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Ena-DATASET-MUG-24-06-2016-09:45:40:262-333 - samples

ABSTRACT: Low coverage whole genome sequencing plasma DNA from 50 male, 54 female non-cancer donors. For the analysis of nucleosomal positioning all data from the non-cancer controls were merged. Furthermore, two patients with metastasized breast cancer were sequenced on a NextSeq with higher depth.

PROVIDER: EGAD00001002215 | EGA |

REPOSITORIES: EGA

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Inferring expressed genes by whole-genome sequencing of plasma DNA.

Ulz Peter P Thallinger Gerhard G GG Auer Martina M Graf Ricarda R Kashofer Karl K Jahn Stephan W SW Abete Luca L Pristauz Gunda G Petru Edgar E Geigl Jochen B JB Heitzer Ellen E Speicher Michael R MR

Nature genetics 20160829 10

The analysis of cell-free DNA (cfDNA) in plasma represents a rapidly advancing field in medicine. cfDNA consists predominantly of nucleosome-protected DNA shed into the bloodstream by cells undergoing apoptosis. We performed whole-genome sequencing of plasma DNA and identified two discrete regions at transcription start sites (TSSs) where nucleosome occupancy results in different read depth coverage patterns for expressed and silent genes. By employing machine learning for gene classification, w ...[more]

PMID: 27571261

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