bind results from the CPAN

App-GeoCancerPrognosticDatasetsRetriever

view release on metacpan or search on metacpan

data/bladder_cancer_GEO.txt view on Meta::CPAN

(Submitter supplied) INTRODUCTION: Progressive muscle-invasive bladder cancer (MIBC) has more aggressive behavior than de novo MIBC. This study aimed to ascertain the differences in gene expression profiles between both MIBC groups and to identify pr...
Organism:	Homo sapiens
Type:		Expression profiling by array
Platform: GPL14951 26 Samples
FTP download: GEO (TXT, XLSX) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE149nnn/GSE149582/
Series		Accession: GSE149582	ID: 200149582

8. The Androgen Receptor Directly Regulates CD44 Expression in Androgen Sensitive Bladder Cancer
(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:	Homo sapiens
Type:		Expression profiling by array; Genome binding/occupancy profiling by high throughput sequencing
Platforms: GPL15207 GPL16791 18 Samples
FTP download: GEO (CEL) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE147nnn/GSE147940/
Series		Accession: GSE147940	ID: 200147940

9. The Androgen Receptor Directly Regulates CD44 Expression in Androgen Sensitive Bladder Cancer [ChIP-seq]
(Submitter supplied) To study androgen receptor transcriptomic activation in the presence of androgen in bladder cancer cell lines.  A uniquely derived AR expressing clone of the bladder cancer cell line UMUC3 was derived and validated prior to ChIP-...
Organism:	Homo sapiens
Type:		Genome binding/occupancy profiling by high throughput sequencing
Platform: GPL16791 12 Samples
FTP download: GEO (BED, XLSX) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE147nnn/GSE147939/
SRA Run Selector: https://www.ncbi.nlm.nih.gov/Traces/study/?acc=PRJNA622581
Series		Accession: GSE147939	ID: 200147939

10. The Androgen Receptor Directly Regulates CD44 Expression in Androgen Sensitive Bladder Cancer [gene expression]
(Submitter supplied) To study androgen receptor transcriptomic activation in the presence of androgen in bladder cancer cell lines.  A uniquely derived AR expressing clone of the bladder cancer cell line UMUC3 was derived and validated prior to micro...
Organism:	Homo sapiens
Type:		Expression profiling by array
Platform: GPL15207 6 Samples
FTP download: GEO (CEL) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE147nnn/GSE147938/
Series		Accession: GSE147938	ID: 200147938

11. Genome-wide map of cohesin positions in RT112 bladder cancer cells
(Submitter supplied) Bladder cancer is one of the most common genitourinary malignancies worldwide. It is a heterogeneous disease at the clinical, pathological, and genetic levels.   In an exome-sequencing study of bladder cancer, we identified genes...
Organism:	Homo sapiens
Type:		Genome binding/occupancy profiling by high throughput sequencing
Platform: GPL18573 7 Samples
FTP download: GEO (BW, TXT) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE111nnn/GSE111913/
SRA Run Selector: https://www.ncbi.nlm.nih.gov/Traces/study/?acc=PRJNA438528
Series		Accession: GSE111913	ID: 200111913

12. Expression profiling by RNA-seq for identifying genes associated with prognosis in non-muscle-invasive bladder cancer.
(Submitter supplied) Non-muscle-invasive bladder cancer (NMIBC) is clinically heterogeneous, and many NMIBC patients fail to respond to treatment and frequently experience disease relapse. We aim to identify a prognostic and predictive signature of t...
Organism:	Homo sapiens
Type:		Expression profiling by high throughput sequencing
Platform: GPL16791 32 Samples

data/bladder_cancer_GEO.txt view on Meta::CPAN

(Submitter supplied) Growing evidence has indicated that miR-193 is involved in the initiation and progression of malignancy, such as bladder cancer, hepatocellular carcinoma, renal cell carcinoma, and colorectal cancer. Nevertheless, the mechanisms ...
Organism:	Homo sapiens
Type:		Expression profiling by RT-PCR
Platform: GPL29594 6 Samples
FTP download: GEO (TXT) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE164nnn/GSE164682/
Series		Accession: GSE164682	ID: 200164682

