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Temporal chromatin accessibility changes define transcriptional states essential for osteosarcoma metastasis [scATAC-Seq]

ABSTRACT: Temporal chromatin accessibility changes define transcriptional states essential for osteosarcoma metastasis [scATAC-Seq]

PROVIDER: PRJNA890576 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR21903250_1.fastq.gz	Fastqsanger.gz
	SRR21903250_2.fastq.gz	Fastqsanger.gz

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Temporal chromatin accessibility changes define transcriptional states essential for osteosarcoma metastasis [scATAC-Seq]

Project description:Temporal profiling of chromatin accessibility during metastasis revealed dynamic changes in chromatin accessibility during osteosarcoma lung colonization. We sought to determine whether these changes were due to epigenomic reprogramming, or shifts in subclonal frequency. To do this we performed scATAC-seq on MG63.3-GFP cells grown in vitro.

2023-09-18 | GSE215758 | GEO

Temporal chromatin accessibility changes define transcriptional states essential for osteosarcoma metastasis

Project description:Temporal chromatin accessibility changes define transcriptional states essential for osteosarcoma metastasis

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Temporal chromatin accessibility changes define transcriptional states essential for osteosarcoma metastasis [mg633_ATACseq]

Project description:Temporal chromatin accessibility changes define transcriptional states essential for osteosarcoma metastasis [mg633_ATACseq]

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Temporal chromatin accessibility changes define transcriptional states essential for osteosarcoma metastasis [RNA-Seq]

Project description:Temporal chromatin accessibility changes define transcriptional states essential for osteosarcoma metastasis [RNA-Seq]

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Temporal chromatin accessibility changes define transcriptional states essential for osteosarcoma metastasis.

Project description:The metastasis-invasion cascade describes the series of steps required for a cancer cell to successfully spread from its primary tumor and ultimately grow within a secondary organ. Despite metastasis being a dynamic, multistep process, most omics studies to date have focused on comparing primary tumors to the metastatic deposits that define end-stage disease. This static approach means we lack information about the genomic and epigenomic changes that occur during the majority of tumor progression. One particularly understudied phase of tumor progression is metastatic colonization, during which cells must adapt to the new microenvironment of the secondary organ. Through temporal profiling of chromatin accessibility and gene expression in vivo, we identify dynamic changes in the epigenome that occur as osteosarcoma tumors form and grow within the lung microenvironment. Furthermore, we show through paired in vivo and in vitro CRISPR drop-out screens and pharmacological validation that the upstream transcription factors represent a class of metastasis-specific dependency genes. While current models depict lung colonization as a discrete step within the metastatic cascade, our study shows it is a defined trajectory through multiple epigenetic states, revealing new therapeutic opportunities undetectable with standard approaches.

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Temporal chromatin accessibility changes define transcriptional states essential for osteosarcoma metastasis

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

2023-09-15 | GSE215765 | GEO

Temporal chromatin accessibility changes define transcriptional states essential for osteosarcoma metastasis [mg633_ATACseq]

Project description:ATAC-seq was performed on MG63.3-GFP cells in vitro or isolated from mouse lung 1 day or 22 days post-innoculation to assess chromatin accessbility dynamics during lung colonization.

2023-09-18 | GSE215764 | GEO

Temporal chromatin accessibility changes define transcriptional states essential for osteosarcoma metastasis [143b_ATACseq]

Project description:ATAC-seq was performed on 143b-GFP cells in vitro or isolated from mouse lung 1 day or 22 days post-innoculation to assess chromatin accessbility dynamics during lung colonization.

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Temporal chromatin accessibility changes define transcriptional states essential for osteosarcoma metastasis [RNA-Seq]

Project description:RNA-seq was performed on MG63.3-GFP cells in vitro or isolated from mouse lung 1 day or 22 days post-innoculation to assess gene expression dynamics during lung colonization.

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