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Items: 1 to 20 of 7194

1.

Interferon (IFN)-γ promotes monocyte-mediated lung injury during influenza pathogenesis

(Submitter supplied) Influenza A Virus (IAV) triggers an exuberant host response that promotes acute lung injury. However, the determinants of the pathological host response to IAV remain incompletely understood. In the current study, we identified interferon (IFN)-γ-regulated subset of monocytes, CCR2+ monocytes, as a driver of lung damage during IAV pathogenesis. IFN-γ regulated the recruitment and inflammatory phenotype of CCR2+ monocytes, and CCR2 (CCR2-/-) and IFN-γ (IFN-γ-/-) deficient mice exhibited reduced lung inflammation, pathology, and increased resistance against bacterial co-infection by Streptococcus pneumoniae (Spn). more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL13112
2 Samples
Download data
Series
Accession:
GSE189407
ID:
200189407
2.

4C-seq analyses of the 3’Igh locus during B cell development

(Submitter supplied) We report the application of 4C-seq for analysis of the 3’ end of he Igh locus during B cell development. We generated genome-wide 4C maps for BM derived Rag2-/- pro-B cells, resting splenic B cells, LPS+IL4 activated B cells and ConA stimulated splenic T cells using two viewpoints, Em and hs4 located in 3’Ea. We find that long range interactions are present only on B lineage cells reflecting enhancer activation status.
Organism:
Mus musculus
Type:
Other
Platform:
GPL13112
16 Samples
Download data: WIG
Series
Accession:
GSE183006
ID:
200183006
3.

Fasting enriched metabolic enhancers associate with histone lysine 9 ß-hydroxybutyrylation

(Submitter supplied) Beta-hydroxybutyrate (bOHB) is the major ketone body produced during fasting, which can function as an epigenetic regulator by producing lysine b-hydroxybutyrylation (Kbhb) histone marks. We profiled two Kbhb modifications (H3K9bhb and H4K12bhb) along with six additional epigenetic marks (H3K4m1, H3K27ac, H3K4m3, H3K27m3, H3K9m3 and H3K9m2) to determine the epigenetic changes in small intestinal (SI) crypts induced by fasting. more...
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL13112 GPL19057 GPL21103
52 Samples
Download data: BED, BW
Series
Accession:
GSE122896
ID:
200122896
4.

Stress modulates Ahi1-dependent nuclear localization of Ten-Eleven Translocation Protein 2

(Submitter supplied) Three Ten-Eleven Translocation (Tet) enzymes are epigenetic regulators of gene expression that promote 5-hydroxymethylcytosine (5hmC) modification of genes. Here, we show that the loss of Tet2 can induce depression-like phenotypes in mice. Paradoxically, using the paradigms of chronic stress, such as chronic mild stress (CMS) and chronic social defeat stress (CSDS), we found that depressive behaviors were associated with increased Tet2 expression but decreased global 5hmC level in hippocampus. more...
Organism:
Mus musculus
Type:
Methylation profiling by high throughput sequencing
Platform:
GPL13112
7 Samples
Download data: CSV
Series
Accession:
GSE167344
ID:
200167344
5.

RNA-sequencing analysis of adult mouse wild type (Prdm16-Mx1-Cko/Cko; +/+) and Prdm16-/- (Prdm16-Mx1-Cko/Cko; Tg/+) Long Term-Hematopoietic Stem Cells (LT-HSC).

(Submitter supplied) Regulation of quiescence is critical for the maintenance of adult hematopoietic stem cells (HSCs). Previous studies by gene disruption during mouse embryonic development have shown that transcription factor gene Prdm16 is important for the generation/maintenance of fetal liver HSCs; however, the underlying mechanisms and the function of Prdm16 in adult HSCs remain unclear. To investigate the role of Prdm16 in adult HSCs, we generated a novel conditional knockout mouse model and deleted Prdm16 in adult mouse hematopoietic system using the interferon inducible Mx1-Cre. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL13112
6 Samples
Download data: TXT
Series
Accession:
GSE154011
ID:
200154011
6.