20. Subtype-associated epigenomic landscape and 3D genome structure in bladder cancer
(Submitter supplied) Muscle-invasive bladder cancers are characterized by their distinct expression of luminal and basal genes, which could be used to predict key clinical features such as disease progression and overall survival. Transcriptionally, ...
Organism:	Homo sapiens
Type:		Expression profiling by high throughput sequencing; Other; Genome binding/occupancy profiling by high throughput sequencing
Platform: GPL9052 51 Samples
FTP download: GEO (MCOOL, NARROWPEAK, TXT) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE148nnn/GSE148079/
SRA Run Selector: https://www.ncbi.nlm.nih.gov/Traces/study/?acc=PRJNA623018
Series		Accession: GSE148079	ID: 200148079

21. Gene expression profile of bladder cancer cell lines treated with Mitomycin C
(Submitter supplied) Mitomycin C (MMC) is the gold standard treatment for non-muscle invasive bladder cancer (NMIBC). We aimed to evaluate in bladder cancer cell lines (T24, 5637, TCC-SUP and CLS-439) the transcriptomic response to MMC treatment. We ...
Organism:	Homo sapiens
Type:		Expression profiling by high throughput sequencing
Platform: GPL18573 24 Samples

data/bladder_cancer_GEO.txt view on Meta::CPAN


24. In vivo transcriptome profiling of control and GANAB-KD UMUC3 bladder carcinoma cells [scRNA-Seq]
(Submitter supplied) Carcinoma cells achieve malignant progression and therapy resistance through de-differentiation. While differentiation therapy has proven to be highly efficient in acute promyelocytic leukemia, this therapeutic strategy has not b...
Organism:	Homo sapiens
Type:		Expression profiling by high throughput sequencing
Platform: GPL24676 2 Samples
FTP download: GEO (MTX, TSV) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE164nnn/GSE164041/
SRA Run Selector: https://www.ncbi.nlm.nih.gov/Traces/study/?acc=PRJNA688700
Series		Accession: GSE164041	ID: 200164041

25. FOXA1 suppresses cancer immunity independent of DNA binding
(Submitter supplied) Exclusion of lymphocytes from tumors is a major barrier for effective immuno- and chemo-therapy of cancer. We found that FOXA1 overexpression inversely correlates with expression of antigen processing and presentation and interfe...
Organism:	Homo sapiens
Type:		Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing
Platform: GPL20301 51 Samples
FTP download: GEO (BW, XLS) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE142nnn/GSE142221/
SRA Run Selector: https://www.ncbi.nlm.nih.gov/Traces/study/?acc=PRJNA596242
Series		Accession: GSE142221	ID: 200142221

26. Gene expression data from UMUC-14 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  UMUC-14 cell lines, which endogenously expressed a mutated activated form of FGFR3 (FGFR3-S249C), th...
Organism:	Homo sapiens
Type:		Expression profiling by array
Platform: GPL22321 6 Samples

data/bladder_cancer_GEO.txt view on Meta::CPAN

35. exosomal ELNAT1 promotes lymphatic metastasis of bladder cancer
(Submitter supplied) The crosstalk between tumor cells and LECs triggers the LN metastasis in bladder cancer (BCa), but the underlying mechanisms are not completely understood. Previously, we identified that BCa-secreted extracellular vesicles (EVs)-...
Organism:	Homo sapiens
Type:		Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing
Platform: GPL16791 10 Samples
FTP download: GEO (TXT) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE156nnn/GSE156308/
SRA Run Selector: https://www.ncbi.nlm.nih.gov/Traces/study/?acc=PRJNA657414
Series		Accession: GSE156308	ID: 200156308

