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Sequencing of cfDNA derived from the plasma of individuals of different ages

ABSTRACT: Sequencing of cfDNA derived from the plasma of individuals of different ages

PROVIDER: PRJNA471637 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR7170700_1.fastq.gz	Fastqsanger.gz
	SRR7170700_2.fastq.gz	Fastqsanger.gz
	SRR7170701_1.fastq.gz	Fastqsanger.gz
	SRR7170701_2.fastq.gz	Fastqsanger.gz
	SRR7170702_1.fastq.gz	Fastqsanger.gz

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Sequencing of cfDNA derived from the plasma of individuals of different ages

Project description:We provide the first in vivo evidence of global and local chromatin changes in human aging by analyzing cfDNA from the blood of individuals of different age groups. Our results show that nucleosome signals inferred from cfDNA are consistent with the redistribution of heterochromatin observed in cellular senescence and aging in other model systems. It also revealed age and deteriorating health status correlate with a low-level enrichment of signals from cells in the thyroid gland. In addition, we detected an overall nucleosome loss at several genomic locations, such as transcription start and termination sites, 5’UTR of L1HS retrotransposons and dimeric AluY elements with age.

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Gene expression individuals at different ages

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Project description:We performed all stimulatory experiments using THP1 cell line as a representative of primary human monocytes to show fundamental role of the cfDNA in healthy organisms. The experiments were conducted in duplicates using plasma containing cfDNA (NP) and the reference one with cfDNA removed by DNase (TP) to recognize unequivocally the effect of plasma cfDNA on transcriptome and proteome of monocytes. We used native human plasma samples obtained from healthy volunteers with no animal serum addition to cultivation medium in order to avoid the presence of uncharacterized animal cfDNA in the experiments.

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Project description:The genome-wide analysis of cfDNA fragmentation patterns in DENQCMs and maternal plasma was performed by deep sequencing using Illumina Novaseq to confirm their biological characteristics. We first performed deep whole genome sequencing of the cfDNA extracted from DENQCMs and maternal plasma cfDNA. Then we analyzed the sequencing data and compared various characteristics of cfDNA fragmentation patterns, such as dinucleotide composition, nucleosome protection length, and nucleosome occupancy based on a windowed protection score (WPS), to the submitter-provided processed data from a healthy individual IH01 (GEO accession GSM1833276).

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