Similar studies for GEO DataSets (Select 200022839) - GEO DataSets

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Items: 20

Select item 2000228391.

Integration of transcript expression, copy number and LOH analysis of infiltrating ductal carcinoma of the breast: copy number analysis

(Submitter supplied) Introduction: A major challenge in the interpretation of genomic profiling data generated from breast cancer samples is the identification of driver genes as distinct from bystander genes which do not impact tumorigenesis. One way to assess the relative importance of alterations in the transcriptome profile is to combine complementary analyses that assess changes in the copy number alterations (CNAs). more...

Organism:: Homo sapiens

Type:: Genome variation profiling by SNP array

Platform:: GPL3720
22 Samples

Download data: CEL

Series

Accession:: GSE22839

ID:: 200022839

PubMed Full text in PMC Similar studies

Select item 2000228402.

Integration of transcript expression, copy number and LOH analysis of infiltrating ductal carcinoma of the breast

(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:: GPL570 GPL3720
42 Samples

Download data: CEL

Series

Accession:: GSE22840

ID:: 200022840

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2000225443.

Integration of transcript expression, copy number and LOH analysis of infiltrating ductal carcinoma of the breast: expression analysis

Organism:: Homo sapiens

Type:: Expression profiling by array

Platform:: GPL570
20 Samples

Download data: CEL

Series

Accession:: GSE22544

ID:: 200022544

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Select item 2000086054.

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 GPL201 GPL2641
40 Samples

Download data: CEL, GPR

Series

Accession:: GSE8605

ID:: 200008605

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Select item 2000075455.

Affymetrix 500K Mapping Array data from breast tumors

(Submitter supplied) Fifty-one breast tumors were profiled for copy-number alterations with the high-resolution Affymetrix 500K Mapping Array. Combined analysis of the prevalence and amplitude of copy-number alterations defined regions of recurrent gain or loss. Gains were most frequently observed on chromosomes 1, 8, 10, 11, 13, 15, 17, and 20. Losses were most frequent on chromosomes 3, 6, 11, 13, 14, 16, and 17. Compared with previous lower-resolution data, our analysis provided significantly more precise boundaries for frequently altered regions, greatly reducing the number of potential alteration-driving genes. more...

Organism:: Homo sapiens

Type:: Genome variation profiling by SNP array

Platforms:: GPL3720 GPL3718
102 Samples

Download data: CEL, EXP

Series

Accession:: GSE7545

ID:: 200007545

PubMed Similar studies

Select item 2000316456.

Landscape of somatic allelic imbalances and copy number alterations in HER2-amplified breast cancer

(Submitter supplied) A survey of the somatic allelic imbalances and copy number alterations in HER2-amplified breast cancer.

Organism:: Homo sapiens

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

Platforms:: GPL13314 GPL8882
26 Samples

Download data: TXT

Series

Accession:: GSE31645

ID:: 200031645

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Select item 2000212597.

High-resolution aCGH analyses of copy number alterations in HER2-amplified breast cancer

(Submitter supplied) HER2 gene amplification and protein overexpression (HER2+) define a clinically challenging subgroup of breast cancer with variable prognosis and response to therapy. Although gene expression profiling has identified an ERBB2 molecular subtype of breast cancer, it is clear that HER2+ tumors reside in all molecular subtypes and represent a genomically and biologically heterogeneous group. Genome-wide DNA copy number profiling, using BAC array comparative genomic hybridization (aCGH) were performed on 200 tumors with mixed clinical characteristics and amplification of HER2. more...

Organism:: Homo sapiens

Type:: Genome variation profiling by genome tiling array

Platforms:: GPL9077 GPL7247 GPL4723
200 Samples

Download data: GPR

Series

Accession:: GSE21259

ID:: 200021259

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Select item 2000160198.

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

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Series

Accession:: GSE16019

ID:: 200016019

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Select item 1000014329.

6k-array, version 3/4.

(Submitter supplied) Whole-genome BAC-array. Isolated BAC-DNA was amplified by two-step DOP-PCR. PCR products were dissolved in 3xSSC, 1.5M betaine and spotted as triplicates on epoxysilane-coated slides. Keywords = Matrix-CGH Keywords = array-CGH

Organism:: Homo sapiens

1 Series
94 Samples

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Platform

Accession:: GPL1432

ID:: 100001432

PubMed Similar studies

Select item 20001355710.

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

Select item 20000396011.

Classification of neuroblastoma by integrating gene expression pattern with regional alterations in DNA copy number

(Submitter supplied) The specific genes that influence neuroblastoma biology and are targeted by genomic alterations remain largely unknown. We quantified mRNA expression in a highly annotated series of 101 prospectively collected diagnostic neuroblastoma primary tumors and the expression profiles were determined using Affymetrix U95Av2 arrays. Comparisons between the sample groups allow the identification of genes with localized expression patterns. more...