36. RNA-Seq of circCDYL knockdown (KD) samples in HepG2, J82, and UMUC3 cells and of GRWD1, IGF2BP1, and IGF2BP2 knockdown (KD) samples in J82 and UMUC3 cells
(Submitter supplied) We profile gene expression upon circCDYL KD in HepG2 cells and in two bladder cancer cell lines J82 and UMUC3 as well as upon knockdown of the RNA binding proteins (RBP) GRWD1, IGF2BP1, and IGF2BP2 in J82 and UMUC3
Organism:	Homo sapiens
Type:		Expression profiling by high throughput sequencing
Platform: GPL18573 36 Samples
FTP download: GEO (TXT) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE146nnn/GSE146726/
SRA Run Selector: https://www.ncbi.nlm.nih.gov/Traces/study/?acc=PRJNA611768
Series		Accession: GSE146726	ID: 200146726

37. Development and validation of a NanoString BASE47 bladder cancer gene classifier
(Submitter supplied) Purpose: We sought to develop and evaluate a diagnostic classifier of UC subtype with the goal of accurate classification from clinically available specimens. Methods: Tumor samples from 52 patients with high-grade UC were profil...
Organism:	Homo sapiens
Type:		Expression profiling by high throughput sequencing
Platform: GPL18573 52 Samples
FTP download: GEO (TXT) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE160nnn/GSE160693/
SRA Run Selector: https://www.ncbi.nlm.nih.gov/Traces/study/?acc=PRJNA674023
Series		Accession: GSE160693	ID: 200160693

38. Landscape of genomic alterations in Indian Urinary Bladder cancer patients
(Submitter supplied) Urinary bladder is an open system and is under constant carcinogenic insults leading to chromosomal aberrations. Chronic retention of urine in the bladder is   considered one of the reasons for initiation of bladder cancer. Here,...
Organism:	Homo sapiens
Type:		Genome binding/occupancy profiling by genome tiling array; Genome binding/occupancy profiling by SNP array
Platform: GPL11363 12 Samples
FTP download: GEO (TXT) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE122nnn/GSE122514/
Series		Accession: GSE122514	ID: 200122514

39. Tet-ZFP36L1 in 6 hours and 24 hours
(Submitter supplied) ZFP36L1 is a tandem zinc-finger RNA-binding protein that recognizes conserved Adenylate-Uridylate-rich Elements (AREs) located in 3' untranslated regions (UTRs) to mediate RNA decay. We hypothesized that ZFP36L1 is a negative reg...
Organism:	Homo sapiens
Type:		Expression profiling by high throughput sequencing
Platform: GPL23227 6 Samples
FTP download: GEO (TSV) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE136nnn/GSE136181/
SRA Run Selector: https://www.ncbi.nlm.nih.gov/Traces/study/?acc=PRJNA561514
Series		Accession: GSE136181	ID: 200136181

40. Silencing of ZFP36L1 using siRNA
(Submitter supplied) ZFP36L1 is a tandem zinc-finger RNA-binding protein that recognizes conserved Adenylate-Uridylate-rich Elements (AREs) located in 3' untranslated regions (UTRs) to mediate RNA decay. We hypothesized that ZFP36L1 is a negative reg...
Organism:	Homo sapiens
Type:		Expression profiling by high throughput sequencing
Platform: GPL23227 2 Samples
FTP download: GEO (TXT) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE136nnn/GSE136180/
SRA Run Selector: https://www.ncbi.nlm.nih.gov/Traces/study/?acc=PRJNA561515
Series		Accession: GSE136180	ID: 200136180

41. RNA pull down assay of GST-ZFP36L1 (wildtype and mutant)
(Submitter supplied) ZFP36L1 is a tandem zinc-finger RNA-binding protein that recognizes conserved Adenylate-Uridylate-rich Elements (AREs) located in 3' untranslated regions (UTRs) to mediate RNA decay. We hypothesized that ZFP36L1 is a negative reg...
Organism:	Homo sapiens
Type:		Expression profiling by high throughput sequencing
Platform: GPL23227 3 Samples
FTP download: GEO (TSV) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE136nnn/GSE136179/
SRA Run Selector: https://www.ncbi.nlm.nih.gov/Traces/study/?acc=PRJNA561512
Series		Accession: GSE136179	ID: 200136179

