GEO DataSets

(Submitter supplied) We reported a 16-week intermittent fasting intervention alleviated cognitive impairment in Alzheimer's disease. Here we present transcriptomics data of mice hippocampus to further investigate how intermittent fasting regulates vital biological processes and pathways. After mapping clean RNA-seq reads of all mice against the Mus musculus genome, we detected 56,412 genes (including 12,527 new predicted genes) with fragments per kilobase of transcripts per million mapped reads (FPKM) value. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23479

55 Samples

Download data: XLSX

(Submitter supplied) Here we aim to dissect the complex nature of the acute systemic response of HSCs to lipopolysaccharide (LPS), mimicking a bacterial infection. Acute LPS challenge transiently induced proliferation of quiescent HSCs in vivo, without yet impairing HSC function. We hypothesized that the effect of LPS on HSCs is indirectly mediated via proinflammatory cytokines. Our results showed that Acute LPS exposure depends in part on IFN signaling to activate HSCs.

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL17543

18 Samples

Download data: TXT

(Submitter supplied) Inflammation and dysregulation of the immune system are hallmarks of several neurodegenerative diseases. An activated immune response is considered to be the cause of myelin breakdown in demyelinating disorders. In the peripheral nervous system (PNS), myelin can be degraded in an autophagy-dependent manner directly by Schwann cells or by macrophages, which are modulated by T-lymphocytes. Here, we show that the NF-κB activator Pleckstrin homology containing family member 5 (Plekhg5) is involved in the regulation of both Schwann cell autophagy and recruitment of T-lymphocytes in peripheral nerves during motoneuron disease. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

6 Samples

Download data: CSV

(Submitter supplied) In many gene expression studies, cells are extracted by tissue dissociation and Fluorescence-Activated Cell Sorting (FACS), but the effect of these protocols on cellular transcriptomes is not well characterized and often ignored. Here, we applied single-cell mRNA sequencing (scRNA-seq) to muscle stem cells, and unexpectedly found a subpopulation that is strongly affected by the widely-used dissociation protocol that we employed. more...

Organism:

Mus musculus; Danio rerio

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL19057 GPL20828

21 Samples

Download data: CSV, FA, TSV, TXT

(Submitter supplied) We used transgenic mouse embryos that are deficient in the two enzymatically active RNA editing enzymes ADAR1 and ADAR2 to compare relative frequencies but also sequence composition of mature miRNAs in these genetically modified backgrounds to wild-type mice by Illumina next gen sequencing. Deficiency of ADAR2 leads to a reproducible change in abundance of specific miRNAs and their predicted targets. more...

Organism:

Mus musculus

Type:

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

Platforms:

GPL13912 GPL9250

13 Samples

Download data: TXT

(Submitter supplied) Deficiency of the transcription factor Cited2 in mice results in cardiac malformation, adrenal agenesis, neural tube, placental defects, and partially penetrant left-right patterning defects resulting from an abnormal Nodal->Pitx2c pathway. Here we show that a maternal high-fat diet more than doubles the penetrance of laterality defects and, surprisingly, induces palatal clefting in Cited2 deficient embryos. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Dataset:

GDS3724

Platform:

GPL6887

12 Samples

Download data: TXT

Analysis of Cited2-deficient, C57BL6/J embryos from high-fat diet mothers. Maternal high-fat diet results in abnormal laterality and cleft palate in Cited2 -/- embryos. Results provide insight into a gene-environment interaction with significant consequences for patterning the developing embryo.

Organism:

Mus musculus

Type:

Expression profiling by array, transformed count, 2 strain, 2 stress sets

Platform:

GPL6887

Series:

GSE22558

12 Samples

Download data: TXT

(Submitter supplied) Lack of the conserved NK2-domain of the cardiac transcription factor Nkx2.5 causes multiple heart defects . The NK2 family of homeobox genes constitutes a family of transcription factors that play an important role in different developmental processes. Members of this group are characterized by two highly conserved protein domains: the homeodomain, conferring DNA binding activity, and the NK2-specific domain (NK2-SD) of yet unknown function. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Datasets:

GDS384 GDS385

Platforms:

GPL76 GPL75

26 Samples

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Examination of whole heart of embryonic day 12.5 Csx/Nkx2.5 heterozygous and homozygous embryos to identify downstream target genes and affected pathways of Nkx2.5. Nkx2.5 is a cardiogenic marker with critical function in cardiac differentiation.

Organism:

Mus musculus

Type:

Expression profiling by array, count, 3 strain sets

Platform:

GPL76

Series:

GSE528

13 Samples

Download data

Examination of whole heart of embryonic day 12.5 Csx/Nkx2.5 heterozygous and homozygous embryos to identify downstream target genes and affected pathways of Nkx2.5. Nkx2.5 is a cardiogenic marker with critical function in cardiac differentiation.

Organism:

Mus musculus

Type:

Expression profiling by array, count, 3 strain sets

Platform:

GPL75

Series:

GSE528

13 Samples

Download data

(Submitter supplied) Mice used were B6/129 F2's, 3-5 weeks of age, either wild type or with both copies of the autoimmune regulator gene (aire, GenBank #AF079536) disrupted. Thymi from five of these mice of both sexes were removed and pooled. After collagenase/dispase digestion, density gradient fractionation, and fluorescent antibody staining, cells with the phenotype CD45-, G8.8+, CDR1int and B7.1hi were FACS-sorted and total RNA was made from them. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Dataset:

GDS167

Platform:

GPL81

6 Samples

Download data: CEL

Examination of medullary thymic epithelial cells from aire-deficient mice. aire is autoimmune regulator gene. Aim to understand autoimmune disease mechanisms, esp. autoimmune polyendocrinopathy candidiasis ectodermal dystrophy (APECED).

Organism:

Mus musculus

Type:

Expression profiling by array, count, 2 strain sets

Platform:

GPL81

Series:

GSE85

6 Samples

Download data: CEL

(Submitter supplied) We have developed gene-targeted mice with deletion of Nkx2.5. Embryos were isolated at embryonic day 9.5 and the middle third containing the heart was run on Affymetrix Mu11kA and Mu11kB arrays. For more information about this model see http://cardiogenomics.med.harvard.edu/groups/proj1/pages/csx_home.html Keywords = Congenital heart disease Keywords: other

Organism:

Mus musculus

Type:

Expression profiling by array

Datasets:

GDS49 GDS50

Platforms:

GPL75 GPL76

18 Samples

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Use of E9.5 Csx/Nkx2.5 mutant embryos to identify downstream target genes and affected pathways of Nkx2.5 which has a function in cardiac differentiation.

Organism:

Mus musculus

Type:

Expression profiling by array, count, 3 strain sets

Platform:

GPL76

Series:

GSE78

9 Samples

Download data

Use of E9.5 Csx/Nkx2.5 mutant embryos to identify downstream target genes and affected pathways of Nkx2.5 which has a function in cardiac differentiation.

Organism:

Mus musculus

Type:

Expression profiling by array, count, 3 strain sets

Platform:

GPL75

Series:

GSE78

9 Samples

Download data