GEO DataSets

Analysis of lymphoblastoid cell lines (LCLs), obtained from alcoholics, after treatment with ethanol in vitro. Results provide insight into the feasibility of using LCLs to study the molecular consequences of exposure to alcohol.

Organism:

Homo sapiens

Type:

Expression profiling by array, count, 2 agent, 2 disease state, 2 gender, 42 individual sets

Platform:

GPL570

Series:

GSE52553

84 Samples

Download data: CEL, CHP

(Submitter supplied) 4 samples from 9 brain regions Brain tissue from the New South Wales Tissue Resource Centre, 9 brain regions, 4 samples each: 1 male alcoholic, 1 female alcoholic, 1 male control, 1 female control. Brain regions: pre-frontal cortex, cerebral cortex, visual cortex, thalamus, hippocampus, amygdala, caudate nucleus, putamen, cerebellum

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL6244

36 Samples

Download data: CEL

(Submitter supplied) Compared gene expression in lymphoblasoid cell lines from alcholics and controls and 24 hr treatment with ethanol. To elucidate the effects of a controlled exposure to ethanol on gene expression, we studied lymphoblastoid cell lines (LCLs) from 21 alcoholics and 21 controls. We cultured each cell line for 24 h with and without 75 mM ethanol and measured gene expression using microarrays. Differences in expression between LCL from alcoholics and controls were modest, but included 13 genes previously identified as associated with alcoholism or related traits in one or more GWAS, including KCNA3, DICER1, ZNF415, Catalase and PPARGC1B. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS5430

Platform:

GPL570

84 Samples

Download data: CEL, CHP

(Submitter supplied) The short term effects of alcohol on gene expression in brain tissue cannot directly be studied in humans. Because neuroimmune signaling is altered by alcohol, immune cells are a logical, accessible choice to study and might provide biomarkers. RNAseq was used to study the effects of 48 h exposure to ethanol on lymphoblastoid cell lines (LCLs) from 20 alcoholics and 20 controls. Ethanol exposure resulted in differential expression of 4,577 of the 12,526 genes detectably expressed in the LCLs (FDR ≤ 0.05); 55% of these showed increased expression. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16558

80 Samples

Download data: TXT

(Submitter supplied) Comparison of gene expression in post-mortem hippocampus from 20 alcoholics and 19 controls. The chronic high-level alcohol consumption seen in alcoholism leads to dramatic effects on the hippocampus, including decreased white matter, loss of oligodendrocytes and other glial cells, and inhibition of neurogenesis. Examining gene expression in post mortem hippocampal tissue from 20 alcoholics and 19 controls allowed us to detect differentially expressed genes that may play a role in the risk for alcoholism or whose expression is modified by chronic consumption of alcohol. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS4879

Platform:

GPL6244

39 Samples

Download data: CEL

Analysis of post-mortem hippocampus of chronic alcoholics (CAs). Chronic high-level alcohol consumption leads to decreased white matter and inhibition of neurogenesis. Results provide insight into molecular mechanisms that may play a role in the risk for alcoholism.

Organism:

Homo sapiens

Type:

Expression profiling by array, transformed count, 2 disease state, 2 gender sets

Platform:

GPL6244

Series:

GSE44456

39 Samples

Download data: CEL

(Submitter supplied) We used whole gene gene expression profiling to identify potential gene expression biomarkers associated for the treatment individualization of depressive disorders.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL17077

20 Samples

Download data: TXT

(Submitter supplied) To identify altered pathways in SCA28 LCLs, we performed a whole genome expression profiling, based on Affymetrix Human Genome U133A 2.0 Chip Array, on LCLs from four unrelated patients, each carrying a different AFG3L2 mutation.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL571

10 Samples

Download data: CEL

(Submitter supplied) Analysis of early stages of alcohol dependence at the gene expression level. The hypothesis tested in the present study was that ethanol-treatment impact gene expression in a mouse model of high ethanol consumption. Results provide important information of genes and pathways being affected by ethanol actions in the mouse frontal cortex.

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL6885

32 Samples

Download data: TXT

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

Organism:

Homo sapiens

Type:

SNP genotyping by SNP array; Expression profiling by array; Genome variation profiling by SNP array

4 related Platforms

862 Samples

Download data: CEL

(Submitter supplied) Radiation therapy is used to treat half of all cancer patients. Response to radiation therapy varies widely among patients. Therefore, we performed a genome-wide association study (GWAS) to identify biomarkers to help predict radiation response using 277 ethnically defined human lymphoblastoid cell lines (LCLs). Basal gene expression levels (Affymetrix) and 1.3 million genome-wide SNP markers (Illumina) were assayed for all 277 human LCLs. more...

Organism:

Homo sapiens

Type:

SNP genotyping by SNP array; Genome variation profiling by SNP array

Platform:

GPL6987

95 Samples

Download data: CSV

(Submitter supplied) Radiation therapy is used to treat half of all cancer patients. Response to radiation therapy varies widely among patients. Therefore, we performed a genome-wide association study (GWAS) to identify biomarkers to help predict radiation response using 277 ethnically defined human lymphoblastoid cell lines (LCLs). Basal gene expression levels (Affymetrix) and 1.3 million genome-wide SNP markers (Illumina) were assayed for all 277 human LCLs. more...

Organism:

Homo sapiens

Type:

SNP genotyping by SNP array; Genome variation profiling by SNP array

Platform:

GPL6434

192 Samples

Download data: CSV

(Submitter supplied) Radiation therapy is used to treat half of all cancer patients. Response to radiation therapy varies widely among patients. Therefore, we performed a genome-wide association study (GWAS) to identify biomarkers to help predict radiation response using 277 ethnically defined human lymphoblastoid cell lines (LCLs). Basal gene expression levels (Affymetrix) and 1.3 million genome-wide SNP markers (Illumina) were assayed for all 277 human LCLs. more...

Organism:

Homo sapiens

Type:

SNP genotyping by SNP array; Genome variation profiling by SNP array

Platform:

GPL6988

288 Samples

Download data: CSV

(Submitter supplied) We used microarrays to identify the variation of basal gene expression level among 287 lymphoblastoid cell lines. Radiation therapy is used to treat half of all cancer patients. Response to radiation therapy varies widely among patients. Therefore, we performed a genome-wide association study (GWAS) to identify biomarkers to help predict radiation response using 277 ethnically defined human lymphoblastoid cell lines (LCLs). more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

287 Samples

Download data: CEL

(Submitter supplied) We have performed gene expression microarray analysis of two types of dementia, Alzheimer's disease (AD) and frontotemporal dementia (FTD), using two kind of samples, frozen brain tissue and lymphoblastoid cell lines.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL23126

58 Samples

Download data: CEL

(Submitter supplied) Epstein-Barr virus (EBV) transformed lymphoblastoid cell lines (LCLs) are a widely used renewable resource for functional genomic studies in humans. The ability to accumulate multidimensional data pertaining to the same individual cell lines, from complete genomic sequences to detailed gene regulatory profiles, further enhances the utility of LCLs as a model system. However, the extent to which LCLs are a faithful model system is relatively unknown. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platforms:

GPL10558 GPL6947

187 Samples

Download data: TXT