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A novel analytical brain block tool to enable functional annotation of discriminatory transcript biomarkers among discrete regions of the fronto-limbic circuit in primate brain

ABSTRACT: We describe a novel method for obtaining discrete regions from the fronto-limbic circuits of a 4 year old and a 5 year old, male, intact, frozen non-human primate (NHP) brain, from which we use transcriptional profiling and a new algorithm to identify region-exclusive RNA signatures for Area 25 (NFκB and dopamine receptor signaling), the anterior cingulate cortex (LXR/RXR signaling), the amygdala (semaphorin signaling), and the hippocampus (Caþþ and retinoic acid signaling).

ORGANISM(S): Macaca mulatta

PROVIDER: GSE64797 | GEO | 2015/07/31

SECONDARY ACCESSION(S): PRJNA271897

REPOSITORIES: GEO

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A novel analytical brain block tool to enable functional annotation of discriminatory transcript biomarkers among discrete regions of the fronto-limbic circuit in primate brain

Project description:We describe a novel method for obtaining discrete regions from the fronto-limbic circuits of a 4 year old and a 5 year old, male, intact, frozen non-human primate (NHP) brain, from which we use transcriptional profiling and a new algorithm to identify region-exclusive RNA signatures for Area 25 (NFκB and dopamine receptor signaling), the anterior cingulate cortex (LXR/RXR signaling), the amygdala (semaphorin signaling), and the hippocampus (Caþþ and retinoic acid signaling). Profiling of 4 discrete brain regions in 2 individual non-human primate subjects.

2015-07-31 | E-GEOD-64797 | biostudies-arrayexpress

Expression data from limbic area of mouse brain

Project description:Microarray results revealed that EEA treatment induced variations in several genes associated with pro-inflammatory and dopaminergic, cholinergic, glutamatergic, and serotonergic synapses. DNA microarray analysis was conducted on isolated RNAs extracted from the limbic area of EEA-treated brains

2019-03-12 | GSE128095 | GEO

Expression data from limbic area of mouse brain

Project description:Expression data from limbic area of mouse brain

| PRJNA526449 | ENA

Proteomic changes linked to the limbic stage of AD

Project description:Alzheimer's disease (AD) is a neurodegenerative disorder and the most common cause of dementia worldwide. In AD, neurodegeneration spreads throughout the brain cortex in a gradual and predictable pattern, causing progressive memory decline and cognitive impairment. Here, we conducted proteomic, acetylomic and phosphoproteomic analyses of human postmortem tissue samples from AD (Braak stage III-IV) and control brains, covering all anatomical areas affected during the limbic stage of the disease (total hippocampus, CA1, entorhinal and perirhinal cortices). A total of 58 tissues were analyzed by nanoLC-MS/MS.

2021-12-30 | PXD027173 | Pride

3’ RNA-seq of five brain structures after repeated exposure to cocaine

Project description:At the core of addiction, drug experiences induce circuit-specific transcriptional adaptations to hijack the native mechanisms of neuroplasticity and promote maladaptive behaviors. In the present study, we utilized 3’-RNA-sequencing to define the transcriptional landscapes of five brain nuclei within the reward circuit following distinct cocaine experiences. We exposed mice to cocaine (20 mg/kg, IP), acutely (single exposure), repeatedly (5 daily exposures) as well as to a challenge cocaine (acute exposure after 21 days of abstinence following repeated cocaine). We then profiled transcription (applying 3’-RNAseq) within key brain structures of the reward circuitry: limbic cortex- medial prefrontal and cingulate together (LCtx), nucleus accumbens (NAc), dorsal striatum (DS), amygdala (Amy), and lateral hypothalamus (LH) at 0, 1, 2, 4 hrs following cocaine exposure.

2021-04-14 | GSE158588 | GEO

Ancient human brain LC-MS proteomic analysys

Project description:LC-MS proteomic analysis of a 2,400-year old human brain.

