Mus musculus
Ontology highlight
ABSTRACT:
OTHER RELATED OMICS DATASETS IN: GSE79380
PROVIDER: PRJNA315666 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR3236810.fastq.gz | Fastqsanger.gz | |||
| SRR3236820.fastq.gz | Fastqsanger.gz | |||
| SRR3236811.fastq.gz | Fastqsanger.gz | |||
| SRR3236821.fastq.gz | Fastqsanger.gz | |||
| SRR3236812.fastq.gz | Fastqsanger.gz |
Items per page: 5 1 - 5 of 21 |
Similar Datasets
Project description:Dynamics of transcriptional profiles during memory formation in the mouse hippocampus
| PRJDB3811 | ENA
Project description:Selvarasu2009 - Genome-scale metabolic
network of Mus Musculus (iSS724)
This model is described in the article:
Genome-scale modeling and in
silico analysis of mouse cell metabolic network.
Selvarasu S, Karimi IA, Ghim GH, Lee
DY.
Mol Biosyst 2010 Jan; 6(1):
152-161
Abstract:
Genome-scale metabolic modeling has been successfully
applied to a multitude of microbial systems, thus improving our
understanding of their cellular metabolisms. Nevertheless, only
a handful of works have been done for describing mammalian
cells, particularly mouse, which is one of the important model
organisms, providing various opportunities for both biomedical
research and biotechnological applications. Presented herein is
a genome-scale mouse metabolic model that was systematically
reconstructed by improving and expanding the previous generic
model based on integrated biochemical and genomic data of Mus
musculus. The key features of the updated model include
additional information on gene-protein-reaction association,
and improved network connectivity through lipid, amino acid,
carbohydrate and nucleotide biosynthetic pathways. After
examining the model predictability both quantitatively and
qualitatively using constraints-based flux analysis, the
structural and functional characteristics of the mouse
metabolism were investigated by evaluating network
statistics/centrality, gene/metabolite essentiality and their
correlation. The results revealed that overall mouse metabolic
network is topologically dominated by highly connected and
bridging metabolites, and functionally by lipid metabolism that
most of essential genes and metabolites are from. The current
in silico mouse model can be exploited for understanding and
characterizing the cellular physiology, identifying potential
cell engineering targets for the enhanced production of
recombinant proteins and developing diseased state models for
drug targeting.
This model is hosted on
BioModels Database
and identified by:
MODEL1507180042.
To cite BioModels Database, please use:
BioModels Database:
An enhanced, curated and annotated resource for published
quantitative kinetic models.
To the extent possible under law, all copyright and related or
neighbouring rights to this encoded model have been dedicated to
the public domain worldwide. Please refer to
CC0
Public Domain Dedication for more information.
2015-07-30 | MODEL1507180042 | BioModels
Project description:Sex differences in the molecular signature of the developing mouse hippocampus
| PRJNA327433 | ENA
Project description:Transcriptional Changes in the Aging Mouse Hippocampus (expression)
| PRJNA261742 | ENA
Project description:The ability to assign expression patterns to individual cell types that constitute a tissue is a major challenge in RNA expression analysis. This especially applies to brain given the plethora of different cells coexisting in that tissue. Here, we derived cell-type specific transcriptome signatures from existing single cell RNA data and integrated these signatures with a newly generated dataset of expression (bulk RNA-seq) of the postnatal developing hippocampus. This integrated analysis allowed us to provide a comprehensive and unbiased prediction of the differentiation drivers for 10 different hippocampal cell types and describe how the different cell types interact to support crucial developmental stages. Our integrated analysis provides a reliable resource of predicted differentiation drivers and insight into the multifaceted aspects of the cells in hippocampus during development.
2018-01-30 | GSE79380 | GEO
Project description:Transcriptional changes in the aging mouse hippocampus (RNA-seq)
| PRJNA262674 | ENA
Project description:Sexual reproduction in angiosperms requires the production and delivery of two male gametes by a three-celled haploid male gametophyte. This demands synchronised gene expression in a short developmental window to ensure double fertilization and seed set. While transcriptomic changes in developing pollen are known for Arabidopsis, no studies have integrated RNA and proteomic data in this model. Further, the role of alternative splicing has not been fully addressed, yet post-transcriptional and post-translational regulation may have a key role in gene expression dynamics during microgametogenesis. We have refined and substantially updated global transcriptomic and proteomic changes in developing pollen for two Arabidopsis accessions. Despite the superiority of RNA-seq over microarray-based platforms, we demonstrate high reproducibility and comparability. We identify thousands of long non-coding RNAs as potential regulators of pollen development, hundreds of changes in alternative splicing and provide insight into mRNA translation rate and storage in developing pollen. Our analysis delivers an integrated perspective of gene expression dynamics in developing Arabidopsis pollen and a foundation for studying the role of alternative splicing in this model.
2022-11-01 | PXD033305 | Pride
Project description:To describe the protein profile in hippocampus, colon and ileum tissue’ changing after the old faeces transplants, we adopted a quantitative label free proteomics approach.
2021-09-09 | PXD016432 | Pride
Project description:WTX interacts with the transcriptional regulator TRIM28 to mediate cellular differentiation
| PRJNA258211 | ENA
Project description:Mitochondria are highly dynamic organelles undergoing fusion, fission and degradation. Although mitochondria are known to be essential for cellular metabolism, it is not fully understood how mitochondrial dynamics affect cellular metabolism. We previously identified a mouse gene, transmembrane protein 135 (TMEM135) that plays a role in the regulation of mitochondrial dynamics. Mice with mutant Tmem135 (Tmem135FUN025/FUN025) show accelerated aging phenotypes and age-related pathologies in the retina including the retinal pigment epithelium (RPE). We also generated a transgenic mouse line globally overexpressing the Tmem135 gene (Tmem135 TG). In several tissues and cells that we studied such as the retina, heart and fibroblast cells, we observed that the Tmem135 mutation causes elongated mitochondria, while over-expression of Tmem135 results in fragmented mitochondria. These unique mouse models allow us to test how abnormal mitochondrial dynamics affect metabolic signatures of tissues and cells. In this study, we identified metabolic changes in primary RPE cell cultures as well as tissues isolated from Tmem135FUN025/FUN025 mice (fusion > fission) and Tmem135 TG mice (fusion < fission) using nuclear magnetic resonance (NMR) spectroscopy. Metabolomics analysis revealed a tissue-dependent response to alterations to Tmem135 whereby, significant metabolic changes were observed in heart in both mutant and TG mice as compared to WT while negligible effects were observed in cerebellum and hippocampus. We also observed changes in Tmem135FUN025/FUN025 and Tmem135 TG RPE cells associated with osmosis, glucose metabolism and phospholipid metabolism. Significant depletion of NAD+ was detected in both Tmem135FUN025/FUN025 and Tmem135 TG RPE cells, indicating that imbalance in mitochondrial dynamics to both directions lowers the cellular NAD+ level. Thus, we have identified metabolomic changes associated with imbalanced mitochondrial dynamics in heart tissue and RPE cells which can likely lead to functional abnormalities.
2021-02-12 | MTBLS1410 | MetaboLights