GEO DataSets

(Submitter supplied) Cutaneous melanoma is an aggressive type of skin cancer with a complex genetic landscape caused by the malignant transformation of melanocytes. The study aimed at providing an in-silico network model based on the systematic profiling of the melanoma-associated genes considering germline mutations, somatic mutations, and genome-wide association studies (GWAS) signals (collectively melanoma risk genes). more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL30173

12 Samples

Download data: TXT

(Submitter supplied) To explore the roles of cell-type specific methylation QTL (meQTL) for melanoma GWAS annotation, we generated DNA methylation data from the same sample set as our previouse eQTL study including 106 primary melanocyte cultures. The Illumina Infinium 450k Human DNA methylation Beadchip v1.2 was used to obtain DNA methylation profiles across approximately 480,000 CpGs in 106 primary melanocyte cultures. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL13534

106 Samples

Download data: IDAT, TXT

(Submitter supplied) Spotted oligonucleotide microarrays were used to assess global differential gene expression comparing normal human melanocytes with six independent melanoma cell strains from advanced lesions. The data, validated at the protein level for selected genes, confirmed the overexpression in melanoma cells relative to normal melanocytes of several genes in the growth factor/receptor family that confer growth advantage and metastasis. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL3606

10 Samples

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(Submitter supplied) Affymetrix oligonucleotide microarrays were used to assess global differential gene expression comparing normal human melanocytes with six independent melanoma cell strains from advanced lesions. The data, validated at the protein level for selected genes, confirmed the overexpression in melanoma cells relative to normal melanocytes of several genes in the growth factor/receptor family that confer growth advantage and metastasis. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS1965

Platform:

GPL96

8 Samples

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Expression profiling of normal melanocytes, primary melanoma cells, and metastatic melanoma cells. Results provide insight into changes in advanced melanoma relative to normal melanocytes and reveal new targets that can be used in assessing prognosis, staging, and therapy of melanoma patients.

Organism:

Homo sapiens

Type:

Expression profiling by array, count, 2 cell type, 3 disease state sets

Platform:

GPL96

Series:

GSE4570

8 Samples

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(Submitter supplied) We investigated copy number alterations in melanomas from two cohorts of Braf mutant mice (UV exposed and no UV exposure) by comparing tumour DNA to germline DNA by array CGH

Organism:

Mus musculus

Type:

Genome variation profiling by genome tiling array

Platform:

GPL15225

30 Samples

Download data: PAIR

(Submitter supplied) Melanoblastoma-bearing Libechov minipigs (MeLiM) provide an animal model for the study of spontaneous cutaneous melanoma. We compared the serial analysis of gene expression (SAGE) profile between normal skin melanocytes and melanoma cells from a pulmonary metastasis of MeLiM. Keywords: disease state study

Organism:

Sus scrofa

Type:

Expression profiling by SAGE

Platform:

GPL4262

2 Samples

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(Submitter supplied) A number of melanoma specific genes were identified to differentiate clinical relevant tissue samples containing benign from malignant melanocytes. Keywords: disease state analysis

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS1375

Platform:

GPL96

70 Samples

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Expression profiling of primary malignant melanoma, benign skin nevi, and normal skin samples. Results identify potential molecular markers for lymph node staging assays, and provide insight into melanoma tumorigenesis.

Organism:

Homo sapiens

Type:

Expression profiling by array, count, 3 disease state sets

Platform:

GPL96

Series:

GSE3189

70 Samples

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(Submitter supplied) We investigated the miRNAome in human melanocyte and melanoma cell lines using high-throughput RNA sequencing. We identified a group of dysregulated miRNAs by comparing the miRNA expression profiles among melanoma cell lines. Target genes of these miRNAs participate in functions associated with the cell cycle and apoptosis. Gene networks were built to investigate the interactions of genes during melanoma progression. more...