Organism:: Homo sapiens

Type:: Expression profiling by array

Platform:: GPL8300
102 Samples

Download data: CEL

Series

Accession:: GSE3960

ID:: 200003960

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20002906612.

Molecular profiling of primary lung carcinomas

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

Organism:: Homo sapiens

Type:: Expression profiling by array; Genome variation profiling by genome tiling array

Platforms:: GPL6947 GPL4723
150 Samples

Download data: GPR

Series

Accession:: GSE29066

ID:: 200029066

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20002906513.

Landscape of somatic allelic imbalances and copy number alterations in human lung carcinoma

(Submitter supplied) Lung cancer is the worldwide leading cause of death from cancer. This GEO series correspond to one of the BAC aCGH data sets used as validation cohort for the study: Landscape of somatic allelic imbalances and copy number alterations in human lung cancer, Int J Cancer 2013.

Organism:: Homo sapiens

Type:: Genome variation profiling by genome tiling array

Platform:: GPL4723
78 Samples

Download data: GPR, XLS

Series

Accession:: GSE29065

ID:: 200029065

Select item 20005421914.

Molecular genomic and transcriptomic profiling of familial breast cancer.

(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:: GPL3718 GPL570 GPL3720
395 Samples

Download data: CEL

Series

Accession:: GSE54219

ID:: 200054219

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20005419315.

Proper genomic profiling of (BRCA1-mutated) basal-like breast carcinomas requires prior removal of tumor infiltrating lymphocytes

(Submitter supplied) To find BRCA1-associated copy number abberations, the copy number profiles of Familial Basal-like BRCA1-mutated breast carcinomas were compared to Familial Basal-like carcinomas with no pathgogenic BRCA1/2 mutation. This led to the observation of unanticipated heterogeneity of the BRCA1 associated copy number profiles. Gene expression analysis on the same samples identified tumor infiltrating lymphocytes to be responsible for this observation. more...

Organism:: Homo sapiens

Type:: Genome variation profiling by SNP array

Platforms:: GPL3720 GPL3718
240 Samples

Download data: CEL

Series

Accession:: GSE54193

ID:: 200054193

PubMed Full text in PMC Similar studies

Select item 20002783016.

Expression data from primary breast tumors

(Submitter supplied) CHEK2 1100delC is a moderate-risk cancer susceptibility allele that confers a high breast cancer risk in a polygenic setting. Gene expression profiling of CHEK2 1100delC breast cancers may reveal clues to the nature of the polygenic CHEK2 model and its genes involved. Here, we report global gene expression profiles of a cohort of 155 familial breast cancers, including 26 CHEK2 1100delC mutant tumors. more...

Organism:: Homo sapiens

Type:: Expression profiling by array

Platform:: GPL570
155 Samples

Download data: CEL

Series

Accession:: GSE27830

ID:: 200027830

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Select item 20002904417.

Expression data from breast tumors in different age-specific cohorts and for different sequentional disease stages

(Submitter supplied) Compared transccriptome of breast cancer in young women to those arising in two mature groups to characterize the underlying biological mechanisms of the breast cancer in Middle Eastern young women. Also, compared the gene expression profile characteristic of the sequential disease stages (ductal carcinoma in situ (DCIS) and invasive ductal carcinoma (IDC)) of breast cancer to elucidate the molecular mechanisms of breast cancer progression in young women.

Organism:: Homo sapiens

Type:: Expression profiling by array

Platforms:: GPL570 GPL5175
138 Samples

Download data: CEL

Series

Accession:: GSE29044

ID:: 200029044

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20000389318.

Gene Expression Profiling of matched Ductal Carcinomas in Situ and Invasive Breast Tumors

(Submitter supplied) This is a matched-pair analysis of ductal carcinoma in situ (DCIS) and invasive component (IDC) of nine breast ductal carcinoma to identify novel molecular markers characterizing the transition from DCIS to IDC for a better understanding of its molecular biology. Keywords: Affymetrix-based Microarrays in Mamma carcinoma

Organism:: Homo sapiens

Type:: Expression profiling by array

Datasets:: GDS2045 GDS2046
Platforms:: GPL570 GPL96
24 Samples

Download data

Series

Accession:: GSE3893

ID:: 200003893

Select item 204619.

Ductal carcinoma in situ to invasive ductal carcinoma progression (HG-U133 2.0)

Analysis of preinvasive ductal carcinoma in situ (DCIS) and invasive ductal carcinoma (IDC) tumors. Pairs of patient-matched DCIS and IDC tumor specimens analyzed. Results provide insight into the mechanisms underlying the progression of DCIS to IDC.