GEO DataSets

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

Organism:

Homo sapiens

Type:

Expression profiling by array; Genome variation profiling by SNP array

Platforms:

GPL2004 GPL570 GPL2005

2056 Samples

Download data: CEL, CHP, CNCHP

(Submitter supplied) The Rembrandt brain cancer dataset and includes clinical and biospecimen data from this study for 671 patients collected from 14 contributing institutions in 2005. Such combined datasets would provide researchers with a unique opportunity to conduct integrative analysis of gene expression and copy number changes alongside clinical outcomes this large brain cancer study. In 2015, the NCI retired the REMBRANDT data portal, and all molecular data including microarray gene expression, copy number, and clinical data, was migrated to the Georgetown Database of Cancer (G-DOC). more...

Organism:

Homo sapiens

Type:

Genome variation profiling by SNP array

Platforms:

GPL2005 GPL2004

1506 Samples

Download data: CEL, CHP, CNCHP, TXT, XLSX

(Submitter supplied) Fresh frozen Melanoma patient samples were profiled on Affymetrix GeneChip Mapping 100K Set Arrays

Organism:

Homo sapiens

Type:

Genome variation profiling by SNP array

Platforms:

GPL2004 GPL2005

72 Samples

Download data: CEL

(Submitter supplied) To elucidate the pathogenesis of rhabdomyosarcoma (RMS), particularly for different subgroups, we performed a SNP array-based copy number analysis of 54 RMS specimens from primary cases with ERMS (N = 30), ARMS (N = 14), unclassified RMS (N = 1), and RMS of unknown histology (N = 3) together with 7 RMS-derived cell lines. The ERMS subtype was characterized by hyperploidy and was significantly associated with gains of chromosomes 2, 8, and 12, whereas majority of ARMS cases exhibited near-diploid copy number profiles. more...

Organism:

Homo sapiens

Type:

SNP genotyping by SNP array; Genome binding/occupancy profiling by SNP array

Platforms:

GPL2004 GPL3718

55 Samples

Download data: CEL, CHP

(Submitter supplied) We recently identified recurrent mutations of cohesin complex in myeloid neoplasms through whole-exome sequencing analysis. In this study, we performed SNP array analysis to detect abnormal copy number of the cohesin genes.

Organism:

Homo sapiens

Type:

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

Platforms:

GPL3718 GPL2004 GPL2005

163 Samples

Download data: CEL, CHP

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

Organism:

Homo sapiens

Type:

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

4 related Platforms

175 Samples

Download data: CEL, CHP, DCP

(Submitter supplied) Copy number profiling of 92 human lung tumors on Affymetrix 100K SNP arrays was conducted in order to assess the interaction of common genomic alterations with response to targeted anti-cancer therapeutics. Class 1 phosphatidylinositol 3' kinase (PI3K) plays a major role in cell proliferation and survival in a wide variety of human cancers. Here we investigate biomarker strategies for PI3K pathway inhibitors in non-small-cell lung cancer (NSCLC). more...

Organism:

Homo sapiens

Type:

Genome variation profiling by SNP array

Platforms:

GPL2004 GPL2005

184 Samples

Download data: CEL

(Submitter supplied) Childhood T-cell malignancies include T-cell acute lymphoblastic leukemia (T-ALL) and T-cell lymphoblastic lymphoma (T-LBL). T-ALL and T-LBL share common morphologic and immunophenotypic features and are treated with similar therapeutic approaches. Nonetheless, they show distinct clinical presentations suggesting that they may represent two different biological entities. In order to investigate the common and unique genetic aberrations of T-LBL and T-ALL, copy number alteration (CNA) analysis was performed on a subset of the samples analyzed by GEP

Organism:

Homo sapiens

Type:

Genome variation profiling by SNP array

Platforms:

GPL2005 GPL2004

72 Samples

Download data: CEL, CHP, TXT

(Submitter supplied) Hepatocellular carcinoma tumor samples were profiled for chromsomal copy number changes on Affymterix 100K SNP arrays

Organism:

Homo sapiens

Type:

Genome variation profiling by SNP array

Platforms:

GPL2005 GPL2004

40 Samples

Download data: CEL

(Submitter supplied) Meningiomas are one of the most common adult brain tumors. For most patients, surgical excision is curative. However, up to 20% recur. Currently, the molecular determinants predicting recurrence and malignant transformation are lacking. We performed global genetic and genomic analysis of 85 meningioma samples of various grades. Copy number alterations were assessed by 100K SNP arrays and correlated with gene expression, proliferation indices, and clinical outcome. more...

