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Transcriptome from mouse Ts65Dn adult hippocampi and entorhinal cortices

ABSTRACT: Transcriptome from mouse Ts65Dn adult hippocampi and entorhinal cortices

PROVIDER: PRJNA881248 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR21603301.fastq.gz	Fastqsanger.gz
	SRR21603302.fastq.gz	Fastqsanger.gz
	SRR21603303.fastq.gz	Fastqsanger.gz
	SRR21603304.fastq.gz	Fastqsanger.gz
	SRR21603305.fastq.gz	Fastqsanger.gz

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Transcriptome from mouse Ts65Dn adult hippocampi and entorhinal cortices

Project description:We have created the Ts66Yah a new model for Down syndrome or T21, derived from the Ts65Dn. Ts66Yah does not contain a set of genes present in 3 copies that are not linked to T21. On this model (Ts66), we performed an RNA seq analysis on 2 structures (hippocampus and entorhinal cortex, ref: S18276) and we have done the same experiment on the Ts65Dn line to compare the 2 models. For this we sampled the hippocampus (hippo) and the entorhinal cortex (EntCortex) from 6 wild-type control male littermate animals and 6 males trisomic individual (Ts66 or Ts65).

2022-09-20 | GSE213500 | GEO

Transcriptome from mouse Ts66Yah adult hippocampi and entorhinal cortices

Project description:Transcriptome from mouse Ts66Yah adult hippocampi and entorhinal cortices

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Transcriptome from mouse Ts66Yah adult hippocampi and entorhinal cortices

2022-09-20 | GSE213502 | GEO

Expression profile of cortices, hippocampi and brainstems of Nrf2 knockout mice under unstressed conditions

Project description:Microarray analysis of cortices, hippocampi and brainstems of Nrf2 knockout mice, Three independent RNAs from cortices, hippocampi and brainstems of Nrf2 knockout and wild-type control mice were used for the microarray analyses.

2013-08-05 | E-GEOD-47587 | biostudies-arrayexpress

Expression profile of cortices, hippocampi and brainstems of Nrf2 knockout mice under unstressed conditions

Project description:Microarray analysis of cortices, hippocampi and brainstems of Nrf2 knockout mice,

2013-08-05 | GSE47587 | GEO

Transcription profiling of Ts65Dn vs control mice in nine different mouse tissues

Project description:To understand the molecular basis of Down syndrome pathogenesis, we performed a transcriptome analysis of nine different tissues in Ts65Dn, an established mouse model of human trisomy 21. Ts65Dn mice have segmental trisomy of mouse chromosome 16 with ca. 128 genes at dosage imbalance (Reeves et al. 1995). The Ts65Dn mouse is widely used as a model for studies of DS because it is at dosage imbalance for the orthologs of about half the 284 Chr21 genes. Ts65Dn mice have several features that directly parallel developmental anomalies of DS. We compare here the expression of 136 mouse orthologs of Chr21 genes, 77 of which are triplicated in Ts65Dn, in trisomic and euploid mice. We designed a mouse cDNA expression array interrogating 136 mmu21 genes. RNA pools from four adult male Ts65Dn mice and four male euploid littermates were prepared from cortex and dissected from three to four month-old mice. Directly labeled first strand cDNA probes from nine different tissues were hybridized to the arrays in replicated hybridizations. A total of 446 genes that are not triplicated in Ts65Dn mice served as controls. These included 62 mmu21 genes from MMU10, MMU17, and non-triplicated portions of MMU16, plus 384 randomly distributed mouse cDNAs from the Unigene collection.

