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Genome-wide methylation profiles in primary intracranial germ cell tumors indicate primordial germ cell origin of germinoma

ABSTRACT: This SuperSeries is composed of the SubSeries listed below.

ORGANISM(S): Homo sapiens

PROVIDER: GSE70787 | GEO | 2016/04/01

SECONDARY ACCESSION(S): PRJNA289527

REPOSITORIES: GEO

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Genome-wide methylation profiles in primary intracranial germ cell tumors indicate primordial germ cell origin of germinoma

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2016-04-01 | E-GEOD-70787 | biostudies-arrayexpress

Genome-wide methylation profiles in primary intracranial germ cell tumors indicate primordial germ cell origin of germinoma [Illumina]

Project description:The pathogenesis of intracranial germ cell tumors (iGCTs) is not yet fully uncovered despite exhaustive genomic analyses. By means of a genome-wide methylation analysis, we show that pure germinoma is characterized by global DNA low methylation, a unique epigenetic feature distinct from all other subtypes of iGCTs. The patterns of methylation strongly resemble that of primordial germ cells (PGC) at the migration phase, indicating the cells of origin. Unlike PGC, however, hypomethylation extends to LINE1 retrotransposon. Microdissected histologically and epigenetically distinct components of mixed-GCTs shared identical mutations in the MAPK or PI3K pathways, suggesting that the genetic alterations were likely to have occurred at the pre-implantation phase in early embryogenesis. Thus, we propose iGCTs are âZygotomaâ. Bisulphite converted DNA from 77 samples were hybridized to the Illumina Infinium HumanMethylation450 Beadchip

2016-04-01 | E-GEOD-70783 | biostudies-arrayexpress

Genome-wide methylation profiles in primary intracranial germ cell tumors indicate primordial germ cell origin of germinoma [Agilent]

Project description:The pathogenesis of intracranial germ cell tumors (iGCTs) is not yet fully uncovered despite exhaustive genomic analyses. By means of a genome-wide methylation analysis, we show that pure germinoma is characterized by global DNA low methylation, a unique epigenetic feature distinct from all other subtypes of iGCTs. The patterns of methylation strongly resemble that of primordial germ cells (PGC) at the migration phase, indicating the cells of origin. Unlike PGC, however, hypomethylation extends to LINE1 retrotransposon. Microdissected histologically and epigenetically distinct components of mixed-GCTs shared identical mutations in the MAPK or PI3K pathways, suggesting that the genetic alterations were likely to have occurred at the pre-implantation phase in early embryogenesis. Thus, we propose iGCTs are âZygotomaâ. Genomic DNA from the 81 GCTs were hybridized to the SurePrint G3 Human CGH 8 Ã 60 K Oligo Microarrays G4450A (Agilent Technologies, Santa Clara, CA).

2016-04-01 | E-GEOD-70782 | biostudies-arrayexpress

Genome-wide methylation profiles in primary intracranial germ cell tumors indicate primordial germ cell origin of germinoma [Agilent]

2016-04-01 | GSE70782 | GEO

Genome-wide methylation profiles in primary intracranial germ cell tumors indicate primordial germ cell origin of germinoma [Illumina]

2016-04-01 | GSE70783 | GEO

Genome wide DNA methylation profiles provide clues to the origin and pathogenesis of germ cell tumors.

Project description: Not available

| S-EPMC4479500 | biostudies-literature

A pragmatic diagnostic approach to primary intracranial germ cell tumors and their treatment outcomes.

Project description: Not available

| S-EPMC8610002 | biostudies-literature

Primordial germ cells as a potential shared cell of origin for mucinous cystic neoplasms of the pancreas and mucinous ovarian tumors.

Project description: Not available

| S-EPMC6240919 | biostudies-literature

Primordial germ cells identified as one potential cell of origin of MYC rhabdoid tumors

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

2022-01-28 | GSE188817 | GEO

Primordial germ cells identified as one potential cell of origin of MYC rhabdoid tumors

Project description:Rhabdoid tumors (RT) are rare and highly aggressive pediatric neoplasms. Their epigenetically-driven intertumoral heterogeneity is well described; however, the cellular origin of RT remains an enigma. Here, we established and characterized different genetically engineered mouse models driven under the control of distinct promoters and being active in early progenitor cell types with diverse embryonic onsets. From all models only Sox2-positive progenitor cells give rise to murine RT. Using single-cell analyses, we identified distinct cells of origin for the SHH and MYC subgroups of RT, rooting in early stages of embryogenesis. Intra- and extracranial MYC tumors harbor common genetic programs and potentially originate from fetal primordial germ cells (PGCs). Using PGC specific Smarcb1 knockout mouse models we validated that MYC RT originate from these progenitor cells. We uncovered an epigenetic imbalance in MYC tumors compared to PGCs being sustained by epigenetically-driven subpopulations. Importantly, treatments with the DNA demethylating agent decitabine successfully impaired tumor growth in vitro and in vivo.

2022-01-28 | GSE188816 | GEO

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