GEO DataSets

(Submitter supplied) Gene regulatory networks inferred from RNA abundance data have generated significant interest. Several high-profile studies have suggested that gene networks may be useful for identifying molecular pathways related to development, human disease and drug action. However despite, this potential, gene network approaches are used relatively infrequently and their use generally requires input from specialist bioinformaticians. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL4044

400 Samples

Download data: TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL4044

424 Samples

Download data: TXT

(Submitter supplied) To understand the transcripts induced by TNFa and how these may interact in inflammatory networks, the transcriptome of HUCECs stimulated with TNFa was examined in 3 different pools each cosisting of 10 different HUVEC isolates.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL4044

24 Samples

Download data: TXT

(Submitter supplied) Cultured keratinocytes treated with TNFa in the presence or absence of NFkB inhibitor; time course 1, 4, 24 & 48 hrs. Keywords = Epidermis Keywords = skin Keywords = keratinocytes Keywords = inflammation Keywords = NFkB Keywords = TNFa Keywords: time-course

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS1289

Platform:

GPL8300

16 Samples

Download data: CEL, EXP

Analysis of epidermal keratinocytes treated with TNFalpha in the presence of 10 uM parthenolide, an NF-kappa B inhibitor. Cells examined at various time points up to 48 hours following TNFalpha treatment. Results identify NF-kappa B-dependent subset of TNFalpha-regulated genes.

Organism:

Homo sapiens

Type:

Expression profiling by array, count, 3 agent, 4 time sets

Platform:

GPL8300

Series:

GSE2489

16 Samples

Download data: CEL, EXP

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Homo sapiens

Type:

Expression profiling by array; Genome variation profiling by array

Platforms:

GPL23976 GPL10558

152 Samples

Download data: IDAT

(Submitter supplied) Endothelial cells are a primary site of leukocyte recruitment during inflammation. An increase in tumor necrosis factor-alpha (TNFa) levels as a result of infection or some autoimmune diseases can trigger this process. Several autoimmune diseases are now treated with TNFa inhibitors. However, genomic alterations that occur as a result of TNF-mediated inflammation are not well understood. To investigate molecular targets and networks resulting from increased TNFa, we measured DNA methylation and gene expression in 40 human umbilical vein endothelial cell primary cell lines before and 24 hours after stimulation with TNFa via microarray.

Organism:

Homo sapiens

Type:

Genome variation profiling by array

Platform:

GPL23976

74 Samples

Download data: IDAT, TXT

(Submitter supplied) Endothelial cells are a primary site of leukocyte recruitment during inflammation. An increase in tumor necrosis factor-alpha (TNFa) levels as a result of infection or some autoimmune diseases can trigger this process. Several autoimmune diseases are now treated with TNFa inhibitors. However, genomic alterations that occur as a result of TNF-mediated inflammation are not well understood. To investigate molecular targets and networks resulting from increased TNFa, we measured DNA methylation and gene expression in 40 human umbilical vein endothelial cell primary cell lines before and 24 hours after stimulation with TNFa via microarray.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL10558

78 Samples

Download data: TXT

(Submitter supplied) Bacillus anthracis is a gram-positive, aerobic, spore-forming, rod-shaped bacterium which has recently been used as an agent of bioterrorism. Because there is a significant delay between the initial contact of the spore with the host and clinical evidence of disease, there appears to be temporary containment of the pathogen by the innate immune system. Contact with the human alveolar macrophage (HAM) plays a key role in the innate immune response to B. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

7 Samples

Download data: CEL

(Submitter supplied) Primary endothelial cells from umbilical cord vein (HUVEC) obtained at delivery from gestational diabetic (GD) women, represent an expedient model for the study of the effects of chronic HG in vivo. In fetal tissues genome-wide epigenetic changes are likely to occur with specific long term and even trans-generational effects. We have utilized this model to study the effects of chronic hyperglycemia on the transcriptome and to verify the presence of specific epigenetic changes associated to chronic HG in vascular cells.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL7020

6 Samples

Download data: CEL

(Submitter supplied) Dendritic cells (DCs) are a complex group of cells which play a critical role in vertebrate immunity. Spleen or lymph node resident DCs are subdivided into conventional DC (cDC) subsets (CD11b and CD8alpha in mouse; BDCA1 and BDCA3 in man) and plasmacytoid DCs (pDCs). It is currently unclear if these various DC populations belong to a unique hematopoietic lineage and if the subsets identified in the mouse and human systems are evolutionary homologs. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL1261

13 Samples

Download data: CEL, CHP, EXP

(Submitter supplied) Endothelial inflammation contributes to the pathogenesis of numerous human diseases; however, the role of tumor endothelial inflammation in the growth of experimental tumors and its influence on the prognosis of human cancers is less understood. TNF-α, an important mediator of tumor stromal inflammation, is known to target the tumor vasculature. In this study, we demonstrate that B16-F1 melanomas grew more rapidly in C57BL/6 wild-type (WT) mice than in syngeneic mice with germline deletions of both TNF-α receptors (KO). more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL1261

4 Samples

Download data: CEL

(Submitter supplied) Although many methods have been developed for inference of biological networks, the validation of the resulting models has largely remained an unsolved problem. Here we present a framework for quantitative assessment of inferred gene interaction networks using knock-down data from cell line experiments. Using this framework we are able to show that network inference based on integration of prior knowledge derived from the biomedical literature with genomic data significantly improves the quality of inferred networks relative to other approaches. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

125 Samples

Download data: CEL