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ABSTRACT: Transcriptome profile of corpus callosum of AKAP12 KO mice

PROVIDER: PRJNA1093100 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR28490745_1.fastq.gz	Fastqsanger.gz
	SRR28490745_2.fastq.gz	Fastqsanger.gz
	SRR28490746_1.fastq.gz	Fastqsanger.gz
	SRR28490746_2.fastq.gz	Fastqsanger.gz
	SRR28490747_1.fastq.gz	Fastqsanger.gz

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Bulk RNAseq of AnnexinV+ and AnnexinV- cells from the Mertk-KO corpus callosum at the 4 week cuprizone timepoint

Project description:Purpose: Following 4 weeks of 0.2% cuprizone treatment, Mertk-KO mice accumulate dying cells in the corpus callosum (based on cleaved-cas3 staining). These cells are not seen in Mertk-WT animals at the same cuprizone timepoint. The goal of this study is to identify these dying cells in the Mertk-KO corpus callosum Methods: 2 biological replicates (mice) were used. Corpus callosa were dissected from Mertk-KO mice after 4 weeks of 0.2% cuprizone treatment. Tissues were dissected into single cells using Miltenyi Neural Tissue Dissociation Kit (P) and stained with Annexin V. The stained cell suspensions were then FAC sorted into Annexin V+ and Annexin V- populations. RNA from these cells were extracted using QIAGEN RNeasy kit. Results: Bulk RNA-Seq data were analyzed using an in-house pipeline consisting of GSNAP HTSeqGenie. Reads aligning uniquely to exons were counted to each gene, and size-factor normalization was used to calculating nRPKM statistic. Conclusions: Based on the differences of transcriptomic profiles of AnnexinV+ and AnnexinV- cells, we conclude that the dying AnnexinV+ cells are microglia.

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Project description:Transcriptome profile of corpus callosum of 2-week-old C57BL/6J mice

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The foam cell-derived exosomes exacerbate ischemic white matter injury via transmitting metabolic defects to microglia

Project description:Experimental atherosclerosis was established by feeding Apoe KO mice a western diet(WD) for 14 weeks and experimental cerebral ischemia was established by bilateral carotid artery stenosis (BCAS). RNA-seq was perfomed to investigate the potential gene regulation of AS-Exos-dependent changes of microglia in the corpus callosum after BCAS.

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Unique microglia expression profile in developing white matter.

Project description:Recently we demonstrated that amoeboid microglia in white matter regions are essential for proper oligodendrocyte homeostasis and myelinogenesis in the first postnatal week of mice. Amoeboid microglia in the corpus callosum change their activation profile already within few days after postnatal day (P)7 and microglia of the cerebellum show similar features to callosal microglia. Here we expanded our previous transcriptional analysis and performed bulk RNA sequencing of microglia during development in a detailed way in P7, P10 and P42 microglia from corpus callosum, cortex and cerebellum. The goal of this study was to identify a specific gene profile for both, white matter and grey matter microglia during development.

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Gene expression profiles from corpus callosum brain tissue obtained from cuprizone-treated mice

Project description:Mouse cuprizone (CPZ ) model of experimental de- and remyelination was applied to mimic demyelination pathology of multiple sclerosis. The aim of the study was to profile whole genome expression to identify differentially expressed genes during the demyelinisation and after discontinuation of cuprizon treatment, during rapid remyelinisation in affected areas of mouse corpus callosum. Control mice were kept on a normal diet. The following groups representing de- and remyelinisation pathology in corpus callosum of CPZ-treated mice were compared: Partial demyelination: 2weeks CPZ (dem_2w); Complete demyelination: 4weeks CPZ (dem_4w); Remyelination: 4weeks CPZ + UNTREATED (rem); and UNTREATED control (C). The experiments were performed using 3-4 animals per groups.

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Project description:scRNAseq of Mertk-WT and Mertk-KO corpus callosum

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Fibrinogen promotes autoimmunity and demyelination via chemokine release and antigen presentation [Mm]

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