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Links from GEO DataSets

Items: 20

1.

Effect of Domatinostat treatment on MKL1 cells

(Submitter supplied) To investigate the effect of HDAC inhibition, we treated MKL1 cells with 10µM of domatinostat or vehicle control (DMSO) for 24h, and carried out bulk RNA-seq We then performed gene expression profiling analysis using data obtained from RNA-seq of vehicle control (DMSO treated) and domatinostat treated samples (in duplicates)
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL20301
4 Samples
Download data: TXT
Series
Accession:
GSE233454
ID:
200233454
2.

Single cell RNA-seq profiling of patient-derived Merkel cell carcinoma tumor samples

(Submitter supplied) Merkel cell carcinoma (MCC), a rare but aggressive neuroendocrine cancer of the skin, remains a challenge in the era of precision medicine. MCC tumor heterogeneity has been attributed to the variant disease etiologies, mediated by either UV exposure or Merkel cell polyomavirus (MCPyV). However, over the years it has become clear that these two groups are largely similar in clinical presentation, prognosis, and treatment response to immune-checkpoint inhibitors. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24676
11 Samples
Download data: MTX, TSV
Series
Accession:
GSE226438
ID:
200226438
3.

Bulk RNA sequencing of MCPyV positive and negative patient derived Merkel cell carcinoma cell lines

(Submitter supplied) To investigate cell line intrinsic factors dictating cell fate and therapeutic vulnerabilities Gene expression profiling of cell lines based on their proximity and viral status
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL20301
8 Samples
Download data: TXT
Series
Accession:
GSE223275
ID:
200223275
4.

Chromatin profiling upon pharmacological LSD1 inhibition in MCC [CUT&RUN]

(Submitter supplied) Merkel cell carcinoma (MCC) is a highly aggressive, neuroendocrine skin cancer that lacks actionable mutations, which could be utilized for targeted therapies. Epigenetic regulators governing cell identity may represent unexplored therapeutic entry points. Here, we targeted epigenetic regulators in a pharmacological screen and discovered that the lysine-specific histone demethylase 1A (LSD1/KDM1A) is required for MCC growth in vitro and in vivo. more...
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL11154
16 Samples
Download data: BW
Series
Accession:
GSE148103
ID:
200148103
5.

Transcriptomic profiling of isolated mouse Merkel cells [SMARTseq]

(Submitter supplied) Merkel cell carcinoma (MCC) is a highly aggressive, neuroendocrine skin cancer that lacks actionable mutations, which could be utilized for targeted therapies. Epigenetic regulators governing cell identity may represent unexplored therapeutic entry points. Here, we targeted epigenetic regulators in a pharmacological screen and discovered that the lysine-specific histone demethylase 1A (LSD1/KDM1A) is required for MCC growth in vitro and in vivo. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL13112
6 Samples
Download data: CSV
Series
Accession:
GSE148102
ID:
200148102
6.

Pharmacological LSD1 inhibition in MCC

(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; Expression profiling by high throughput sequencing
Platforms:
GPL11154 GPL13112 GPL21697
50 Samples
Download data: BIGWIG, TSV, TXT
Series
Accession:
GSE147817
ID:
200147817
7.

Transcriptomic maps of pharmacological LSD1 inhibition in MCC [SLAMseq]

(Submitter supplied) Merkel cell carcinoma (MCC) is a highly aggressive, neuroendocrine skin cancer that lacks actionable mutations, which could be utilized for targeted therapies. Epigenetic regulators governing cell identity may represent unexplored therapeutic entry points. Here, we targeted epigenetic regulators in a pharmacological screen and discovered that the lysine-specific histone demethylase 1A (LSD1/KDM1A) is required for MCC growth in vitro and in vivo. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL11154
12 Samples
Download data: TSV
8.

Transcriptomic maps of pharmacological LSD1 inhibition in MCC [QUANTseq]

(Submitter supplied) Merkel cell carcinoma (MCC) is a highly aggressive, neuroendocrine skin cancer that lacks actionable mutations, which could be utilized for targeted therapies. Epigenetic regulators governing cell identity may represent unexplored therapeutic entry points. Here, we targeted epigenetic regulators in a pharmacological screen and discovered that the lysine-specific histone demethylase 1A (LSD1/KDM1A) is required for MCC growth in vitro and in vivo. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL11154
12 Samples
Download data: TXT
9.

Genome-wide chromatin accessibility mapping upon pharmacological LSD1 inhibition in MCC [ATACseq]

(Submitter supplied) Merkel cell carcinoma (MCC) is a highly aggressive, neuroendocrine skin cancer that lacks actionable mutations, which could be utilized for targeted therapies. Epigenetic regulators governing cell identity may represent unexplored therapeutic entry points. Here, we targeted epigenetic regulators in a pharmacological screen and discovered that the lysine-specific histone demethylase 1A (LSD1/KDM1A) is required for MCC growth in vitro and in vivo. more...
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL21697
4 Samples
Download data: BIGWIG
Series
Accession:
GSE147814
ID:
200147814
10.