42. Urothelial-to-Neural Lineage Plasticity Drives Progression to Small Cell Bladder Cancer
(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:	Homo sapiens

data/bladder_cancer_GEO.txt view on Meta::CPAN

(Submitter supplied) We report a comprehensive molecular analysis of 22 cases of SCC
Organism:	Homo sapiens
Type:		Non-coding RNA profiling by array
Platform: GPL17915 22 Samples
FTP download: GEO (TXT) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE145nnn/GSE145259/
Series		Accession: GSE145259	ID: 200145259

45. Loss of UTX/KDM6A and the activation of FGFR3 converge to regulate differentiation gene expression programs in bladder cancer
(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
Platform: GPL18573 54 Samples
FTP download: GEO (BROADPEAK, BW, NARROWPEAK) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE157nnn/GSE157091/
Series		Accession: GSE157091	ID: 200157091

46. Loss of UTX/KDM6A and the activation of FGFR3 converge to regulate differentiation gene expression programs in bladder cancer [ChIP-seq]
(Submitter supplied) Bladder cancer prognosis is closely linked to the underlying differentiation state of the tumor, ranging from the less aggressive and most differentiated luminal tumors to the more aggressive and least differentiated basal tumors...
Organism:	Homo sapiens
Type:		Genome binding/occupancy profiling by high throughput sequencing
Platform: GPL18573 24 Samples
FTP download: GEO (BROADPEAK, BW, NARROWPEAK) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE157nnn/GSE157090/
SRA Run Selector: https://www.ncbi.nlm.nih.gov/Traces/study/?acc=PRJNA660044
Series		Accession: GSE157090	ID: 200157090

47. Loss of UTX/KDM6A and the activation of FGFR3 converge to regulate differentiation gene expression programs in bladder cancer [RNA-seq]
(Submitter supplied) Bladder cancer prognosis is closely linked to the underlying differentiation state of the tumor, ranging from the less aggressive and most differentiated luminal tumors to the more aggressive and least differentiated basal tumors...
Organism:	Homo sapiens
Type:		Expression profiling by high throughput sequencing
Platform: GPL18573 30 Samples

data/bladder_cancer_GEO.txt view on Meta::CPAN

Organism:	Mus musculus
Type:		Expression profiling by high throughput sequencing
Platform: GPL19057 10 Samples
FTP download: GEO (CSV, TXT) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE144nnn/GSE144295/
SRA Run Selector: https://www.ncbi.nlm.nih.gov/Traces/study/?acc=PRJNA603325
Series		Accession: GSE144295	ID: 200144295

57. FiTAc-seq: Fixed-Tissue ChIP-seq for H3K27Ac profiling and super-enhancer analysis on FFPE tissues
(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:	Homo sapiens; Mus musculus
Type:		Genome binding/occupancy profiling by high throughput sequencing
4 related Platforms 26 Samples
FTP download: GEO (BED, BW) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE140nnn/GSE140808/
Series		Accession: GSE140808	ID: 200140808

58. FiTAc-seq: Fixed-Tissue ChIP-seq for H3K27Ac profiling and super-enhancer analysis on FFPE tissues [human]
(Submitter supplied) Fixed-Tissue ChIP-seq for H3K27Ac profiling (FiTAc-seq) is an epigenetic method for profiling active enhancers and promoters in FFPE tissues. We previously developed a modified ChIP-seq protocol (FiT-seq) for chromatin profiling ...
Organism:	Homo sapiens
Type:		Genome binding/occupancy profiling by high throughput sequencing
Platforms: GPL24676 GPL18573 13 Samples
FTP download: GEO (BED, BW) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE140nnn/GSE140806/
SRA Run Selector: https://www.ncbi.nlm.nih.gov/Traces/study/?acc=PRJNA590996
Series		Accession: GSE140806	ID: 200140806

