Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Differentiation-related epigenomic changes define clinically distinct keratinocyte cancer subclasses [Multiome]

ABSTRACT: Differentiation-related epigenomic changes define clinically distinct keratinocyte cancer subclasses [Multiome]

PROVIDER: PRJNA854897 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR19918328_1.fastq.gz	Fastqsanger.gz
	SRR19918328_2.fastq.gz	Fastqsanger.gz
	SRR19918329_1.fastq.gz	Fastqsanger.gz
	SRR19918329_2.fastq.gz	Fastqsanger.gz
	SRR19918330_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 8

Similar Datasets

Differentiation-related epigenomic changes define clinically distinct keratinocyte cancer subclasses

Project description:Differentiation-related epigenomic changes define clinically distinct keratinocyte cancer subclasses

| PRJNA854884 | ENA

Differentiation-related epigenomic changes define clinically distinct keratinocyte cancer subclasses [methylation]

Project description:Differentiation-related epigenomic changes define clinically distinct keratinocyte cancer subclasses [methylation]

| PRJNA859158 | ENA

Differentiation-related epigenomic changes define clinically distinct keratinocyte cancer subclasses [Multiome]

Project description:Keratinocyte cancers (KC) are the most prevalent malignancies in fair-skinned populations, posing a significant medical and economic burden to health systems. KC originate in the epidermis and mainly comprise basal cell carcinoma (BCC) and cutaneous squamous cell carcinoma (cSCC). Here, we combined single-cell transcriptomics, methylomics and multi-omics to investigate the epigenomic dynamics during epidermal differentiation. We identified ~4,000 differentially accessible regions between undifferentiated and differentiated keratinocytes, corresponding to regulatory regions associated with key transcription factors. DNA methylation at these regions defined AK/cSCC subtypes with epidermal stem cell- or keratinocyte-like features. Using cell type deconvolution tools and integration of bulk and single-cell methylomes, we demonstrate that these subclasses are consistent with distinct cells-of-origin. Further characterization of the subclasses with an epigenetic mitotic-like clock, and the study of other unstratified KC entities uncovered distinct phenotypic and clinical features for the subclasses, linking invasive and metastatic KC cases with undifferentiated cells-of-origin. Our study provides a thorough characterization of the epigenomic dynamics underlying human keratinocyte differentiation and uncovers novel links between KC cells-of-origin and their prognosis

2022-08-30 | GSE207335 | GEO

Differentiation-related epigenomic changes define clinically distinct keratinocyte cancer subclasses [scRNA-seq]

Project description:Differentiation-related epigenomic changes define clinically distinct keratinocyte cancer subclasses [scRNA-seq]

| PRJNA854898 | ENA

Differentiation-related epigenomic changes define clinically distinct keratinocyte cancer subclasses

2022-08-29 | E-MTAB-11856 | biostudies-arrayexpress

Differentiation-related epigenomic changes define clinically distinct keratinocyte cancer subclasses [methylation]

Project description:Keratinocyte cancers (KC) are the most prevalent malignancies in fair-skinned populations, posing a significant medical and economic burden to health systems. KC originate in the epidermis and mainly comprise basal cell carcinoma (BCC) and cutaneous squamous cell carcinoma (cSCC). Here we combined single-cell multi-omics, transcriptomics and methylomics to investigate the epigenomic dynamics during epidermal differentiation. We identified ~4,000 differentially accessible regions between undifferentiated and differentiated keratinocytes, corresponding to regulatory regions associated with key transcription factors. DNA methylation at these regions defined AK/cSCC subtypes with epidermal stem cell- or keratinocyte-like features. Using cell type deconvolution tools and integration of bulk and single-cell methylomes, we demonstrate that these subclasses are consistent with distinct cells-of-origin. Further characterization of the phenotypic traits of the subclasses, and the study of additional unstratified KC entities uncovered distinct clinical features for the subclasses, linking invasive and metastatic KC cases with undifferentiated cells-of-origin. Our study provides a thorough characterization of the epigenomic dynamics underlying human keratinocyte differentiation and uncovers novel links between KC cells-of-origin and their prognosis.

2022-11-28 | GSE208304 | GEO

Differentiation-related epigenomic changes define clinically distinct keratinocyte cancer subclasses [scRNA-seq]

2022-08-30 | GSE207336 | GEO

Differentiation-related epigenomic changes define clinically distinct keratinocyte cancer subclasses.

Project description:Keratinocyte cancers (KC) are the most prevalent malignancies in fair-skinned populations, posing a significant medical and economic burden to health systems. KC originate in the epidermis and mainly comprise basal cell carcinoma (BCC) and cutaneous squamous cell carcinoma (cSCC). Here, we combined single-cell multi-omics, transcriptomics, and methylomics to investigate the epigenomic dynamics during epidermal differentiation. We identified ~3,800 differentially accessible regions between undifferentiated and differentiated keratinocytes, corresponding to regulatory regions associated with key transcription factors. DNA methylation at these regions defined AK/cSCC subtypes with epidermal stem cell- or keratinocyte-like features. Using cell-type deconvolution tools and integration of bulk and single-cell methylomes, we demonstrate that these subclasses are consistent with distinct cells-of-origin. Further characterization of the phenotypic traits of the subclasses and the study of additional unstratified KC entities uncovered distinct clinical features for the subclasses, linking invasive and metastatic KC cases with undifferentiated cells-of-origin. Our study provides a thorough characterization of the epigenomic dynamics underlying human keratinocyte differentiation and uncovers novel links between KC cells-of-origin and their prognosis.

| S-EPMC9484266 | biostudies-literature

Differentiation-related epigenomic changes define clinically distinct keratinocyte cancer subclasses

Project description:Keratinocyte cancers (KC) are the most prevalent malignancies in fair-skinned populations, posing a significant medical and economic burden to health systems. KC originate in the epidermis and mainly comprise basal cell carcinoma (BCC) and cutaneous squamous cell carcinoma (cSCC). Here we combined single-cell multi-omics, transcriptomics and methylomics to investigate the epigenomic dynamics during epidermal differentiation. We identified ~3,800 differentially accessible regions between undifferentiated and differentiated keratinocytes, corresponding to regulatory regions associated with key transcription factors. DNA methylation at these regions defined AK/cSCC subtypes with epidermal stem cell- or keratinocyte-like features. Using cell type deconvolution tools and integration of bulk and single-cell methylomes, we demonstrate that these subclasses are consistent with distinct cells-of-origin. Further characterization of the phenotypic traits of the subclasses, and the study of additional unstratified KC entities uncovered distinct clinical features for the subclasses, linking invasive and metastatic KC cases with undifferentiated cells-of-origin. Our study provides a thorough characterization of the epigenomic dynamics underlying human keratinocyte differentiation and uncovers novel links between KC cells-of-origin and their prognosis.

| S-SCDT-10_15252-MSB_202211073 | biostudies-other

Differentiation-related epigenomic changes define clinically distinct keratinocyte cancer subclasses

Project description:This SuperSeries is composed of the SubSeries listed below.

2022-08-29 | GSE207337 | GEO