2004-04-23 | E-MEXP-102 | biostudies-arrayexpress

Transcriptomic Taxonomy and Neurogenic Trajectories of Adult Human, Macaque and Pig Hippocampal and Entorhinal Cells

Project description:The hippocampal-entorhinal system supports cognitive functions, has lifelong neurogenic capabilities in many species, and is selectively vulnerable to Alzheimer’s disease. To investigate neurogenic potential and cellular diversity, we profiled single-nucleus transcriptomes in five hippocampal-entorhinal subregions in human, macaque, and pig. Integrated cross-species analysis revealed robust transcriptomic and histologic signatures of neurogenesis in adult mouse, pig and macaque, but not humans. Doublecortin (DCX), a widely accepted marker of newly generated granule cells, was detected in diverse human neurons, but it did not define immature neuron populations. To explore species differences in cellular diversity and implications for disease, we characterized subregion-specific transcriptomically-defined cell types and transitional changes from the three-layered archicortex to the six-layered neocortex. Notably, METTL7B defined subregion-specific excitatory neurons and astrocytes in primates, associated with endoplasmic reticulum and lipid droplet proteins, including Alzheimer's disease-related proteins. Together this resource reveals cell-type- and species-specific properties shaping hippocampal-entorhinal neurogenesis and function.

2021-11-18 | GSE186538 | GEO

Pro-cognitive treatments restore hippocampal proteomic and kinome alterations in Ts65Dn mice

Project description:Down syndrome is the main genetic cause of intellectual disability and is due to triplication of human chromosome 21 (HSA21). Green tea extracts containing epigallocatechin-3-gallate (green tea) improve cognition both in mouse models and individuals with Down syndrome. We here analyzed the proteome and phosphoproteome alterations in a Down syndrome mouse model, the partial trisomic Ts65Dn mice, and the effect produced by the green tea extract and environmental enrichment (EE). Trisomic hippocampi presented a dysregulated proteome, especially when looking at the phosphorylation level in cognitive-related categories (synaptic proteins, neuronal projection, neuron development, microtubule), and GTPases/kinase activity and chromatin related categories. Green tea, EE, and their phospholipids in the plasma membrane and regulates signal transduction pathways, transcription factors, DNA methylation, mitochondrial function and phosphorylation, and autophagy to exert many of its beneficial biological actions Of interest for DS, it inhibits the activity of the Dual Specificity Tyrosine-Phosphorylation-Regulated Kinase 1A (DYRK1A), a DS candidate gene located in the 21q22.2 human chromosome region4,5. Previous work from our group showed that EGCG partially rescues the effects of overexpression of a DS candidate gene, DYRK1A, on the proteome and phosphoproteome of the hippocampus of TgDyrk1A mice6. However, the extent to which these mechanisms apply to a trisomy scenario is unknown. To get insight in these mechanisms we analyzed changes in protein abundances and phosphorylation in Ts65Dn mice, and their disomic counterparts in baseline conditions and upon three treatments known to improve cognition in Ts65Dn: i) green tea extract containing EGCG, ii) environmental enrichment (EE), and iii) their combination.

2020-10-13 | PXD018515 | Pride

Affymetrix expression arrays from heart extracted RNA in Ts65Dn and Ms5Yah and Ts65DnMs5Yah mouse models

Project description:Affymetrix Mouse Gene 1.0 ST hydridization using wt extracts from adult mice hearts as controls and Ts65Dn, Ms5Yah and Ts65Dn/Ms5Yah samples. N = 5 mices per group of genotype. Goal : assess the gene dosage effect on partial trisomic/monosomic mice modelling human Down syndrome.

2011-10-05 | E-MEXP-3355 | biostudies-arrayexpress

Single cell ATAC-seq identifies broad changes in neuronal abundance and gene regulation in Down Syndrome

Project description:To characterize cellular and molecular changes associated with Down Syndrome, we performed single-cell combinatorial indexing assay for transposase accessible chromatin using sequencing (sci-ATAC-seq) on cortices of adult Ts65Dn mice and control littermates. Analyses of 13,766 cells revealed 26 classes of cells in the cortices of both genotypes. The most abundant cells, a class of excitatory neurons, was reduced by (~17 %) in Ts65Dn mice; three of the four most common classes of interneurons were increased, with a total increase of ~50 % of all interneurons. Ts65Dn mice display changes in accessibility at motifs of transcription factors encoded within the triplicated locus, and those that are determinants of neuronal lineage.

2019-05-20 | GSE127257 | GEO

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