in the presence of kir2.1 inhibitor ML133 or not. Then mRNA profiles of these samles were generated by High-throughput sequencing analysis, in triplicate, using illumina HiSeq 2000. And the differential mRNA profiles were analyzed. Results: mRNA profiles of more than 20000 genes were analyzed, and differential expression profiles were compared . Conclusions: Our study represents the first detailed analysis of transcriptomes of WT and Kcnj2 KO mouse BMDM treated with LPS or kir2.1 inhibitor, with biologic replicates, generated by RNA-seq technology. This data was useful to analyze the relationship between Kir2.1 and LPS induced innate immune respone

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Kinetics of LPS induction in wt and Cop1-ko BMDMs

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LPS time-course in WT and Stk40 KO BMDMs

Project description:Bone marrow was harvested from Rosa26CreER; Stk40+/+ (WT; n = 3) and Rosa26CreER; Stk40loxp/loxp (Stk40 KO; n = 3) mice and differentiated for 6 days in the presence of 100 nM 4-OHT to generate WT and Stk40 KO bone-marrow derived macrophages (BMDMs). 2. On day 7 following differentiation BMDMs were treated with 100 ng x ml-1 LPS and harvested at 0 hrs, 6 hrs, 16 hrs, and 32 hrs following LPS exposure. 3. The cells were snap-frozen at the time of harvest. RNA was extracted using the Qiagen RNeasy mini kit as per manufacturer’s protocol including the on-column DNase digestion. Groups: There are cells from 3 mice x 2 genotypes x 4 time points G1: WT 0 hr LPS G2: WT 6 hr LPS G3: WT 16 hr LPS G4: WT 32 hr LPS G5: Stk40 KO 0 hr LPS G6: Stk40 KO 6 hr LPS G7: Stk40 KO 16 hr LPS G8: Stk40 KO 32 hr LPS

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Project description:Gene expression in bone marrow-derived macrophages (BMDMs) from WT and mice lacking the transcriptional repressor Kruppel-like factor 3 (KLF3). We cultured BMDMs from bone marrow for 7-10 days then treated cells with 100 ng/mL lipopolysaccharide (LPS) or vehicle (PBS) for 0 h or 8 h, followed by RNA extraction. We aimed to investigate deregulated genes and pathways in macrophages lacking KLF3, during the inflammatory response to endotoxin (LPS).

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LPS time-course in WT and Stk40 KO BMDMs

Project description:LPS time-course in WT and Stk40 KO BMDMs

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