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Single cell RNA-seq from cortical cells from e16.5 HET and COP1 KO mice

ABSTRACT: Single cell RNA-seq from cortical cells from e16.5 HET and COP1 KO mice

PROVIDER: PRJNA438211 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR6831603_1.fastq.gz	Fastqsanger.gz
	SRR6831603_2.fastq.gz	Fastqsanger.gz
	SRR6831604_1.fastq.gz	Fastqsanger.gz
	SRR6831604_2.fastq.gz	Fastqsanger.gz
	SRR6831605_1.fastq.gz	Fastqsanger.gz

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Single cell RNA-seq from cortical cells from e16.5 HET and COP1 KO mice

Project description:This study investigates the changes in gene expression with COP1 loss. Single cell reoslution allowed idetnfication of changes in cell populations and in particular an increase in the number of oligodendrocytes in the COP1 KO mice.

2018-11-14 | GSE111704 | GEO

Gene expression profile at the single cell level of Gatad2b WT, Het and KO E16.5 embryos

Project description:We performed single-cell RNA sequencing (scRNA-seq) on cortical samples obtained fromGatad2bstop/+ and WT littermates at a single embryonic time point (E16.5) in order to explore underlying mechanisms of Gatad2b function. We also generated Gatad2bstop/stop scRNA-seq data to identify dosage sensitive targets of Gatad2b

2023-10-02 | GSE244477 | GEO

RNA Sequencing Analysis of Nicol-Het, Nicol-KO and Ros1-KO Caput Epididymal Transcriptomes.

Project description:Purpose: The goal of this study is to detect differentially expressed genes, between Nicol +/- (Nicol-Het), Nicol-/- (Nicol-KO), and Ros1-/- (Ros1-KO) caput epididymis by RNA sequencing Methods: Caput epidiymal mRNA profiles of 14-week-old Nicol-Het, Nicol-KO, and Ros1-KO mice were generated by deep sequencing, in triplicate, using Illumina NovaSeq6000. Results: RNA-seq data identified differentially expressed transcripts. Conclusions: Our results show that the expression of many genes were downregulated in Nicol-KO caput epididymis compared with Nicol-Het one. The gene downregulation of Nicol-KO caput epididymis was similar to that of Ros1-KO one.

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Gene expression profile at the single cell level of Gatad2b WT, Het and KO E16.5 embryos

Project description:Gene expression profile at the single cell level of Gatad2b WT, Het and KO E16.5 embryos

| PRJNA1023245 | ENA

RNAseq analysis on E14.5 cortical material from mouse, Nkx2.9 WT-vs-Het-vs-KO..

Project description:RNAseq analysis on E14.5 cortical material from mouse, Nkx2.9 WT-vs-Het-vs-KO..

| PRJNA769718 | ENA

ChIP-Seq of H3K4 methylation in neurons isolated from E16.5 mouse embryonic cortices from WT and SMCX KO mice

Project description:We conducted ChIP-Seq of H3K4 methylation in neurons isolated from E16.5 mouse embryonic cortices from WT and SMCX KO mice and harvested after 10 days in vitro culture. We sequenced H3K4me1, H3K4me3 ChIP and Input samples from mouse embryonic cortical neurons cultured in vitro for 10 days. Experiments were performed in biological and technical duplicates.

2016-01-27 | E-GEOD-61023 | biostudies-arrayexpress

Transcriptomic profiling of Cop1-deficient embryos

Project description:In order to assess the physiological role of Cop1 in vivo we generated mice that do no longer express the protein. Cop1KO mice die at around E10.5 of embryonic development. In order to gain insights into the molecular mechanisms that cause the embryonic death we compared the genome-wide gene expression profile of E9.5 wild-tytpe and Cop1-null embryos. The data do not support a role for Cop1 in the regulation of the p53 pathway in vivo and highlight a role for Cop1 in cardiovascular development and/or angiogenesis. The abstract of the associated publication is as follows:Biochemical data have suggested conflicting roles for the E3 ubiquitin ligase Cop1 in tumourigenesis. Here we present the first in vivo investigation of the role of Cop1 in cancer aetiology. We used an innovative genetic approach to generate an allelic series of Cop1 and show that Cop1 hypomorphic mice spontaneously develop malignancy at a high frequency in their first year of life and are highly susceptible to radiation-induced lymphomagenesis. Biochemically, we show that Cop1 regulates c-Jun oncoprotein stability and modulates c-Jun/AP1 transcriptional activity in vivo. Cop1-deficiency stimulates cell proliferation in a c-Jun-dependent manner. We conclude that Cop1 is a tumour suppressor that antagonizes c-Jun oncogenic activity in vivo. RNA from 6 different control embryos (+/+ or +/-) were mixed and subdivided into control pool 1 and pool 2. RNA from 6 different Cop-null embryos were mixed and subdivided into KO pool 1 and pool 2.

2011-01-13 | E-GEOD-18636 | biostudies-arrayexpress

RNA-seq of E16.5 mouse cortical neurons depolarized with 55mM KCl for 0h, 2h and 6h.

Project description:We performed RNA-seq of E16.5 mouse cortical neurons depolarized with 55mM KCl for 0h, 2h and 6h.

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Age-dependent comparison of transcriptional signature of lamina propria anti-inflammatory macrophages of Il10rb-/- (KO) and Il10rb+/- (het) mice

Project description:We report that colonic lamina propria anti-inflammatory macrophages from Il10rb-/- (KO) mice at 12 weeks possessed significantly high levels of proinflammatory transcripts compared to the ones from Il10rb+/- (het) controls. While the transcriptional profile between macrophages from KO and het mice was comparable at 1 weeks and did not possess significant levels of proinflammatory transcripts, we show that the macrophages from KO mice were enriched for proinflammatory transcripts at 3 weeks compared to the ones from 3 week old het controls. These data indicate that the anti-inflammatory signature of colonic lamina propria macrophages from Il10rb-/- mice is compromized at 3 weeks.

2017-08-03 | GSE97875 | GEO

Kinetics of LPS induction in wt and Cop1-ko BMDMs

Project description:Bone marrow was extracted from mice that are COP1-wt Rosa26-CreERT2 or COP1-floxed Rosa26-CreERT2 BMDMs were obtained by culturing bone marrow precursors in media containing 20% of supernatant from L929 cells. At day 4 of differentiation 4-OHT was added at 1uM to induce deletion of COP1 in BMDMs derived from COP1-floxed mice. At day 7 of differentiation, BMDMs were treated with 100 ng/ml of LPS or not. BMDMs were directly harvested in lysis buffer (from Qiagen RNeasy mini kit) at different time points (0h, 2.5h, 2.5h, 4h, 6h, 9h and 13h) following LPS stimulation. Three BMDMs preparations per group: G1: BMDMs from COP1-wt mice (expressing the wt allele of COP1) CRE positive. G2: BMDMs from COP1-floxed mice (expressing the floxed allele of COP1) CRE positive

2018-10-03 | GSE114762 | GEO

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