U.S. flag

An official website of the United States government

Format
Items per page
Sort by

Send to:

Choose Destination

Links from GEO DataSets

Items: 19

1.

Genome-wide analysis of melanoma cell lines using high-density single-nucleotide polymorphism arrays.

(Submitter supplied) Although a number of genes related to melanoma development have been identified through candidate gene screening approaches, few studies have attempted to conduct such analyses on a genome-wide scale. Here we use Illumina 317K whole-genome single-nucleotide polymorphism arrays to define a comprehensive allelotype of melanoma based on loss of heterozygosity (LOH) and copy number changes in a panel of 76 melanoma cell lines. more...
Organism:
Homo sapiens
Type:
Genome variation profiling by SNP array; SNP genotyping by SNP array
Platform:
GPL5711
76 Samples
Download data
Series
Accession:
GSE9003
ID:
200009003
2.

Affymetrix 250K StyI SNP array data from PBMCs and cell lines of metastatic melanoma patients

(Submitter supplied) Allele call files from on 250K StyI SNP array using DNA from 60 human cell lines from metastasized melanoma and from 44 corresponding peripheral blood mononuclear cells (CEL and CHP files provided).
Organism:
Homo sapiens
Type:
Genome variation profiling by SNP array; SNP genotyping by SNP array
Platform:
GPL3720
104 Samples
Download data: CEL, CHP
Series
Accession:
GSE17534
ID:
200017534
3.

Genomic Profiling of Malignant Melanoma using tiling resolution array CGH

(Submitter supplied) Malignant melanoma is an aggressive, heterogeneous disease where new biomarkers for diagnosis and clinical outcome are needed. We searched for chromosomal aberrations that characterize its pathogenesis using 47 different melanoma cell lines and tiling-resolution BAC-arrays for comparative genomic hybridization. Major melanoma genes, including BRAF, NRAS, CDKN2A, TP53, CTNNB1, CDK4 and PTEN were examined for mutations. more...
Organism:
Homo sapiens
Type:
Genome variation profiling by genome tiling array
Platform:
GPL4723
47 Samples
Download data: TXT
Series
Accession:
GSE6779
ID:
200006779
4.

Combined arrayCGH and SNP-loss of heterozygosity analysis in cervical cancer

(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:
GPL4012 GPL2641 GPL201
40 Samples
Download data: CEL, GPR
Series
Accession:
GSE8605
ID:
200008605
5.

Screening for copy-number alterations and LOH in CLL - a comparative study of four microarray platforms

(Submitter supplied) Screening for gene copy-number alterations (CNAs) has improved by applying genome-wide microarrays, where SNP arrays also allow analysis of loss of heterozygozity (LOH). We here analyzed 10 chronic lymphocytic leukemia (CLL) samples using four different high-resolution platforms: BAC arrays (32K), oligonucleotide arrays (185K, Agilent), and two SNP arrays (250K, Affymetrix and 317K, Illumina). Cross-platform comparison revealed 29 concordantly detected CNAs, including known recurrent alterations, which confirmed that all platforms are powerful tools when screening for large aberrations. more...
Organism:
Homo sapiens
Type:
Genome variation profiling by SNP array; Genome variation profiling by genome tiling array
4 related Platforms
40 Samples
Download data: CEL, CHP, GPR, TXT
Series
Accession:
GSE13557
ID:
200013557
6.

Genome-wide analysis of esopageal adenocarcinoma tumor biopsy using high-density single-nucleotide polymorphism arrays.

(Submitter supplied) We applied whole-genome single nucleotide polymorphism (SNP) arrays to define a comprehensive genetic profile of 23 esophageal adenocarcinoma (EAC) primary tumor biopsies based on loss of heterozygosity (LOH) and DNA copy number changes. Alterations were common, averaging 97 (range 23-208) per tumor. LOH and gains averaged 33 (range 3-83) and 31 (range 11-73) per tumor, respectively. Copy neutral LOH events averaged 27 (range 7-57) per EAC. more...
Organism:
Homo sapiens
Type:
Genome variation profiling by SNP array; SNP genotyping by SNP array
Platform:
GPL5711
24 Samples
Download data: TXT
Series
Accession:
GSE10506
ID:
200010506
7.

Profiling of chromosomal alterations in renal cell carcinoma using high-density single nucleotide polymorphism arrays

(Submitter supplied) We applied Illumina’s 317K high-density SNP-arrays to profile chromosomal aberrations in clear cell renal cell carcinoma (ccRCC) from 80 patients and analyzed the association of LOH/amplification events with clinicopathological characteristics
Organism:
Homo sapiens
Type:
Genome variation profiling by SNP array
Platforms:
GPL6979 GPL6980
80 Samples
Download data
Series
Accession:
GSE16019
ID:
200016019
8.

