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data/bladder_cancer_GEO.txt  view on Meta::CPAN

147. Characterization and therapeutic targeting of the miR-21/PPP2R2A/ERK molecular circuit in bladder cancer
(Submitter supplied) MicroRNAs play an important role in the pathogenesis of different types of cancer including bladder cancer. MiR-21 has been identified to have an oncogenic function, while its inhibition suppresses tumor growth. Here, we followed...
Organism:	Homo sapiens
Type:		Expression profiling by array
Platform: GPL6480 28 Samples
FTP download: GEO (TXT) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE97nnn/GSE97782/
Series		Accession: GSE97782	ID: 200097782

148. Identification of gene expression biomarkers in urine for the non-invasive detection of bladder cancer
(Submitter supplied) Fifty patient urine samples diagnosed as high-grade urothelial carcinoma (HGUC) or benign were evaluated for bladder cancer via urine cytology.  RNA was isolated and analyzed by microarray to identify a panel of biomarkers differ...
Organism:	Homo sapiens
Type:		Expression profiling by array
Platform: GPL10558 50 Samples
FTP download: GEO (TXT) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE68nnn/GSE68020/
Series		Accession: GSE68020	ID: 200068020

149. Molecular subtype-specific immunocompetent models of high-grade urothelial carcinoma reveal differential neoantigen expression and response to immunotherapy
(Submitter supplied) We developed a UPPL (Upk3a-CreERT2;p53f/f;Ptenf/f;Rosa26LSL-Luc) mouse model of bladder cancer and compared it with the existing BBN (N-butyl-N-(4-hydroxybutyl)nitrosamine) mouse model of blader cancer. We cultured UPPL and BBN p...
Organism:	Mus musculus
Type:		Expression profiling by high throughput sequencing
Platform: GPL19057 36 Samples
FTP download: GEO (TXT) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE112nnn/GSE112973/
SRA Run Selector: https://www.ncbi.nlm.nih.gov/Traces/study/?acc=PRJNA449647
Series		Accession: GSE112973	ID: 200112973

150. Tumor evolution and drug response in patient-derived organoid models of bladder cancer
(Submitter supplied) Bladder cancer is the fifth most prevalent cancer in the U.S., yet is understudied and relatively lacking in suitable models. Here we describe a biobank of patient-derived organoid lines that recapitulates the spectrum of human b...
Organism:	Homo sapiens
Type:		Expression profiling by high throughput sequencing
Platform: GPL16791 42 Samples
FTP download: GEO (TXT) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE103nnn/GSE103990/
SRA Run Selector: https://www.ncbi.nlm.nih.gov/Traces/study/?acc=PRJNA407895
Series		Accession: GSE103990	ID: 200103990

151. FGFR3 knock-down
(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:	Homo sapiens
Type:		Expression profiling by array
Platforms: GPL15236 GPL19109 11 Samples
FTP download: GEO (CEL) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE84nnn/GSE84733/
Series		Accession: GSE84733	ID: 200084733

152. Gene expression data from RT112 following FGFR3 knock-down using FGFR3 siRNAs
(Submitter supplied) To better understand the molecular mechanisms underlying altered-FGFR3 oncogenic activity in bladder carcinomas, we made use of  RT112 cell lines, which were derived from a human bladder tumor and endogenously expressed the FGFR3...
Organism:	Homo sapiens
Type:		Expression profiling by array
Platform: GPL19109 5 Samples
FTP download: GEO (CEL) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE84nnn/GSE84732/
Series		Accession: GSE84732	ID: 200084732

153. Gene expression data from MGH-U3 following FGFR3 knock-down using FGFR3 siRNAs
(Submitter supplied) To better understand the molecular mechanisms underlying altered-FGFR3 oncogenic activity in bladder carcinomas, we made use of  MGH-U3 cell lines, which were derived from a human bladder tumor and endogenously expressed a mutate...
Organism:	Homo sapiens
Type:		Expression profiling by array
Platform: GPL15236 6 Samples
FTP download: GEO (CEL) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE84nnn/GSE84731/
Series		Accession: GSE84731	ID: 200084731

