GEO DataSets

(Submitter supplied) Japanese encephalitis virus (JEV), a member of the Flaviviridae family, is a leading cause of viral encephalitis in humans. Survivors of this infection often develop life-long neurological sequelae. Short-chain fatty acids (SCFAs) produced in the gut are vital mediators of the gut-brain axis. We aimed to study microRNA-based mechanisms of SCFAs in an in vitro model of JEV infection. N9 microglial cells were pre-treated with SCFA cocktail before JEV infection. more...

Organism:

Mus musculus

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL15103

24 Samples

Download data: XLSX

(Submitter supplied) Medulloblastoma (MB), the most common malignant pediatric brain tumor, comprises of four molecularly and clinically distinct subgroups (termed WNT, SHH, Group3, and Group4). Prognosis varies based on genetic and pathological features associated with each molecular subgroup. WNT-MB, considered low-risk, are rarely metastatic and contain activating mutations in CTNNB1; Group3-MB, commonly classified as high-risk, are frequently metastatic and can contain genomic alterations resulting in elevated MYC expression. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL15103

9 Samples

Download data: TXT

(Submitter supplied) Previous research reports have shown that curcumin and exercise have good anti-tumor effects. However, there is currently a lack of relevant research reports on the combined effect of physical exercise with curcumin supplementation on cancer and its mechanisms. This study constructed an anti breast tumor mouse model under the combined effects of curcumin treatment and swimming exercise. Transcriptomics and metabolomics techniques were used to screen differentially expressed genes and metabolites, evaluate the anti-cancer effect, and analyze the molecular regulatory mechanisms related to metabolism. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL15103

12 Samples

Download data: TXT

(Submitter supplied) The microphthalmia transcription factor Mitf has been shown to regulate B cell activation and tolerance. However, the underlying B cell-specific mechanisms responsible, and those that distinguish Mitf from closely related Mitf/TFE (MiT) transcription factors Tfe3, Tfeb, and Tfec, remain obscure. Two complementary mouse models of Mitf and MiT deficiency – the Mitfmi-vga9/mi-vga9 systemic loss-of-function mutation, and B-cell specific MiT family inactivation via transgenic expression of a trans-dominant negative (TDN) protein (TDN-B) – were used to identify MiT family candidate target genes and pathways. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL15103

17 Samples

Download data: H5, TSV

(Submitter supplied) We transfected MEF SEC24D KO cells with SEC24B siRNA for a double KD or combined SEC24s siRNA (SEC24a, 24B and 24C) for a quadruple KD. Cells were transfected with siRNA or Scramble siRNA (control) for 2 days then total RNA for each knockdown sample was extracted and purified for RNA-seq to evaluate the change in transcriptome.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL15103

19 Samples

Download data: XLSX

(Submitter supplied) 3T3-L1 preadipocytes were differentiated into mature adipocytes using adipogenic differentiation media. Promoter Capture Hi-C at D0 (two days post confluency) and D7 of adipocyte differentiation was performed to analyse regulatory interactions.

Organism:

Mus musculus

Type:

Other

Platform:

GPL15103

6 Samples

Download data: TXT

(Submitter supplied) mRNA profiles of FACS-isolated microglia from brains of P7 & P40 mice. Mice were treated with repetitive doses of poly(I:C) between P2-P6. Each group contained 3-4 samples with a sequencing depth of 30M reads.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL15103 GPL13112

28 Samples

Download data: TXT

(Submitter supplied) To explore the mechanisms of autophagy in the regulation of vascular tumour cells, we generated three autophagy-related genes, Fip200, Atg5 and Atg7, knockout vascular tumor cells in 562 cell line by CRISPR-Cas9-based sgRNAs. Three independent replicates of mRNA samples were prepared from each KO cells and subjected to RNA-sequencing in comparison to three samples from control 562 cells. We examined changes in gene expression by transcriptional profiling of Fip200 KO, Atg5 KO, and Atg7 KO cells, compared to control 562 cells respectively.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL15103

12 Samples

Download data: XLS

(Submitter supplied) Neuronal DNA modifications differ from those in other cells, including methylation outside CpG context and abundant 5-hydroxymethylation whose relevance for neuronal identities are unclear. Striatal projection neurons expressing D1 or D2 dopamine receptors allow addressing this question, as they share many characteristics but differ in their gene expression profiles, connections, and functional roles. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing; Methylation profiling by high throughput sequencing

Platforms:

GPL17021 GPL15103

18 Samples

Download data: XLSX

(Submitter supplied) Severe acute respiratory syndrome coronavirus (SARS-CoV) causes lethal disease in humans, with viral E protein promoting the exacerbated inflammatory response. By deep sequencing RNAs from the lungs of infected mice, we have addressed the relevance of small, non-coding RNAs in SARS-CoV pathology. Host microRNAs (miRNAs) expressed during infection by a virulent virus encoding the E protein were significantly enriched for cytokine-mediated inflammatory pathways when compared with attenuated SARS-CoV-∆E, suggesting contribution of miRNAs to E protein-induced inflammation. more...