Tet enzymes are essential for embryogenesis and completion of embryonic genome activation

(Submitter supplied) Mammalian embryo development begins in transcriptional silence followed by activation of thousands of genes. Reprogramming of DNA methylation is integral to embryogenesis and linked to Tet enzymes; however, their function in early development is not fully understood. Here, we generated combined deficiencies of all three Tet enzymes in mouse oocytes and observed arrest at 2-cell stage with the most severe phenotype linked to Tet2. more...
Organism:
Mus musculus; synthetic construct
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL15228 GPL13112
48 Samples
Download data: TXT
Series
Accession:
GSE57063
ID:
200057063
7.

Analysis of differentiating 3T3L1 mouse pre-adipocytes with knock-down of Tmem120a and Tmem120b

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Mus musculus
Type:
Expression profiling by array; Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL13112 GPL6887
19 Samples
Download data: BW, XLS
Series
Accession:
GSE150507
ID:
200150507
8.

LaminB1-DamID analysis of differentiating 3T3L1 mouse pre-adipocytes with knock-down of Tmem120a and Tmem120b

(Submitter supplied) Maps of genomic regions in proximity to the nuclear lamina were determined in undifferentiated 3T3L1 preadipocytes and 9 day differentiated (wild type, and under Tmem120a or Tmem120a/b knockdown) adipocytes using DamID with a Dam-Lamin B1-encoding lentivirus.
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL13112
8 Samples
Download data: BED, BW
Series
Accession:
GSE150053
ID:
200150053
9.

Effect of Environmental Enrichment on Transcriptomic Profile and Chromatin Accessibility of Cortical Neurons

(Submitter supplied) Wildtype Swiss webster mice were exposed to four weeks of either standard housing (SH) or environmental enrichment (EE) starting at one month of age. EE chambers were large mouse cages containing two nesting/burrowing materials, a running wheel, and toys that were changed every 3-4 days for novelty and exploration. By contrast, SH control mice were housed with an equal number of littermates in smaller, standard cages containing only one nesting material and no toys or running wheel. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL13112 GPL19057
43 Samples
Download data: TXT
Series
Accession:
GSE176435
ID:
200176435
10.

Astrocytes Tet1 regulates neuronal development and cognition through modulating GluA1 in mice

(Submitter supplied) Tet (Ten eleven translocation) mediated 5-hydroxymethylcytosine (5hmC) is highly enriched in the neuronal system and is involved in diverse biological processes and diseases. However, the function of 5hmC in astrocytes remains completely unknown. In the present study, we show that Tet1 deficiency alters astrocytes morphology and impairs neuronal function. Specific deletion of Tet1 in astrocytes impairs learning and memory ability of mice. more...
Organism:
Mus musculus
Type:
Methylation profiling by high throughput sequencing
Platform:
GPL13112
6 Samples
Download data: CSV
Series
Accession:
GSE165370
ID:
200165370
11.

Changing and stable chromatin accessibility supports transcriptional overhaul during neural stem cell activation

(Submitter supplied) Adult neural stem cells are largely quiescent, and require transcriptional reprogramming to re-enter the cell cycle before neurogenesis. However, mechanisms underlying the transcriptional overhaul during NSC activation remain undefined. Here, we identify the chromatin accessibility differences between primary neural stem/progenitor cells in quiescent and activated states. These distinct cellular states exhibit shared and unique chromatin profiles, both associated with gene regulation. more...
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL13112
10 Samples
Download data: BEDGRAPH, BROADPEAK, NARROWPEAK
Series
Accession:
GSE161578
ID:
200161578
12.

Gene regulation changes driven by wild type and cancer-associated mutant variants of Myc as B-cells convert to Lymphoma-like cells

(Submitter supplied) cMyc plays a major role in lymphoma development. In addition, missense mutations including T58A and T58I the substitution mutations augment cMyc activity during lymphoma development. In this study, we characterized lymphoma-associated gene expression changes as increasing levels of wild type or mutant cMyc proteins progressively drive conversion of B-cells to lymphoma-like cells. To this end we established a cell system in which primary mouse B-cells were transduced with constructs that over-express the anti-apoptotic proteins, BMI1 and BCLXL and allow variable expression of cMyc (wild type, T58A or T58I) from a doxycycline-regulated promoter. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL13112
63 Samples
Download data: CSV
Series
Accession:
GSE122602
ID:
200122602
13.