154. Next generation sequencing analysis of potential target genes of lncRNA BLACAT2
(Submitter supplied) Next generation sequencing analysis was performed to identify potential target genes of lncRNA BLACAT2.  Purified total RNA (3 μg) was used to deplete ribosomal RNA with Ribo-Zero rRNA Removal Kits (MRZMB126,Epicentre). Poly(A)+...
Organism:	Homo sapiens
Type:		Expression profiling by high throughput sequencing
Platform: GPL16791 3 Samples
FTP download: GEO (TXT) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE101nnn/GSE101287/
SRA Run Selector: https://www.ncbi.nlm.nih.gov/Traces/study/?acc=PRJNA393943
Series		Accession: GSE101287	ID: 200101287

155. Gene expression signatures for bladder cancer tissues and normal adjacent tissues.
(Submitter supplied) To identify aberrantly expressed long intergenic noncoding RNAs (lincRNAs) in muscle-invasive bladder cancer tissues compared with normal adjacent tissues, we have employed microarray expression profiling as a discovery platform ...
Organism:	Homo sapiens
Type:		Expression profiling by array
Platform: GPL14550 6 Samples
FTP download: GEO (TXT) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE100nnn/GSE100926/
Series		Accession: GSE100926	ID: 200100926

156. Bladder cancer associated mutations in RXRA activate peroxisome proliferator-activated receptors
(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:	Homo sapiens
Type:		Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing
Platforms: GPL16791 GPL21290 34 Samples
FTP download: GEO (TXT) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE107nnn/GSE107783/
Series		Accession: GSE107783	ID: 200107783

157. Bladder-cancer-associated mutations in RXRA activate peroxisome proliferator-activated receptors to drive urothelial proliferation
(Submitter supplied) RXRA regulates transcription as part of a heterodimer with 14 other nuclear receptors, including the peroxisome proliferator-activated receptors (PPARs).   Analysis from the TCGA raised the possibility that hyperactive PPAR signa...
Organism:	Homo sapiens
Type:		Expression profiling by high throughput sequencing
Platforms: GPL16791 GPL21290 18 Samples
FTP download: GEO (TXT) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE107nnn/GSE107735/
SRA Run Selector: https://www.ncbi.nlm.nih.gov/Traces/study/?acc=PRJNA421314
Series		Accession: GSE107735	ID: 200107735

158. Bladder Cancer Associated Mutations in RXRA activate Peroxisome Proliferator-Activated Receptors to Drive Urothelial Proliferation
(Submitter supplied) RXRA regulates transcription as part of a heterodimer with 14 other nuclear receptors, including the peroxisome proliferator-activated receptors (PPARs).   Analysis from the TCGA raised the possibility that hyperactive PPAR signa...
Organism:	Homo sapiens
Type:		Genome binding/occupancy profiling by high throughput sequencing
Platform: GPL21290 16 Samples
FTP download: GEO (BROADPEAK, NARROWPEAK) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE107nnn/GSE107734/
SRA Run Selector: https://www.ncbi.nlm.nih.gov/Traces/study/?acc=PRJNA421310
Series		Accession: GSE107734	ID: 200107734

159. Differentially expressed genes after miRNA or siRNA transfection in human cancer cell lines IV
(Submitter supplied) To identify differentially expressed genes by anti cancer treatments (microRNAs or siRNAs) in human cancer, several cell lines (pancreatic cancer, esophageal cancer and lung squamous cell carcinoma) were subjected to Agilent whol...
Organism:	Homo sapiens
Type:		Expression profiling by array
Platform: GPL20844 8 Samples
FTP download: GEO (TXT) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE107nnn/GSE107008/
Series		Accession: GSE107008	ID: 200107008

160. Differentially expressed genes after miRNA or siRNA transfection in multiple human cancer cell lines
(Submitter supplied) To identify differentially expressed genes by anti cancer treatments (microRNAs or siRNAs) in human cancer, several cell lines ( pancreatic cancer, renal cell carcinoma, oral squamous cell carcinoma, prostate cancer and bladder c...
Organism:	Homo sapiens
Type:		Expression profiling by array
Platform: GPL20844 16 Samples
FTP download: GEO (TXT) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE106nnn/GSE106791/
Series		Accession: GSE106791	ID: 200106791

