Filters
Technology
Platform
GSE84437
Homo sapiens
433 Downloadable Samples
Illumina HumanHT-12 V3.0 expression beadchip
Description
This SuperSeries is composed of the SubSeries listed below.
Publication Title
No associated publication
Sample Metadata Fields
Sex, Age, Specimen part
View Samples- Homo sapiens
- 357 Downloadable Samples
- Illumina HumanHT-12 V3.0 expression beadchip
Description
We identified the molecular subtypes and conserved modules in gastric cancer by unsupervised clustering algorithm. We defined five molecular subtypes and six molecular signatrues of gastric cancer associated with the biological heterogeneity of gastric cancer and clinical outcome of patients.
Publication Title
No associated publication
Sample Metadata Fields
Sex, Age, Specimen part
View Samples- Homo sapiens
- 76 Downloadable Samples
- Illumina HumanHT-12 V3.0 expression beadchip
Description
We identified the molecular subtypes and conserved modules in gastric cancer by unsupervised clustering algorithm. We defined five molecular subtypes and six molecular signatrues of gastric cancer associated with the biological heterogeneity of gastric cancer and clinical outcome of patients.
Publication Title
No associated publication
Sample Metadata Fields
Sex, Age, Specimen part
View Samples- Mus musculus
- 11 Downloadable Samples
- Affymetrix Mouse Gene 1.0 ST Array (mogene10st)
Description
The cochlear duct is tonotopically organized, such that the basal cochlea responds more sensitively to high frequency sounds and the apical cochlea to low frequency sounds. In effort to understand how the tonotopic organization is established in mammals, we searched for genes that are differentially expressed along the tonotopic axis during neonatal development.
Publication Title
Developmental gene expression profiling along the tonotopic axis of the mouse cochlea.
Sample Metadata Fields
Specimen part
View Samples- Homo sapiens
- 3 Downloadable Samples
- Affymetrix Human Gene 2.0 ST Array (hugene20st)
Description
Because of their small size, nanoparticles that enter the human body can easily penetrate biological barriers and can be circulated throughout the entire body, ultimately reaching the vascular endothelium. In this study aimed to identify cell reponses by distinguishing endothelial cell and exposing them to silver nanoparticles. The study also assesseed several gene expression levels that increased significantly in the microarray assay. We verified through microarray that 5 nm silver nanoparticles affect the variation of gene expression in cells, and a noticeable increase in the expression of interleukin (IL)-8 and IL-11 genes in early time was also verified. This study found that the variation on oxidative stress related genes in early time, amd among them the variation of metallothionein(MT), heme oxygenase 1(HO1), and heat shock 70kDa protein(HSP70) expression, was noticeable.
Publication Title
No associated publication
Sample Metadata Fields
Specimen part, Cell line
View Samples- Homo sapiens
- 8 Downloadable Samples
- Affymetrix Human Gene 1.0 ST Array (hugene10st)
Description
Analysis of ZR-75-1 cells folowing knockdown of EI24 (P53-Induced Gene 8) and control vector. As a p53 response gene, EI24 is known to controlling cell growth, apoptosis, and autophagy.
Publication Title
EI24 regulates epithelial-to-mesenchymal transition and tumor progression by suppressing TRAF2-mediated NF-κB activity.
Sample Metadata Fields
Cell line, Treatment
View Samples- Mus musculus
- 6 Downloadable Samples
- Affymetrix Mouse Genome 430 2.0 Array (mouse4302)
Description
This SuperSeries is composed of the SubSeries listed below.
Publication Title
An integrated systems biology approach identifies positive cofactor 4 as a factor that increases reprogramming efficiency.
Sample Metadata Fields
Sex, Specimen part
View Samples- Mus musculus
- 6 Downloadable Samples
- Affymetrix Mouse Genome 430 2.0 Array (mouse4302)
Description
Multipotent spermatogonial stem cells (mSSCs) derived from SSCs are a potential new source of individualized pluripotent cells in regenerate medicine such as ESCs. We hypothesized that the culture-induced reprogramming of SSCs was mediated by a mechanism different from that of iPS, and was due to up-regulation of specific pluripotency-related genes during cultivation. Through a comparative analysis of expression profile data, we try to find cell reprogramming candidate factors from mouse spermatogonial stem cells. We used microarrays to analyze the gene expression profiles of culture-induced reprogramming converting unipotent spermatogonial stem cells to pluripotent spermatogonial stem cells.
