GEO DataSets

Analysis of 4 retinoblastomas with loss of heterozygosity (LOH) at chromosome 16q. In addition to RB1 gene mutations, retinoblastomas frequently show gains of 1q and 6p and losses of 16q. Results identify candidate tumor suppressors on 16q in retinoblastoma.

Organism:

Homo sapiens

Type:

Expression profiling by array, count, 2 genotype/variation sets

Platform:

GPL96

Series:

GSE5222

12 Samples

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(Submitter supplied) This series represents the data set described in the publication “Allelic loss in a minimal region on chromosome 16q24 is associated with vitreous seeding of retinoblastoma Keywords: array CGH

Organism:

Homo sapiens

Type:

Genome variation profiling by genome tiling array

Platform:

GPL3960

2 Samples

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(Submitter supplied) Genomic losses on chromosome 16q are among the most frequent alterations found in retinoblastoma. In this study, Affymetrix GeneChip analyses along with LOH analysis of microsatellie markers was used to identify candidate tumor suppressor loci in a set of retinoblastoma. We used microarrays to identify genes differentially expressed in retinoblastoma with LOH on 16q (M19484, M22590, M22641, M22860) compared to retinoblastoma without alterations in this region (M20517, M22067, M22233, M23209, M23449, M23818, M23896, M23978) Keywords: Disease progression

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS2530

Platform:

GPL96

12 Samples

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(Submitter supplied) DOP-PCR products were spotted in triplicate onto NexterionTM Slide E epoxysilane-coated slides (PEQLAB, Erlangen, Germany) using a spotting robot (VersArray ChipWriterTM Pro system, BioRad, Munich, Germany) at 20°C and 40% humidity. After spotting, slides were cross-linked, baked for 1 hr at 80°C, and cross-linked again.

Organism:

Homo sapiens

2 Series

139 Samples

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(Submitter supplied) DOP-PCR products were spotted in triplicate onto NexterionTM Slide E epoxysilane-coated slides (PEQLAB, Erlangen, Germany) using a spotting robot (VersArray ChipWriterTM Pro system, BioRad, Munich, Germany) at 20°C and 40% humidity. After spotting, slides were cross-linked, baked for 1 hr at 80°C, and cross-linked again.

Organism:

Homo sapiens

2 Series

90 Samples

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(Submitter supplied) BACKGROUND: Cervical carcinoma develops as a result of multiple genetic alterations. Different studies investigated genomic alterations in cervical cancer mainly by means of metaphase comparative genomic hybridization (mCGH) and microsatellite marker analysis for the detection of loss of heterozygosity (LOH). Currently, high throughput methods such as array comparative genomic hybridization (array CGH), single nucleotide polymorphism array (SNP array) and gene expression arrays are available to study genome-wide alterations. more...

Organism:

Homo sapiens

Type:

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

Platforms:

GPL2641 GPL4012 GPL201

40 Samples

Download data: CEL, GPR

(Submitter supplied) A SNP microarray and FISH-based procedure to detect allelic imbalances in multiple myeloma: an integrated genomics approach reveals a wide dosage effect on gene and microRNA expression This SuperSeries is composed of the SubSeries listed below.

Organism:

Homo sapiens

Type:

Expression profiling by array; Genome variation profiling by SNP array

Platforms:

GPL96 GPL2005

203 Samples

Download data: CEL

(Submitter supplied) A SNP microarray and FISH-based procedure to detect allelic imbalances in multiple myeloma: an integrated genomics approach reveals a wide dosage effect on gene and microRNA expression Multiple myeloma (MM) is characterized by marked genomic instability. Beyond structural rearrangements, a relevant role in its biology is represented by allelic imbalances leading to significant variations in ploidy status. more...

Organism:

Homo sapiens

Type:

Genome variation profiling by SNP array

Platform:

GPL2005

45 Samples

Download data: CEL

(Submitter supplied) Multiple myeloma (MM) is characterized by marked genomic instability. Beyond structural rearrangements, a relevant role in its biology is represented by allelic imbalances leading to significant variations in ploidy status. To better elucidate the genomic complexity of MM, we analyzed a panel of 45 patients using combined FISH and microarray approaches. Using a self-developed procedure to infer exact local copy numbers for each sample, we identified a significant fraction of patients showing marked aneuploidy. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL96

158 Samples

Download data: CEL

(Submitter supplied) Background: Mutation of the RB1 gene is necessary but not sufficient for the development of retinoblastoma. The nature of events occurring subsequent to RB1 mutation is unclear, as is the retinal cell-of-origin of this tumour. Methods: Gene expression profiling of 21 retinoblastomas was carried out to identify genetic events that contribute to tumorigenesis and to obtain information about tumour histogenesis. more...

Organism:

Homo sapiens

Type:

Expression profiling by array; Third-party reanalysis

Platform:

GPL6244

21 Samples

Download data: CEL, TXT

(Submitter supplied) In order to identify the gene targets of frequently altered chromosomal regions in retinoblastoma, a meta-analysis of genome-wide copy number alterations studies on primary retinoblastoma tissue and retinoblastoma cell lines was performed. Published studies were complemented by copy number and gene expression analysis on primary and cell line samples of retinoblastoma. This dataset includes the gene expression data of the retinoblastoma cell lines

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL13158

9 Samples

Download data: CEL

(Submitter supplied) Bilateral retinoblastoma has served as a critical model for studying genetic predisposition to cancer, however international incidence of unilateral retinoblastoma is variable across populations suggesting the involvement of environmental factors. DNA from Human Papilloma Virus (HPV) has been found in human retinoblastoma tissue through polymerase chain reaction based methods in several independent reports. more...

Organism:

Saccharomyces cerevisiae; Homo sapiens

Type:

Expression profiling by array

Platform:

GPL520

19 Samples

Download data: TXT

(Submitter supplied) Background Retinoblastoma is a pediatric eye cancer associated with RB1 loss or MYCN amplification (RB1+/+MYCNA). There are controversies concerning the existence of molecular subtypes within RB1-/- retinoblastoma. To test whether these molecular subtypes exist, we performed molecular profiling. Methods Genome-wide mRNA expression profiling was performed on 76 primary human retinoblastomas. Expression profiling was complemented by genome-wide DNA profiling and clinical, histopathological, and ex vivo drug sensitivity data. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL13158

76 Samples

Download data: CEL

(Submitter supplied) Retinoblastoma is the most frequent intraocular malignancy in children. Little is known on the molecular basis underlying the biological and clinical behavior of this cancer. Here, using gene expression profiles, we demonstrate the existence of two major retinoblastoma subtypes that can be divided into six subgroups.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

114 Samples

Download data: CEL, XLSX