161. Next Generation Sequencing of total RNA from 9 bladder cancer cell lines and 3 fractionated bladder cancer cell lines
(Submitter supplied) We profile the cell line expression of 279 circRNAs, that are highly expressed across 457 bladder cancer patient samples. Additionally, we investigate their cellular location in fractionated cell lines
Organism:	Homo sapiens

data/bladder_cancer_GEO.txt  view on Meta::CPAN

Series		Accession: GSE83955	ID: 200083955

194. Fixed tissue ChIP-Seq (FiT-Seq) of archived clinical samples reveals chromatin dynamics and tumor-specific enhancer profiles
(Submitter supplied) Analysis of cancer epigenomes has revealed important insights into key lineage determinants and oncogenic drivers. Chromatin immune-precipitation followed by next generation sequencing (ChIP-seq) has allowed the comprehensive map...
Organism:	Homo sapiens
Type:		Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing
Platform: GPL18573 109 Samples
FTP download: GEO (BW, FPKM_TRACKING) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE73nnn/GSE73398/
SRA Run Selector: https://www.ncbi.nlm.nih.gov/Traces/study/?acc=PRJNA296916
Series		Accession: GSE73398	ID: 200073398

195. Differentially expressed genes after miRNA or siRNA transfection in human cancer cell lines II
(Submitter supplied) To identify differentially expressed genes by anti cancer treatments (microRNAs or siRNAs) in human cancer, several cell lines (pancreatic cancer, esophageal cancer, bladder cancer, prostate cancer, renal cell carcinoma and lung ...
Organism:	Homo sapiens
Type:		Expression profiling by array
Platform: GPL20844 32 Samples
FTP download: GEO (TXT, XLSX) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE77nnn/GSE77790/
Series		Accession: GSE77790	ID: 200077790

196. Differentially expressed genes after miRNA or siRNA transfection in human cancer cell lines (II)
(Submitter supplied) To identify differentially expressed genes by anti cancer treatments (microRNAs or siRNAs) in human cancer, several cell lines (bladder cancer, prostate cancer, renal cell carcinoma, oral squamous cell carcinoma and lung squamous...
Organism:	Homo sapiens
Type:		Expression profiling by array
Platform: GPL16699 32 Samples
FTP download: GEO (TXT) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE66nnn/GSE66498/
Series		Accession: GSE66498	ID: 200066498

197. Differentially expressed genes after miRNA or siRNA transfection in human cancer cell lines
(Submitter supplied) To identify differentially expressed genes by anti cancer treatments (microRNAs or siRNAs) in human cancer, several cell lines (bladder cancer, prostate cancer, hypopharyngeal cancer and lung squamous cell carcinoma) were subject...
Organism:	Homo sapiens
Type:		Expression profiling by array
Platform: GPL16699 24 Samples
FTP download: GEO (TXT) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE56nnn/GSE56243/
Series		Accession: GSE56243	ID: 200056243

198. Hyperexpression of transcribed noncoding RNA containing ultraconserved genomic regions 8 promotes bladder tumorigenesis
(Submitter supplied) Ultraconserved regions (UCRs) are segments of the human genome located in both intragenic and intergenic regions that are highly conserved in orthologous regions of the human, rat, and mouse genomes. Their transcriptional product...
Organism:	Homo sapiens; Mus musculus
Type:		Non-coding RNA profiling by array
Platform: GPL20120 53 Samples
FTP download: GEO (GPR) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE68nnn/GSE68594/
Series		Accession: GSE68594	ID: 200068594

199. Toll-like Receptor 6 and Connective Tissue Growth Factor are significantly upregulated in mitomycin-C treated urothelial carcinoma cells under hydrostatic pressure stimulation
(Submitter supplied) Urothelial carcinoma (UC) is the most common histologic subtype of bladder cancer. The administration of mitomycin C (MMC) into bladder after transurethral resection of the bladder tumor (TURBT) is a common treatment strategy for...
Organism:	Homo sapiens
Type:		Expression profiling by array
Platform: GPL13607 4 Samples
FTP download: GEO (TXT) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE45nnn/GSE45385/
Series		Accession: GSE45385	ID: 200045385