Organism:

Homo sapiens

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL9115

3 Samples

Download data: TXT

(Submitter supplied) A complex network of inflammation succeeds somatic cell transformation and malignant disease. Immune cells and their associated molecules are responsible for detecting and eliminating cancer cells as they establish themselves as the precursors of a tumour. By the time a patient has a detectable solid tumour, cancer cells have escaped the initial immune response mechanisms. To date, no model exists to allow us to study the underlying mechanisms that govern the initial phase of the immune response as cells are transformed to become the precursors of cancer. more...

Organism:

Danio rerio

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20828

4 Samples

Download data: TXT

(Submitter supplied) Germline mutations in CDKN2A and/or red hair colour variants in MC1R genes are associated with an increased susceptibility to develop cutaneous melanoma. To investigate the impact of germinal p.G101W CDKN2A mutation and MC1R variants on gene expression and transcription profiles associated to skin cancer and melanoma in particular, we set-up primary skin cultures from twins belonging to the melanoma prone-families with and without these genomic features. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL6480

12 Samples

Download data: TXT

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

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing; Genome variation profiling by SNP array; Genome variation profiling by genome tiling array

4 related Platforms

36 Samples

Download data: CEL, CSV, TXT

(Submitter supplied) All cancers are diseases of the genome. A combination of somatic point mutations, focal amplifications and deletions, and chromosome level aberrations conspire to disrupt gene expression and the interplay between signaling pathways that control normal growth and tissue homeostasis. Here we investigate transcript levels in 7 melanomas and a pool of melanocytes.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL9186

8 Samples

Download data: TXT

(Submitter supplied) All cancers are diseases of the genome. A combination of somatic point mutations, focal amplifications and deletions, and chromosome level aberrations conspire to disrupt gene expression and the interplay between signaling pathways that control normal growth and tissue homeostasis. Here we investigate somatic copy number abberations in metastatic melanomas.

Organism:

Homo sapiens

Type:

Genome variation profiling by genome tiling array; Genome variation profiling by SNP array

Platforms:

GPL6801 GPL6984 GPL9128

28 Samples

Download data: CEL, CSV, TXT

(Submitter supplied) In order to improve our understanding of microRNA (miRNA) deregulation in melanoma development and possible consequences for patient survival, miRNA expression profiles were determined, using an array based approach, in melanoma tumors, melanoma cell lines and normal melanocytes. Differentially expressed miRNAs were evaluated in relation to clinical characteristics, patient prognosis in terms of melanoma-specific survival, and mutational status for BRAF and NRAS.

Organism:

Homo sapiens

Type:

Non-coding RNA profiling by array

Platform:

GPL9081

40 Samples

Download data: TXT

(Submitter supplied) The response of microRNAs (miRNAs) to solar ultraviolet radiation (UVR) in human melanocytes while in their natural environment, and in particular, melanocytes from persons with a history of melanoma versus those from healthy persons, have yet to be described. Here, we used laser capture microdissection (LCM) to isolate and subsequently profile the expression of miRNAs in a pure population of melanocytes from human volunteers exposed to physiological doses of simulated sunlight (ssUVR). more...

Organism:

Homo sapiens

Type:

Other

Platforms:

GPL17039 GPL17040

68 Samples

Download data: SDS, XLS

(Submitter supplied) Affymetrix microarray data was generated from MCF7 breast cancer cells treated in vitro with siRNAs against 78 transcription factors and signalling molecules.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

89 Samples

Download data: CEL

(Submitter supplied) Affymetrix microarray data were generated from A375 melanoma cells treated in vitro with siRNAs against 45 transcription factors and signalling molecules.

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS4813

Platform:

GPL570

51 Samples

Download data: CEL

Analysis of cultured A375 melanoma cells depleted for various transcription factors and signaling proteins. Results provide insight into the molecular pathogenesis of melanoma.

Organism:

Homo sapiens

Type:

Expression profiling by array, count, 47 agent sets

Platform:

GPL570

Series:

GSE31534

51 Samples

Download data: CEL