Organism:

Mus musculus

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL15103

16 Samples

Download data: TXT

(Submitter supplied) All tissue resident macrophages of the central nervous system (CNS), including parenchymal microglia as well as CNS-associated macrophages (CAMs) such as meningeal (mMF) and perivascular macrophages (pvMF) are part of the CNS endogenous innate immune system that acts as the first line of defense during infections or trauma. It has been suggested that microglia and all CAM subsets are derived from prenatal cellular sources in the yolk sac that were defined as early erythromyeloid progenitors. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL15103

45 Samples

Download data: TXT

(Submitter supplied) We found that the microbiota influenced critical characteristics linked with aging.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL15103

44 Samples

Download data: TXT

(Submitter supplied) MMTV-PyMT transgenic FVBN mice spontaneously developed breast tumors. Two tumors were collected as replicate samples, and cells from the dissociated tissue were sorted into 2 cancer stem cell (CSC) populations, along with the remaining non-CSCs. The samples were submitted for RNAseq to generate differential gene expression profiles of the breast tumor CSC populations.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL15103

6 Samples

Download data: XLSX

(Submitter supplied) Purpose: The goal of this study is to compare transcriptome profiling (RNA-seq) between macrophages inhibited for Hedgehog signaling and vehicle control.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL15103

2 Samples

Download data: TXT

(Submitter supplied) As tissue macrophages of the central nervous system (CNS) microglia constitute the pivotal immune cells of this organ. Microglial features are strongly dependent on environmental cues such as commensal microbiota. Gut bacteria are known to continuously modulate microglia maturation and function by the production of short-chain fatty acids (SCFA). However, the precise mechanism of this crosstalk is unknown. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL15103

42 Samples

Download data: TXT

(Submitter supplied) D4M BrafV600E; Ptenlox5/lox5 melanoma cells mixed with uninduced control Fb (Ctnnb1+/+; Col1α2-CreER) or mutant bcat/Fb (Ctnnb1fl/fl; Col1α2-CreER) were injected intradermally into flanks of control Ctnnb1+/+; Col1α2-CreER or Ctnnb1 fl/fl; Col1α2-CreER mice, respectively. Tumors were allowed to grow to a volume of approximately 62.5 cubic millimeters when tamoxifen (TAM) was then administrated to induce β-catenin ablation in mutant bcat/Fb CAFs. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL15103

9 Samples

Download data: XLSX

(Submitter supplied) We addressed here whether cardiomyocytes generated from CSC differentiation in vitro (iCMs) have a similar pattern of gene expression and undergo a similar transcriptional switch typical of cell cycle exit during adult cardiac myocyte maturation through the activation of known myo-miRs.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing

Platforms:

GPL15103 GPL17021

16 Samples

Download data: XLSX

(Submitter supplied) Humoral immune responses require germinal centres (GC) for antibody affinity maturation. Within GC, B-cell proliferation and mutation are segregated from affinity-based positive selection in the dark zone (DZ) and light zone (LZ) substructures, respectively. While IL21 is known to be important in affinity maturation and GC maintenance, here we show it is required for both establishing normal zone representation and preventing the accumulation of cells in G1 cell cycle stage in the GC LZ.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL15103

6 Samples

Download data: TXT

(Submitter supplied) The germinal centre (GC) is a hallmark of adaptive immunity. Gene expression in GCs is tightly regulated but the impact of post-transcriptional mechanisms are largely unknown. Here we show that expression of the RNA binding protein HuR is essential in GCs. In its absence, GC B cells are at a competitive disadvantage and high-affinity antibody production is severely impaired. Mechanistically, HuR affects the transcriptome qualitatively and quantitatively to enable the expression of a Myc- dependent transcriptional program essential for light zone B cells to re-enter into the dark zone for further proliferation and Ig somatic hypermutation. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL15103 GPL17021

12 Samples

Download data: CSV

(Submitter supplied) Microglia represent the resident innate immune cells of the retina and are important for retinal development and tissue homeostasis. However, dysfunctional microglia can have a negative impact on the structural and functional integrity of the retina under native and pathological conditions. In this study, we used interferon-regulating factor 8 (Irf8)-deficient mice to determine the transcriptional profile, morphology, and temporal-spatial distribution of microglia lacking Irf8 and to examine the effects on retinal development, tissue homeostasis, and choroidal neovascularization (CNV) formation. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL15103

7 Samples

Download data: CSV