Organism:

Homo sapiens

Type:

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

Platforms:

GPL2004 GPL2005

170 Samples

Download data: CEL, CHP, TXT

(Submitter supplied) sPNETs are highly malignant embryonal brain tumours of poor prognosis. The underlying biology is poorly understood. To address this we therefore performed high resolution genetic analysis. 36 CNS PNETs and 8 PBs were analysed using the Affymetrix 100K and 500K Mapping Set to identify copy number imbalance at both the chromosome and gene level. Keywords: Affymetrix 100K SNP array, Affymetrix 500K SNP arrays

Organism:

Homo sapiens

Type:

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

4 related Platforms

108 Samples

Download data: CEL, CHP

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

Organism:

Homo sapiens

Type:

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

Platforms:

GPL2004 GPL2005 GPL6244

102 Samples

Download data: CEL, CHP

(Submitter supplied) Several copy number altered regions (CNA) have been identified in the genome of cervical cancer, especially amplifications of 3q and 5p. However, the contribution of those alterations to cervical carcinogenesis is still a matter of debate, since genome-wide, there is a lack of correlation between CNAs and gene expression. In this study, we investigated whether the CNAs in cell lines (CaLo, CasKi, HeLa, SiHa), at a gene-by-gene level, are related to changes in gene expression. more...

Organism:

Homo sapiens

Type:

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

Platforms:

GPL2005 GPL2004

84 Samples

Download data: CEL, CHP

(Submitter supplied) Genome-wide association study (GWAS) was performed in 120 patient-parents trio samples from Japanese schizophrenia pedigrees ABSTRACT: Schizophrenia is a devastating neuropsychiatric disorder with genetically complex traits. Genetic variants should explain a considerable portion of the risk for schizophrenia, and genome-wide association study (GWAS) is a potentially powerful tool for identifying the risk variants that underlie the disease. more...

Organism:

Homo sapiens

Type:

SNP genotyping by SNP array

4 related Platforms

720 Samples

Download data: CEL, TXT

(Submitter supplied) Gene expression profiles, high-throughput SNP genotyping, and pathway analysis effectively distinguish chRCC from oncocytoma.  We have generated a novel transcript predictor that is able to discriminate between the two entities accurately, and which has been validated both in an internal and an independent data-set, implying generalizability.  A cytogenetic alteration, loss of chromosome 1p, common to renal oncocytoma and chRCC has been identified, providing the opportunities for identifying novel tumor suppressor genes and we have identified a series of immunohistochemical markers that are clinically useful in discriminating chRCC and oncocytoma.

Organism:

Homo sapiens

Type:

SNP genotyping by SNP array

Platforms:

GPL2005 GPL2004

28 Samples

Download data: CEL, CHP

(Submitter supplied) The pituitary-tumor transforming gene (PTTG1) is a recently discovered oncogene implicated in the malignant progression of a number of neoplasms. It has been shown to drive both endocrine and non-endocrine malignancies, but has not yet been studied in the context of renal cell carcinoma. Here we show that PTTG1 is frequently amplified and overexpressed in clear cell renal cell carcinoma, the most common form of kidney cancer. more...

Organism:

Homo sapiens

Type:

Genome variation profiling by SNP array

Platforms:

GPL2004 GPL2005

90 Samples

Download data: CEL, TXT

(Submitter supplied) Copy number profiling of 36 ovarian tumors on Affymetrix 100K SNP arrays Thirty-six ovarian tumors were profiled for copy-number alterations with the Affymetrix 100K Mapping Array. Copy number profiling of 36 ovarian tumors on Affymetrix 500K SNP arrays Sixteen ovary tumors were profiled for copy-number alterations with the high-resolution Affymetrix 500K Mapping Array.

Organism:

Homo sapiens

Type:

Genome variation profiling by SNP array

4 related Platforms

104 Samples

Download data: CEL

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

Organism:

Homo sapiens

Type:

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

Platforms:

GPL570 GPL2004 GPL2005

238 Samples

Download data: CEL, CHP, TXT

(Submitter supplied) Cancer is a heterogeneous disease caused by genomic aberrations and characterized by significant variability in clinical outcome and response to therapies. Several subtypes of common cancer types have been identified based on alterations of individual cancer genes, such as HER2, EGFR, and others. However, cancer is a complex disease driven by the interaction of multiple genes, so the copy number status of individual genes is not sufficient to define cancer subtypes and predict the response to treatments. more...

Organism:

Homo sapiens

Type:

Genome variation profiling by SNP array

Platforms:

GPL2005 GPL2004

762 Samples

Download data: CEL

(Submitter supplied) We performed a genome-wide association study in pooled DNA samples from patients with severe statin myopathy and persistent symptoms post-therapy versus pooled DNAs from an age-adjusted statin-tolerant group.

Organism:

Homo sapiens

Type:

Genome variation profiling by SNP array

Platforms:

GPL2004 GPL2005

4 Samples

Download data: CEL