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Links from GEO DataSets

Items: 15

1.

Identification of nine genomic regions of amplification in bladder cancer, correlation with stage, and potential prognositic and therapeutic value

(Submitter supplied) We sought to test the hypothesis that ascertainment of genome-wide copy number alterations in bladder cancer may have value for clinical management. We performed a genome wide analysis of 164 bladder cancer samples and 27 bladder cancer cell lines to identify genetic changes associated with disease characteristics. Multiplex inversion probe (MIP) analysis, a newly developed genomic technique, was used to study 80 bladder cancers to identify mutations and copy number changes. more...
Organism:
Homo sapiens
Type:
Genome variation profiling by SNP array
Platform:
GPL13270
80 Samples
Download data:
GEO (CEL)
Series
Accession:
GSE44323
ID:
200044323
2.

DNA copy number gain at 1q23.3 is associated with poor survival in metastatic bladder cancer

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Homo sapiens
Type:
Genome variation profiling by SNP array; Genome variation profiling by genome tiling array
Platforms:
GPL10150 GPL15793
128 Samples
Download data:
GEO (CEL, TXT)
Series
Accession:
GSE39282
ID:
200039282
3.

DNA copy number gain at 1q23.3 is associated with poor survival in metastatic bladder cancer [Agilent]

(Submitter supplied) Metastatic urothelial carcinoma (UC) of the bladder is associated with multiple somatic copy number alterations (SCNAs). We evaluated SCNAs to identify predictors of poor survival in patients with metastatic UC treated with platinum chemotherapy.
Organism:
Homo sapiens
Type:
Genome variation profiling by genome tiling array
Platform:
GPL10150
94 Samples
Download data:
GEO (BED, PDF, TXT)
Series
Accession:
GSE39281
ID:
200039281
4.

DNA copy number gain at 1q23.3 is associated with poor survival in metastatic bladder cancer [Affymetrix]

(Submitter supplied) Metastatic urothelial carcinoma (UC) of the bladder is associated with multiple somatic copy number alterations (SCNAs). We evaluated SCNAs to identify predictors of poor survival in patients with metastatic UC treated with platinum chemotherapy.
Organism:
Homo sapiens
Type:
Genome variation profiling by SNP array
Platform:
GPL15793
34 Samples
Download data:
GEO (BED, CEL, PDF, TXT)
Series
Accession:
GSE39280
ID:
200039280
5.

Combination of a novel gene expression signature with a clinical nomogram improves the prediction of survival in high-risk bladder cancer  

(Submitter supplied) Urothelial carcinoma of the bladder is characterized by significant variability in clinical outcomes depending on stage and grade. The addition of molecular information may improve our understanding of such heterogeneity and enhance prognostic prediction. The purpose of this study was to validate and improve published prognostic signatures for high-risk bladder cancer.
Organism:
Homo sapiens
Type:
Expression profiling by array
Dataset:
GDS4456
Platform:
GPL570
93 Samples
Download data:
GEO (CEL, TXT)
Series
Accession:
GSE31684
ID:
200031684
6.
Full record GDS4456

High-risk bladder cancer

Analysis of bladder cancer specimens from a high-risk population of patients who underwent radical cystectomy (Memorial Sloan-Kettering Cancer Center cohort). Results provide insight into the prediction of survival in high-risk urothelial carcinoma of the urinary bladder.
Organism:
Homo sapiens
Type:
Expression profiling by array, transformed count, 2 disease state, 5 specimen sets
Platform:
GPL570
Series:
GSE31684
93 Samples
Download data:
GEO (CEL)
7.

Integrated genomic and gene expression profiling identifies two major gene/genomic circuits operating in urothelial carcinoma

(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
277 Samples
Download data:
GEO (GPR)
Series
Accession:
GSE32549
ID:
200032549
8.

Integrated genomic and gene expression profiling identifies two major gene/genomic circuits operating in urothelial carcinoma (gene expression)

(Submitter supplied) Genomic and gene expression profiling identifies two major gene/genomic circuits operating in urothelial carcinoma
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL6947
131 Samples
Download data:
GEO (TXT)
Series
Accession:
GSE32548
ID:
200032548
9.