59. TET1 is a tumour suppressor that inhibits bladder cancer progression
(Submitter supplied) Ten-Eleven Translocation 1 (TET1) is a member of methylcytosine dioxygenase, which catalyse 5-methylcytosine (5-mC) to 5-hydroxymethylcytosine (5-hmC) that promote the demethylation process. The diminished expression of TET1 prot...
Organism:	Homo sapiens
Type:		Expression profiling by high throughput sequencing
Platform: GPL20795 4 Samples

data/bladder_cancer_GEO.txt view on Meta::CPAN

(Submitter supplied) Previous studies successfully revealed molecular characteristics of bladder cancers, dealing with non-muscle invasive bladder cancer and muscle invasive bladder cancer, separately. At the molecular level, however, there is a grea...
Organism:	Homo sapiens
Type:		Expression profiling by array
Platform: GPL10558 145 Samples
FTP download: GEO (TXT) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE120nnn/GSE120736/
Series		Accession: GSE120736	ID: 200120736

134. genome-wide mapping of FoxA target sites in human bladder cancer cells (RT4)
(Submitter supplied) In order to identify direct target genes of FoxA1 in RT4 cells, we carried out genome-wide mapping of FoxA1.
Organism:	Homo sapiens
Type:		Genome binding/occupancy profiling by high throughput sequencing
Platform: GPL16791 4 Samples
FTP download: GEO (BED, TDF) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE86nnn/GSE86918/
SRA Run Selector: https://www.ncbi.nlm.nih.gov/Traces/study/?acc=PRJNA342995
Series		Accession: GSE86918	ID: 200086918

135. Discordant molecular subtype classification of muscle-invasive bladder cancer and matched lymph-node metastases occurs preferentially in the Basal/Squamous-like subtype.
(Submitter supplied) By combining molecular pathology, mRNA profiling, and exome-sequencing we describe muscle-invasive bladder tumors and matched lymph-node metastases.
Organism:	Homo sapiens
Type:		Expression profiling by array
Platform: GPL6244 28 Samples

data/bladder_cancer_GEO.txt view on Meta::CPAN


142. miR-200b is associated with cisplatin sensitivity in bladder cancer cells
(Submitter supplied) We aimed to clarify the role of miR-200b in cisplatin (CDDP) sensitivity in bladder cancer (BCa). CDDP resistant T24 cells (T24RC) were transfected with a miR mimic negative control (NC) or a miR-200b mimic, after which cells wer...
Organism:	Homo sapiens
Type:		Expression profiling by array
Platform: GPL16699 8 Samples
FTP download: GEO (TXT) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE103nnn/GSE103250/
Series		Accession: GSE103250	ID: 200103250

143. Expression data from human T24 cells transfected with siNC or siNF90
(Submitter supplied) NF90 is a double-stranded RNA binding protein that takes part in microRNA biogenesis, as a competitor for the association of the microprocessor complex with pri-miRNAs, leading to a decrease in miRNA production. We want to know w...
Organism:	synthetic construct; Homo sapiens
Type:		Non-coding RNA profiling by array
Platform: GPL19117 4 Samples
FTP download: GEO (CEL) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE82nnn/GSE82024/
Series		Accession: GSE82024	ID: 200082024