Viral Status Predicts Patterns of Genome Methylation and Decitabine Response in Merkel Cell Carcinoma

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Homo sapiens
Type:
Methylation profiling by array; Expression profiling by high throughput sequencing
Platforms:
GPL16791 GPL23976
66 Samples
Download data: IDAT
Series
Accession:
GSE184207
ID:
200184207
11.

Viral Status Predicts Patterns of Genome Methylation and Decitabine Response in Merkel Cell Carcinoma [Methylation]

(Submitter supplied) To understand the global methylation patterns in MCC cell lines
Organism:
Homo sapiens
Type:
Methylation profiling by array
Platform:
GPL23976
16 Samples
Download data: IDAT
Series
Accession:
GSE184206
ID:
200184206
12.

Viral Status Predicts Patterns of Genome Methylation and Decitabine Response in Merkel Cell Carcinoma [RNA-Seq]

(Submitter supplied) To understand the global methylation pattern in MCC
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL16791
50 Samples
Download data: TXT
13.

microRNA expression patterns related to merkel cell polyomavirus infection in human merkel cell carcinoma

(Submitter supplied) We performed miRNA expression profiling in a series of human Merkel Cell carcinoma samples using a microarray approach. Significant differentially expressed miRNAs among groups were identified using SAM analysis.
Organism:
Homo sapiens
Type:
Non-coding RNA profiling by array
Platform:
GPL16541
16 Samples
Download data: TXT
Series
Accession:
GSE43699
ID:
200043699
14.

Classical and variant Merkel cell carcinoma cell lines display different degrees of epithelial-mesenchymal transition

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Homo sapiens
Type:
Expression profiling by array; Non-coding RNA profiling by array; Methylation profiling by array
Platforms:
GPL19956 GPL23976 GPL20275
30 Samples
Download data: IDAT, RCC
Series
Accession:
GSE159714
ID:
200159714
15.

Classical and variant Merkel cell carcinoma cell lines display different degrees of epithelial-mesenchymal transition [methylation]

(Submitter supplied) variant MCC cell lines show differential methylation for EMT related genes and microRNAs in comparison to classcial MCC cell lines
Organism:
Homo sapiens
Type:
Methylation profiling by array
Platform:
GPL23976
11 Samples
Download data: IDAT
Series
Accession:
GSE159710
ID:
200159710
16.

Classical and variant Merkel cell carcinoma cell lines display different degrees of epithelial-mesenchymal transition [miRNA]

(Submitter supplied) variant MCC cell lines show lower expression levels of the EMT-related microRNAs miR-200c-141 and miR-183-96-182 in contrast to classcial MCC cell lines
Organism:
Homo sapiens
Type:
Non-coding RNA profiling by array
Platform:
GPL20275
11 Samples
Download data: RCC
Series
Accession:
GSE159696
ID:
200159696
17.

Classical and variant Merkel cell carcinoma cell lines display different degrees of epithelial-mesenchymal transition [mRNA]

(Submitter supplied) variant MCC cell lines show higher expression levels of the EMT-related genes, similar to that of SCC cell lines but opposite to classcial MCC cell lines
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL19956
8 Samples
Download data: RCC
Series
Accession:
GSE159662
ID:
200159662
18.

Next-generation mRNA sequencing of MKL-1 Merkel cell carcinoma cells expressing wild-type or mutant YAP or TAZ

(Submitter supplied) The overarching goal of this study was to characterize TEAD-dependent transcriptional effects of YAP and TAZ in Merkel cell carcinoma cells. To that end, transcriptional profiling was performed on MKL-1 cells induced to express GFP, wild-type YAP or TAZ, or YAP S94A or TAZ F52A for 3 days.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24676
15 Samples
Download data: TXT
19.

Microarray analysis of Merkel cell carcinoma (MCC) tumors, small cell lung cancer (SCLC) tumors, and MCC cell lines

(Submitter supplied) When using cell lines to study cancer, phenotypic similarity to the original tumor is paramount. Yet, little has been done to characterize how closely Merkel cell carcinoma (MCC) cell lines model native tumors. To determine their similarity to MCC tumor samples, we characterized MCC cell lines via gene expression microarrays. Using whole transcriptome gene expression signatures and a computational bioinformatic approach, we identified significant differences between variant cell lines (UISO, MCC13, and MCC26) and fresh frozen MCC tumors. more...
Organism:
Homo sapiens
Type:
Expression profiling by array
Platforms:
GPL570 GPL571
77 Samples
Download data: CEL, TXT
Series
Accession:
GSE50451
ID:
200050451
20.

A novel DNA methylation signature in Merkel Cell Carcinoma

(Submitter supplied) Merkel cell carcinoma (MCC) is a rare but aggressive skin cancer with neuroendocrine features. Although the role of epigenetic in tumorigenesis has been documented in most type of cancer, it is overlooked in MCC. The treatment options for MCC is limited and the five-year survival rate remains as low as 33%. In addition, recent studies have suggested multiple mechanisms of epigenetic dysregulation that may contribute to loss H3K27me3 and the tumorigenesis in MCC but not well studied. more...
Organism:
Homo sapiens
Type:
Methylation profiling by genome tiling array
Platform:
GPL23976
21 Samples
Download data: IDAT, TXT
Series
Accession:
GSE160878
ID:
200160878
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