Integrated genomic and gene expression profiling identifies two major gene/genomic circuits operating in urothelial carcinoma (genomic)

(Submitter supplied) Genomic and gene expression profiling identifies two major gene/genomic circuits operating in urothelial carcinoma
Organism:
Homo sapiens
Type:
Genome variation profiling by genome tiling array
Platform:
GPL4723
146 Samples
Download data:
GEO (GPR)
Series
Accession:
GSE32535
ID:
200032535
10.

The UBC-40 Urothelial Bladder Cancer Cell Line Index

(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; SNP genotyping by SNP array
Platforms:
GPL96 GPL6984
70 Samples
Download data:
GEO (CEL, IDAT)
Series
Accession:
GSE64573
ID:
200064573
11.

The UBC-40 Urothelial Bladder Cancer Cell Line Index [copy number variation]

(Submitter supplied) This is a comprehensive genomic characterization of 40 urothelial bladder carcinoma (UBC) cell lines including information on origin, mutation status of genes implicated in bladder cancer (FGFR3, PIK3CA, TP53, and RAS), copy number alterations assessed using high density SNP arrays, uniparental disomy (UPD) events, and gene expression. Based on gene mutation patterns and genomic changes we identify lines representative of the FGFR3-driven tumor pathway and of the TP53/RB tumor suppressor-driven pathway. more...
Organism:
Homo sapiens
Type:
Genome variation profiling by SNP array; SNP genotyping by SNP array
Platform:
GPL6984
50 Samples
Download data:
GEO (IDAT, TXT)
Series
Accession:
GSE64572
ID:
200064572
12.

The UBC-40 Urothelial Bladder Cancer Cell Line Index [gene expression]

(Submitter supplied) This is a comprehensive genomic characterization of 40 urothelial bladder carcinoma (UBC) cell lines including information on origin, mutation status of genes implicated in bladder cancer (FGFR3, PIK3CA, TP53, and RAS), copy number alterations assessed using high density SNP arrays, uniparental disomy (UPD) events, and gene expression. Based on gene mutation patterns and genomic changes we identify lines representative of the FGFR3-driven tumor pathway and of the TP53/RB tumor suppressor-driven pathway. more...
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL96
20 Samples
Download data:
GEO (CEL)
Series
Accession:
GSE64279
ID:
200064279
13.

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:
GPL8882 GPL13314
26 Samples
Download data:
GEO (TXT)
Series
Accession:
GSE31645
ID:
200031645
14.

Subtype classification, grading, and outcome prediction of urothelial carcinomas by combined mRNA profiling and aCGH

(Submitter supplied) [original title] Combined gene expression and genomic profiling define two intrinsic molecular subtypes of urothelial carcinoma and gene signatures for molecular grading and outcome. In the present investigation we sought to refine the classification of urothelial carcinoma by combining information on gene expression, genomic, and gene mutation levels. For these purposes we performed gene expression analysis of 144 carcinomas, and whole genome array-CGH analysis and mutation analyses of FGFR3, PIK3CA, KRAS, HRAS, NRAS, TP53, CDKN2A, and TSC1, in 103 of these cases. more...
Organism:
Homo sapiens
Type:
Expression profiling by array; Genome variation profiling by genome tiling array
Platforms:
GPL4723 GPL3883 GPL5186
285 Samples
Download data:
GEO (GPR, TXT)
Series
Accession:
GSE19915
ID:
200019915
15.

Assessment of palindromes as platforms for DNA amplification in breast cancer

(Submitter supplied) DNA amplification, particularly of chromosomes 8 and 11, occurs frequently in breast cancer and is a key factor in tumorigenesis, often associated with poor prognosis. The mechanisms involved in the amplification of these regions are not fully understood. Studies from model systems have demonstrated that palindrome formation can be an early step in DNA amplification, most notably seen in the breakage-fusion-bridge (BFB) cycle. more...
Organism:
Homo sapiens
Type:
Genome variation profiling by genome tiling array; Genome variation profiling by SNP array
8 related Platforms
31 Samples
Download data:
GEO (BAR, CEL, CNCHP)
Series
Accession:
GSE29876
ID:
200029876
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