144. Trancriptional profiling of rat bladder after daily administration of Pioglitazone and Rosiglitazone in vivo (miRNA)
(Submitter supplied) The purpose of the study was to investigate the nongenotoxic carcinogenic effect of Pioglitazone. Pioglitazone is a PPARgamma agonist and is known to cause bladder tumours in male rats and an increase in the incidence of bladder ...
Organism:	Rattus norvegicus
Type:		Non-coding RNA profiling by array

data/bladder_cancer_GEO.txt view on Meta::CPAN

(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

data/bladder_cancer_GEO.txt view on Meta::CPAN


168. Altered expression of genes in HOXD-AS1 knockdown prostate cancer cells
(Submitter supplied) Castration-resistant prostate cancer (CRPC) that arise after the failure of androgen deprivation therapy is a leading cause of deaths in prostate cancer patients. HOXD-AS1 is reported to play a role in bladder cancer and neurobla...
Organism:	Homo sapiens
Type:		Expression profiling by array
Platform: GPL15207 3 Samples
FTP download: GEO (CEL) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE93nnn/GSE93928/
Series		Accession: GSE93928	ID: 200093928

169. Altered expression of genes in lncRNA-LBCS, hnRNPK and PTBP1 knockdown
(Submitter supplied) We identify a lncRNA which low expresses and regulates self-renewal of bladder cancer stem cell. So we named it lncRNA-LBCS (low expresses in bladder cancer stem cell). Further study finds that lncRNA-LBCS bind to hnRNPK and PTBP...
Organism:	Homo sapiens
Type:		Expression profiling by high throughput sequencing
Platform: GPL16791 4 Samples
FTP download: GEO (TXT) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE79nnn/GSE79832/
SRA Run Selector: https://www.ncbi.nlm.nih.gov/Traces/study/?acc=PRJNA314922
Series		Accession: GSE79832	ID: 200079832

170. High-throughput RNA sequencing on circular RNA profiles of human bladder cancer tissues and normal bladder tissues
(Submitter supplied) In order to find out circular RNAs profiles in human bladder cancer tissues and normal bladder tissues, we characterized circuclar RNA transcripts by performing RNA-Seq on ribosomal RNA-depleted total RNA from three pairs of huma...
Organism:	Homo sapiens

data/bladder_cancer_GEO.txt view on Meta::CPAN


184. Gene expression analysis on arsenic-induced malignant transformation
(Submitter supplied) Arsenic is environmental risk factor and has been linked to urothelial carcinoma incidence.  Arsenic exposure-induced malignant transformed cells was established from normal urothelial cells by chronic arsenic exposure for 10 mon...
Organism:	Homo sapiens
Type:		Expression profiling by array
Platform: GPL10558 5 Samples
FTP download: GEO (IDAT, TXT) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE90nnn/GSE90023/
Series		Accession: GSE90023	ID: 200090023

185. A polymorphic intronic enhancer at 19q12 drives CCNE1 expression in bladder cancer cells
(Submitter supplied) We performed chromatin immunoprecipitation against a marker of active regulatory elements in bladder cancer cell lines to highlight regulatory regions specific to the bladder cancer genome. We then compared our dataset to other p...
Organism:	Homo sapiens
Type:		Genome binding/occupancy profiling by high throughput sequencing
Platform: GPL11154 6 Samples
FTP download: GEO (BED, TXT) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE75nnn/GSE75286/
SRA Run Selector: https://www.ncbi.nlm.nih.gov/Traces/study/?acc=PRJNA303099
Series		Accession: GSE75286	ID: 200075286

186. Context-dependent role of ARF for response to chemotherapy in muscle invasive bladder cancer
(Submitter supplied) Gene expression profiling analysis (RNAseq) of mouse bladder epithelium from wildtype mice (Arf+/+; p53+/+; Pten+/+) or bladder tumors from Arf-wild-type (Arf+/+; p53f/f; Ptenf/f) or Arfnull (Arff/f; p53f/f; Ptenf/f) mice that ha...
Organism:	Mus musculus
Type:		Expression profiling by high throughput sequencing
Platform: GPL13112 24 Samples

data/bladder_cancer_GEO.txt view on Meta::CPAN

(Submitter supplied) Using the highly sensitive lncRNA array, we screened the lncRNAs abundant in the human bladder cancer and Adjacent normal bladder tissues, and the function of differentially expressed lncRNAs were analyzed by bioinformatics.
Organism:	Homo sapiens
Type:		Non-coding RNA profiling by array
Platform: GPL15314 2 Samples
FTP download: GEO (TXT) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE83nnn/GSE83955/
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