Publication Title
An integrated systems biology approach identifies positive cofactor 4 as a factor that increases reprogramming efficiency.
Sample Metadata Fields
Sex, Specimen part
View Samples- Mus musculus
- 6 Downloadable Samples
- Affymetrix Mouse Gene 2.0 ST Array (mogene20st)
Description
Hematopoiesis is a series of lineage differentiation programs initiated from hematopoietic stem cells (HSCs) in the bone marrow (BM). To maintain lifelong hematopoiesis, the pool of HSCs is precisely maintained by diverse molecular mechanisms. CCCTC-binding factor (CTCF) is a DNA-binding zinc-finger protein which regulates its target gene expression by organizing higher order chromatin structures. Currently, the role for CTCF in controlling HSC homeostasis is unknown. By using a tamoxifen-induced CTCF conditional knockout mouse system, we demonstrate that CTCF is a critical regulator for the homeostatic maintenance of adult HSCs by retaining HSC cell cycle quiescence. Acute systemic CTCF ablation leads to a severe BM failure and rapid shrinkage of multiple c-Kithi progenitor populations, including Sca-1+ HSCs in adult mice. Similarly, a hematopoietic system-confined CTCF depletion elicits an acute loss of HSCs and highly increased mortality. Mixed BM chimeras reconstituted together with the supporting BM reveal that CTCF deficiency-mediated HSC depletion is a cell-autonomous effect. Although c-Kithi myeloid progenitors were severely reduced after ablating Ctcf gene, c-Kitint common lymphoid progenitors and their progenies were less affected by the lack of CTCF. Whole transcriptome analyses show that CTCF deficiency results in an enhanced expression of the cell cycle-promoting program and CTCF-depleted HSCs express higher level of reactive oxygen species (ROS). Importantly, in vivo treatment with the antioxidant partially rescued the c-Kithi population and their quiescence. We conclude that CTCF is a pivotal player in maintaining adult HSC pool likely through regulating ROS-dependent HSC quiescence.
Publication Title
CCCTC-binding factor is essential to the maintenance and quiescence of hematopoietic stem cells in mice.
Sample Metadata Fields
Sex, Specimen part
View Samples- Mus musculus
- 6 Downloadable Samples
- Affymetrix Mouse Gene 2.0 ST Array (mogene20st)
Description
AIMP2-DX2 is known as a cancer-associated splicing variant of tumor suppressor, AIMP2, lacking exon 2 (shortly DX2 herein). However, it is not known whether its expression alone can drive tumorigenesis. Here we show that DX2 can induce the expansion of germinal center (GC) origin B lymphocytes and their infiltration into multi-organs in mouse model. In doxycycline-dependent inducible transgenic mice, monoclonal expansion of B cells with malignant transformation was developed in two out of seven cases. Induction of DX2 destabilized p53 and dysregulated cell cycle genes, leading to lymphomagenesis. Turning off DX2 induced the death of cancer cells, suggesting the significance of DX2 in the cancer cell growth. Consistently with the mouse phenotypes, higher expression of DX2 was observed in human Burkitt lymphoma and GCB diffuse large B cell lymphoma (DLBCL). Expression of DX2 was confirmed in a subset of GC origin lymphoma obtained from separate cohort using RNA silver in situ hybridization (SISH). In differentially expressed gene analysis, the high DX2 subset was well segregated in GCB lymphomas. High expression of transcription factor MEF2B and its target genes were observed in DX2-associated GCB DLBCL both at RNA and protein level, implying the pathological connection of DX2 with MEF2B in human lymphomagenesis. Functional significance of DX2 for cell viability was confirmed in human DLBCL cell line. In summary, our data suggest DX2 as a driver of lymphomagenesis and potential therapeutic target especially for GCB lymphomas
Publication Title
No associated publication
Sample Metadata Fields
Age, Specimen part
View Samples