SNP array analysis of neuroblastoma tumors

(Submitter supplied) Chromosome 1p LOH was seen in one-third of cases. LOH events on chromosomes 11q and 1p were generally accompanied by copy number loss. The one exception was on chromosome 11p, where LOH in all 4 cases was accompanied by normal copy number or diploidy, implying uniparental disomy. Amplification of MYCN was also noted, and also, amplification of a second gene, ALK, in a single case. Keywords: SNP array analysis
Organism:
Homo sapiens
Type:
Genome variation profiling by SNP array; SNP genotyping by SNP array
Platforms:
GPL1266 GPL2641
44 Samples
Download data: CEL, TXT
Series
Accession:
GSE8333
ID:
200008333
9.

Affymetrix 100K SNP array data-

(Submitter supplied) allele call files from analysis of NCI60 cell line DNA on 100K SNP arrays. Keywords = NCI60, SNP array, cancer cell line Keywords: other
Organism:
Homo sapiens
Type:
Genome variation profiling by SNP array; SNP genotyping by SNP array
Platforms:
GPL2014 GPL2015
128 Samples
Download data: CEL
Series
Accession:
GSE2520
ID:
200002520
10.

RNAseq transcriptome profiling of melanoma cell lines

(Submitter supplied) The transcriptome of 55 cutaneous melanoma cell lines was assessed using RNAseq.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL11154
55 Samples
Download data: CSV, XLSX
Series
Accession:
GSE140673
ID:
200140673
11.

Comparison of primary neuroblastoma tumors and derivative early-passage cell lines using genome-wide SNP array analysis

(Submitter supplied) Stromal contamination is one of the major confounding factors in the analysis of primary solid tumor samples by single nucleotide polymorphism (SNP) arrays. As we propose to employ genome-wide SNP microarray analysis as a diagnostic platform for neuroblastoma, the sensitivity, specificity, and accuracy of these studies must be optimized. In order to investigate the effects of stroma, we derived early passage cell lines from nine primary tumors and compared their genomic signature with that of the primary tumors by 100K SNP array analysis. more...
Organism:
Homo sapiens
Type:
Genome variation profiling by SNP array; SNP genotyping by SNP array
Platforms:
GPL2004 GPL2005
54 Samples
Download data: CEL
Series
Accession:
GSE14656
ID:
200014656
12.

Patterns of somatic uniparental disomy identify novel tumor suppressor genes in colorectal cancer

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Homo sapiens
Type:
SNP genotyping by SNP array; Genome variation profiling by SNP array; Methylation profiling by array
Platforms:
GPL9183 GPL4091 GPL3720
148 Samples
Download data: CEL, TXT
Series
Accession:
GSE64114
ID:
200064114
13.

Patterns of somatic uniparental disomy identify novel tumor suppressor genes in colorectal cancer

(Submitter supplied) The aim of this study is to establish an integrative profiling of recurrent UPDs/UPPs, CNAs and genome-wide methylation status in sporadic CRC. Our results indicate that regions showing high frequencies of UPDs/UPPs mostly coincide with regions typically involved in genomic losses such as chromosome arms 1p, 5q, 8p, 14q, 17p, 18q, 20p, and 22q. Of these, chromosome arms 5q, 14q, 17p, and 20p preferentially showed UPDs/UPPs over genomic losses suggesting that tumor cells must maintain the disomic state of certain genes to favor cellular fitness. more...
Organism:
Homo sapiens
Type:
Methylation profiling by array
Platform:
GPL9183
58 Samples
Download data: TXT
Series
Accession:
GSE64112
ID:
200064112
14.

Patterns of somatic uniparental disomy identify novel tumor suppressor genes in colorectal cancer

(Submitter supplied) The aim of this study is to establish an integrative profiling of recurrent UPDs/UPPs, CNAs and genome-wide methylation status in sporadic CRC. Our results indicate that regions showing high frequencies of UPDs/UPPs mostly coincide with regions typically involved in genomic losses such as chromosome arms 1p, 5q, 8p, 14q, 17p, 18q, 20p, and 22q. Of these, chromosome arms 5q, 14q, 17p, and 20p preferentially showed UPDs/UPPs over genomic losses suggesting that tumor cells must maintain the disomic state of certain genes to favor cellular fitness. more...
Organism:
Homo sapiens
Type:
Genome variation profiling by genome tiling array
Platform:
GPL4091
30 Samples
Download data: TXT
Series
Accession:
GSE64110
ID:
200064110
15.