PPARα and PPARγ activation is associated with pleural mesothelioma invasion, but therapeutic inhibition is ineffective in preclinical models

(Submitter supplied) Mesothelioma is a cancer that typically originates in the pleura of the lungs. It rapidly invades the surrounding tissues, resulting in pain and shortness of breath. We compared mesothelioma cell lines that were injected either subcutaneously or intrapleurally and found that only the latter resulted in invasive and rapid growth. Pleural tumours displayed a transcriptional signature consistent with increased activity of nuclear receptorsPPARα and PPARγ and with an increased abundance of endogenous PPAR-activating ligands. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL13112
32 Samples
Download data: TXT
Series
Accession:
GSE180618
ID:
200180618
14.

Transcriptome of new DROSHA_KO mouse embryonic stem cells generated by paired CRISPR/Cas9 approach

(Submitter supplied) Purpose: The goals of this study was to obtain the trasncriptome of DROSHA_KO mESCs to compare it with the transcriptome of WT mESCs (originally deposited in GSE78971 and included here).
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL13112
4 Samples
Download data: TXT
Series
Accession:
GSE122627
ID:
200122627
15.

Identification of Ankrd35 as a mediator of cisplatin response in non-small cell lung cancer by ex vivo 3D screening of primary tumor spheroids

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Mus musculus
Type:
Expression profiling by array; Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing
5 related Platforms
412 Samples
Download data: TXT
Series
Accession:
GSE136346
ID:
200136346
16.

Cisplatin induced gene expression in ex vivo primary tumor cells grown in 3D cultures

(Submitter supplied) The objective of this study was to use RNAseq to determine baseline gene expression in mouse primary tumor cells grown in a matrix of matigel and growth factors ex vivo, as well as which genes change expression in response to treatment with a platinum-based therapeutic, cisplatin.
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL13112
4 Samples
Download data: TSV
Series
Accession:
GSE134199
ID:
200134199
17.

Tcf1 preprograms glycolysis mobilization in central memory CD8+ T cells in recall response

(Submitter supplied) The goal of this study is to determine the impact of Tcf1 deficiency on recall capacity of central memory CD8+ T (Tcm) cells. We demonstrate that loss of Tcf1 shows limited impact on Tcm cells at resting state, but severely comprimises activation of glycolysis and other key regulators during recall response. Based on these findings, we propose that Tcf1 preprograms the responsiveness of Tcm cells to secondary challenges.
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL13112 GPL21103
23 Samples
Download data: BW, COOL, TXT
Series
Accession:
GSE177064
ID:
200177064
18.

Role of Adipocyte Na,K-ATPase Oxidant Amplification Loop in Cognitive Decline and Neurodegeneration

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL13112
102 Samples
Download data
Series
Accession:
GSE164295
ID:
200164295
19.

Role of Adipocyte Na,K-ATPase Oxidant Amplification Loop in Cognitive Decline and Neurodegeneration - Expression profiling in Liver and Fat

(Submitter supplied) Adipocyte-specific expression of Na,K-ATPase signaling antagonist, NaKtide, has been shown to ameliorate the pathophysiological consequences of obesity and improve diseased phenotype. Recent studies have established that the release of adipocytokines and other bioactive mediators in obesity contributes to neurodegeneration. This study utilizes a mechanistic approach and characterizes the hippocampal transcriptome in comparison with transcriptomic changes in liver, visceral and subcutaneous adipose tissue. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL13112
60 Samples
Download data: CSV
Series
Accession:
GSE164294
ID:
200164294
20.

Role of Adipocyte Na,K-ATPase Oxidant Amplification Loop in Cognitive Decline and Neurodegeneration - Expression profiling in Brain

(Submitter supplied) Adipocyte-specific expression of Na,K-ATPase signaling antagonist, NaKtide, has been shown to ameliorate the pathophysiological consequences of obesity and improve diseased phenotype. Recent studies have established that the release of adipocytokines and other bioactive mediators in obesity contributes to neurodegeneration. This study utilizes a mechanistic approach and characterizes the hippocampal transcriptome in comparison with transcriptomic changes in liver, visceral and subcutaneous adipose tissue. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL13112
42 Samples
Download data: CSV
Series
Accession:
GSE164293
ID:
200164293
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