data/bladder_cancer_GEO.txt view on Meta::CPAN

(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

data/bladder_cancer_GEO.txt view on Meta::CPAN

Analysis of extracellular vesicles (EVs) from the urine of bladder cancer (BC) patients. Results provide insight into the potential use of mRNAs associated with urinary EVs as non-invasive diagnostic biomarkers of BC.
Organism:	Homo sapiens
Type:		Expression profiling by array, transformed count, 2 disease state sets
Platform: GPL10558 Series: GSE51843 11 Samples
FTP download: GEO ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDS5nnn/GDS5649/
DataSet		Accession: GDS5649	ID: 5649

245. H3K27me3 in human bladder transitional cell carcinoma cell line CL1207
(Submitter supplied) The H3K27me3 ChIP-seq data for the human bladder transitional cell carcinoma cell line CL1207 were generated in order to detect regions of regional epigenetic silencing in this cell line and test the performance of several peak c...
Organism:	Homo sapiens
Type:		Genome binding/occupancy profiling by high throughput sequencing
Platform: GPL16558 2 Samples
FTP download: GEO (BED, WIG) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE44nnn/GSE44438/
SRA Run Selector: https://www.ncbi.nlm.nih.gov/Traces/study/?acc=PRJNA189975
Series		Accession: GSE44438	ID: 200044438

246. Genome-wide screening and identification of long noncoding RNAs and their interaction with protein coding RNAs in bladder urothelial cell carcinoma
(Submitter supplied) To understand the role of long non-coding RNAs and interaction with coding RNAs in bladder urothelial cell carcinoma (BUCC), we performed genome-wide screening long non-coding RNAs and coding RNAs expression on primary BUCC tissu...
Organism:	Homo sapiens
Type:		Expression profiling by array; Non-coding RNA profiling by array
Platform: GPL13825 15 Samples

data/bladder_cancer_GEO.txt view on Meta::CPAN


250. Genome-wide expression analysis of VprBP knockdown in DU145 cells
(Submitter supplied) VprBP has been implicated in transcriptionally silent chromatin formation and cell cycle regulation, but the molecular basis underlying such effects remains unclear. To investigate the role of VprBP on gene regulation, genme-wide...
Organism:	Homo sapiens
Type:		Expression profiling by array
Dataset: GDS4829 Platform: GPL10558 4 Samples
FTP download: GEO (TXT) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE50nnn/GSE50414/
Series		Accession: GSE50414	ID: 200050414

251. VprBP depletion effect on prostate cancer cell line
Analysis of DU145 prostate cancer cells depleted for Vpr binding protein (VPRBP). VPRBP knockdown decreases histone H2A threonine 120 (H2AT120) phosphorylation and impairs the viability of DU145 cells. Results provide insight into the role of VprBP i...
Organism:	Homo sapiens
Type:		Expression profiling by array, count, 2 genotype/variation sets
Platform: GPL10558 Series: GSE50414 4 Samples
FTP download: GEO ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDS4nnn/GDS4829/
DataSet		Accession: GDS4829	ID: 4829

252. Recurrent inactivation of STAG2 in bladder cancer is not associated with aneuploidy
(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

data/bladder_cancer_GEO.txt view on Meta::CPAN


271. 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...
Organism:	Homo sapiens
Type:		Genome variation profiling by SNP array
Platform: GPL13270 80 Samples
FTP download: GEO (CEL) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE44nnn/GSE44323/
Series		Accession: GSE44323	ID: 200044323