Patterns of somatic uniparental disomy identify novel tumor suppressor genes in colorectal cancer

(Submitter supplied) The aim of this study is to establish an integrative profiling of recurrent UPDs/UPPs, CNAs and genome-wide methylation status in sporadic CRC. Our results indicate that regions showing high frequencies of UPDs/UPPs mostly coincide with regions typically involved in genomic losses such as chromosome arms 1p, 5q, 8p, 14q, 17p, 18q, 20p, and 22q. Of these, chromosome arms 5q, 14q, 17p, and 20p preferentially showed UPDs/UPPs over genomic losses suggesting that tumor cells must maintain the disomic state of certain genes to favor cellular fitness. more...
Organism:
Homo sapiens
Type:
SNP genotyping by SNP array; Genome variation profiling by SNP array
Platform:
GPL3720
60 Samples
Download data: CEL, XLS
Series
Accession:
GSE64109
ID:
200064109
16.

Copy number analysis of human glioblastoma multiforme

(Submitter supplied) Copy number analysis of human GBM samples were performed, and a high frequency of deletions of the PTPRD gene on chromosome 9p23-24.1 were identified. Keywords: SNP microarray, glioblastoma multiforme, copy number, amplification, deletion
Organism:
Homo sapiens
Type:
Genome variation profiling by SNP array
Platform:
GPL3718
58 Samples
Download data: CEL
Series
Accession:
GSE13021
ID:
200013021
17.

Conjunctival melanoma copy number alterations and correlation with mutation status, tumor features and clinical outcome

(Submitter supplied) Relatively little is known about the genetic aberrations of conjunctival melanomas (CoM) and their correlation with clinical and histomorphological features as well as prognosis. The aim of this large collaborative multicentre study was to determine potential key biomarkers for metastatic risk and any druggable targets for high-risk metastatic CoM. Using Affymetrix Single Nucleotide Polymorphism genotyping arrays on 59 CoM, we detected frequent amplifications on chromosome (chr) 6p and deletions on 7q, and characterised mutation-specific copy number alterations. more...
Organism:
Homo sapiens
Type:
Genome variation profiling by SNP array
Platform:
GPL6801
59 Samples
Download data: CEL, CHP, TXT
Series
Accession:
GSE123011
ID:
200123011
18.

High-resolution Global Genomic Survey of 178 Gliomas

(Submitter supplied) Primary brain tumors are the fourth leading cause of cancer mortality in adults under the age of 54 years and the leading cause of cancer mortality in children in the United States. Therapy for the most common type of primary brain tumors, gliomas, remains suboptimal. The development of new and more effective treatments will likely require a better understanding of the biology of these tumors. Here, we show that use of the high-density 100K single-nucleotide polymorphism arrays in a large number of primary tumor samples allows for a much higher resolution survey of the glioma genome than has been previously reported in any tumor type. more...
Organism:
Homo sapiens
Type:
Genome variation profiling by SNP array; SNP genotyping by SNP array
Platforms:
GPL2004 GPL2005
356 Samples
Download data
Series
Accession:
GSE6109
ID:
200006109
19.

A comparison of DNA copy number profiling platforms using a panel of melanoma cell lines

(Submitter supplied) The accurate mapping of recurring DNA copy number aberrations (CNAs), a hallmark feature of the cancer genome, has facilitated the discovery of tumor suppressor genes and oncogenes. Microarray-based assays designed to detect these chromosomal copy number alterations on a genome-wide and high-resolution scale have emerged as a cornerstone technology in the genomic era. The diversity of commercially-available platforms prompted a systematic comparison of five copy number profiling assays for their ability to detect 2-fold copy number gain and loss (4n or 1n, respectively) as well as focal high-amplitude CNAs. more...
Organism:
Homo sapiens
Type:
Genome variation profiling by genome tiling array; Genome variation profiling by SNP array
8 related Platforms
151 Samples
Download data: CEL, TXT
Series
Accession:
GSE7822
ID:
200007822
Format
Items per page
Sort by

Send to:

Choose Destination

Supplemental Content

db=gds|term=|query=1|qty=2|blobid=MCID_67492ae44e6f392e26360d5d|ismultiple=true|min_list=5|max_list=20|def_tree=20|def_list=|def_view=|url=/Taxonomy/backend/subset.cgi?|trace_url=/stat?
   Taxonomic Groups  [List]
Tree placeholder
    Top Organisms  [Tree]

Find related data

Recent activity

Your browsing activity is empty.

Activity recording is turned off.

Turn recording back on

See more...
Support Center