2020-02-04 | PXD014178 | Pride

Expression data from limbic system in mouse brain treated with or without rosemary extract (RE)

Project description:Expression data from limbic system in mouse brain treated with or without rosemary extract (RE)

| PRJNA749937 | ENA

Comparison of mRNA transcriptomes reveals differential regulation at four different ages in Sika Deer testes

Project description:To elucidate the complex physiological process of testis development and spermatogenesis in Sika deer, this study evaluated the changes of mRNA profiles in the four developmental stages of testis the juvenile (1-year-old), adolescence (3-year-old), adult (5-year-old) and aged (10-year-old) stages. The results showed that total total of 23558 differentially expressed (DE) unigenes were obtained. 14918 (8413 up and 6505 down), 4988 (2453 up and 2535 down), 5681 (2929 up and 2752 down) DE unigenes were identified in 3-vs.1-, 5-vs.3- and 10-vs.5-year-old testes, respectively. By integrating mRNA expression profiles, we predicted 10790 mRNA-mRNA interaction sites. The target genes were enriched by GO and KEGG pathways to obtain DE mRNA (ALKBH5, Piwil, HIF1A, BRDT, etc.), which play an important role in testis development and spermatogenesis. The data show that DE mRNAs could regulate testis developmental and spermatogenesis through signaling pathways, including MAPK signaling pathway, p53 signaling pathway, PI3K-Akt signaling pathway, Hippo signaling pathway, etc. It provides a useful resource for future studies on the role of genes regulation in testis development and spermatogenesis.

2021-11-10 | GSE188368 | GEO

Comparison of miRNA transcriptomes reveals differential regulation at four different ages in Sika Deer testes

Project description:To elucidate the complex physiological process of testis development and spermatogenesis in Sika deer, this study evaluated the changes of miRNA profiles in the four developmental stages of testis the juvenile (1-year-old), adolescence (3-year-old), adult (5-year-old) and aged (10-year-old) stages. The results showed that total total of 198 mature and 66 novel miRNAs were obtained. 88 (43 up and 45 down), 102 (44 up and 58 down), 54 (18 up and 36 down) DE miRNAs were identified in 3-vs.1-, 5-vs.3- and 10-vs.5-year-old testes, respectively. By integrating miRNA expression profiles, we predicted 69883 miRNA-mRNA interaction sites. The target genes were enriched by GO and KEGG pathways to obtain DE miRNA (miR-145, miR-140, miR-7, miR-26a, etc.), which play an important role in testis development and spermatogenesis. The data show that DE miRNAs could regulate testis developmental and spermatogenesis through signaling pathways, including MAPK signaling pathway, p53 signaling pathway, PI3K-Akt signaling pathway, Hippo signaling pathway, etc. It provides a useful resource for future studies on the role of miRNA regulation in testis development and spermatogenesis.

2021-11-10 | GSE188369 | GEO

Expression data from limbic system in mouse brain treated with or without rosemary extract (RE)

Project description:Most significantly affected GOs by TST stress include Cellular localization, transport and migration such as Cellular macromolecule localization (GO:0070727), Intracellular transport (GO:0046907) and Intracellular protein transport (GO:0006886), metabolic processes such as Small molecule metabolic process (GO:0044281), Cellular amide metabolic process (GO:0043603) and Lipid metabolic process (GO:0006629), neuronal cell population differentiation and proliferation such as Neurogenesis (GO:0022008), Neuron differentiation (GO:0030182), Glial cell differentiation (GO:0010001), Central nervous system development (GO:0007417), Astrocyte differentiation (GO:0048708) and Gliogenesis (GO:0042063), and cell signaling such as G-protein-coupled receptor signaling pathway (GO:0007186), Negative regulation of signaling (GO:0023057), Positive regulation of signaling (GO:0023056), Response to endogenous stimulus (GO:0009719) and Regulation of intracellular signal transduction (GO:1902531). Peptide metabolic process (GO:0006518), Peptidyl amino acid modification (GO:0018193), Regulation of steroid biosynthetic process (GO:0050810) were also significantly enriched in the TST stress-induced mice brain. Top significantly enriched Kyoto Encyclopaedia of Genes and Genomes (KEGG) pathways by the stress response related DEGs between high-dose RE vs TST include mitogen-activated protein kinase (MAPK) signaling pathway, Chemokine signaling pathway, Neurotrophin signaling pathway, Cytokine-cytokine receptor interaction, GnRH signaling pathway, ErbB signaling pathway, Toll-like receptor signaling pathway, T cell receptor signaling pathway, B cell receptor signaling pathway, vascular endothelial growth factor (VEGF) signaling pathway, Long-term depression, NOD-like receptor signaling pathway, Insulin signaling pathway, Jak-STAT signaling pathway, Apoptosis, and mTOR signaling pathway.

2021-07-29 | GSE180884 | GEO

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