272. Downstream targets of ID1 transcription factor in Non-Small Cell Lung Carcinoma (NSCLC)
(Submitter supplied) ID-1, known as inhibitor of differentiation or a helix loop helix transcription factor which lack the basic DNA binding domain. It is known to bind to bHLH transcription factor and inhibit those bHLH to bind to the promoter thus ...
Organism:	Homo sapiens
Type:		Expression profiling by array
Platform: GPL570 10 Samples
FTP download: GEO (CEL, CHP) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE38nnn/GSE38944/
Series		Accession: GSE38944	ID: 200038944

273. linc-UBC1 physically associates with polycomb repressive complex 2 (PRC2) and acts as a negative prognostic factor for lymph node metastasis and survival in bladder cancer
(Submitter supplied) To identify aberrantly expressed long intergenic noncoding RNAs (lincRNAs) in bladder cancer tissues compared with normal adjacent tissues, we have employed microarray expression profiling as a discovery platform to identify linc...
Organism:	Homo sapiens
Type:		Expression profiling by array

data/bladder_cancer_GEO.txt view on Meta::CPAN

(Submitter supplied) To gain a more depth knowledge of repressive epigenetic gene regulation in UCC, we have profiled H3K9m3 and H3K27m3 in normal and malignant urothelial cells. We matched these profiles to those 5-methylcytosine and gene expression...
Organism:	Homo sapiens
Type:		Expression profiling by array
Platform: GPL570 3 Samples
FTP download: GEO (CEL) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE31nnn/GSE31864/
Series		Accession: GSE31864	ID: 200031864

302. Integrated epigenome profiling of repressive histone modifications, DNA methylation and gene expression in normal and malignant urothelial cells [ChIP-Seq data]
(Submitter supplied) We profiled two repressive histone modifications (H3K9m3 and H3K27m3) using ChIP-Seq in normal urothelial cells and cell lines representing non-invasive and invasive tumors.
Organism:	Homo sapiens
Type:		Genome binding/occupancy profiling by high throughput sequencing
Platform: GPL9052 6 Samples
FTP download: GEO (BED) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE31nnn/GSE31125/
SRA Run Selector: https://www.ncbi.nlm.nih.gov/Traces/study/?acc=PRJNA144937
Series		Accession: GSE31125	ID: 200031125

303. Transcriptomes of human bladder cells and cells in bladder cancer
(Submitter supplied) Characterization of the gene expression profiles of specific cell populations of the human urinary bladder provides an important set of research tools for the study of cellular differentiation and the cancer process. The transcri...
Organism:	Homo sapiens
Type:		Expression profiling by array
Platform: GPL570 17 Samples

data/bladder_cancer_GEO.txt view on Meta::CPAN

Analysis of urothelium from UPII-SV40Tag transgenics at 3, 6, 20, 30 weeks of age, corresponding to premalignant, carcinoma in situ, early and later stage invasive transitional cell carcinoma of the bladder (TCC), respectively. Results provide insigh...
Organism:	Mus musculus
Type:		Expression profiling by array, count, 4 age, 2 genotype/variation sets
Platform: GPL1261 Series: GSE23845 15 Samples
FTP download: GEO (CEL, CHP) ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDS3nnn/GDS3887/
DataSet		Accession: GDS3887	ID: 3887

311. H2A.Z Mapping During G0/G1 and Mitosis
(Submitter supplied) We report genome wide mapping of the histone variant H2A.Z during G0/G1 and mitosis in T24 bladder cancer cells.  The results show that the broad enrichment pattern of H2A.Z near transcription start sites of active genes is maint...
Organism:	Homo sapiens
Type:		Genome binding/occupancy profiling by high throughput sequencing
Platform: GPL9115 4 Samples
FTP download: GEO (TXT) ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE19nnn/GSE19568/
SRA Run Selector: https://www.ncbi.nlm.nih.gov/Traces/study/?acc=PRJNA122475
Series		Accession: GSE19568	ID: 200019568

312. 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 ref...
Organism:	Homo sapiens
Type:		Expression profiling by array; Genome variation profiling by genome tiling array
Platforms: GPL4723 GPL3883 GPL5186 285 Samples

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