200. Expression data from rat orthotopic bladder cancer
(Submitter supplied) In the development and progression of bladder cancer, there are many genetic changes. We established a SD rat orthotopic bladder cancer model through intravesical instillation of N-methyl-nitrosourea and pathologic diagnosis is b...
Organism:	Rattus norvegicus
Type:		Expression profiling by array
Platform: GPL1355 9 Samples
FTP download: GEO (CEL) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE76nnn/GSE76702/
Series		Accession: GSE76702	ID: 200076702

201. Cell-free DNA comprises an in vivo, genome-wide nucleosome footprint that informs its tissue(s)-of-origin
(Submitter supplied) Nucleosomes are the basic unit of packaging of eukaryotic chromatin, and nucleosome positioning can differ substantially between cell types. Here, we sequence 14.5 billion plasma-borne cell-free DNA (cfDNA) fragments (700-fold co...
Organism:	Homo sapiens
Type:		Genome binding/occupancy profiling by high throughput sequencing
Platform: GPL11154 60 Samples
FTP download: GEO (BB) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE71nnn/GSE71378/
SRA Run Selector: https://www.ncbi.nlm.nih.gov/Traces/study/?acc=PRJNA291063
Series		Accession: GSE71378	ID: 200071378

202. Expression data from UMUC3 cells transduced with non-targeted shRNA and shRNA specific to AGL
(Submitter supplied) Loss of Amylo-alpha-1-6-glucosidase-4-alpha-glucanotransferase (AGL) drives bladder cancer growth. Low AGL expression predicts poor patient outcome. Currently no specific therapeutically tractable targets/pathways exist that coul...
Organism:	Homo sapiens
Type:		Expression profiling by array
Platform: GPL13667 4 Samples
FTP download: GEO (CEL) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE73nnn/GSE73456/
Series		Accession: GSE73456	ID: 200073456

203. Comparative gene expression analyses identify luminal and basal subtypes of canine invasive urothelial carcinoma that mimic patterns in human invasive bladder cancer
(Submitter supplied) Microarrays were used to assay the gene expression profile of canine normal bladder from non-tumor bearing dogs and compared to that of bladder tumor in dogs.
Organism:	Canis lupus familiaris
Type:		Expression profiling by array
Platform: GPL3738 22 Samples
FTP download: GEO (CEL) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE66nnn/GSE66064/
Series		Accession: GSE66064	ID: 200066064

204. MVAC treated tumors
(Submitter supplied) validation of the survival outcomes from MVAC-Avastin treated tumors
Organism:	Homo sapiens
Type:		Expression profiling by array
Platform: GPL14951 49 Samples
FTP download: GEO (TXT) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE70nnn/GSE70691/
Series		Accession: GSE70691	ID: 200070691

205. a phase 2 trial of DDMVAC and bevacizumab in urothelial cancer
(Submitter supplied) A prognostic gene expression signature in chemotherapy-naïve bladder cancer is predictive of clinical outcomes from neoadjuvant chemotherapy
Organism:	Homo sapiens
Type:		Expression profiling by array
Platform: GPL14951 61 Samples
FTP download: GEO (TXT) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE69nnn/GSE69795/
Series		Accession: GSE69795	ID: 200069795

206. Integration analysis of three omics data using penalized regression methods: An application to bladder cancer
(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:	Homo sapiens
Type:		Expression profiling by array; Methylation profiling by array
Platforms: GPL8490 GPL6244 90 Samples
FTP download: GEO (CEL, IDAT) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE71nnn/GSE71669/
Series		Accession: GSE71669	ID: 200071669

207. Integration analysis of three omics data using penalized regression methods: An application to bladder cancer (Methylation)
(Submitter supplied) Omics data integration is becoming necessary to investigate the still unknown genomic mechanisms of complex diseases. During the integration process, many challenges arise such as data heterogeneity, the smaller number of individ...
Organism:	Homo sapiens
Type:		Methylation profiling by array
Platform: GPL8490 46 Samples
FTP download: GEO (IDAT, TXT) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE71nnn/GSE71666/
Series		Accession: GSE71666	ID: 200071666

208. Integration analysis of three omics data using penalized regression methods: An application to bladder cancer (expression)
(Submitter supplied) Omics data integration is becoming necessary to investigate the still unknown genomic mechanisms of complex diseases. During the integration process, many challenges arise such as data heterogeneity, the smaller number of individ...
Organism:	Homo sapiens
Type:		Expression profiling by array
Platform: GPL6244 44 Samples