Dataset Information

Unbiased placental secretome characterization identifies candidates for pregnancy complications

ABSTRACT: Proteomics assessment of supernatants, cell contents of trophoblasts were performed to identify what proteins are secreted from this particular placental region.

INSTRUMENT(S): Q Exactive

ORGANISM(S): Mus Musculus (mouse)

TISSUE(S): Placenta, Blood Plasma

SUBMITTER: Richard Kay

LAB HEAD: Dr Amanda N. Sferruzzi-Perri

PROVIDER: PXD025006 | Pride | 2021-06-09

REPOSITORIES: Pride

ACCESS DATA

Dataset's files

Source:

Items per page:

1 - 5 of 65

Similar Datasets

Project description:Background: Gene expression variation is a phenotypic trait of particular interest as it represents the initial link between genotype and other phenotypes. Analyzing how such variation apportions among and within groups allows for the evaluation of how genetic and environmental factors influence such traits. It also provides opportunities to identify genes and pathways that may have been influenced by non-neutral processes. Here we use a population genetics framework and next generation sequencing to evaluate how gene expression variation is apportioned among four human groups in a natural biological tissue, the placenta. Results: We estimate that on average, 33.2%, 58.9% and 7.8% of the placental transcriptome is explained by variation within individuals, among individuals and among human groups, respectively. Additionally, when technical and biological traits are included in models of gene expression they account for roughly 2% of total gene expression variation. Notably, the variation that is significantly different among groups is enriched in biological pathways associated with immune response, cell signaling and metabolism. Many biological traits demonstrated correlated changes in expression in numerous pathways of potential interest to clinicians and evolutionary biologists. Finally, we estimate that the majority of the human placental transcriptome (65% of expressed genes) exhibits expression profiles consistent with neutrality; the remainder are consistent with stabilizing selection (26%), directional selection (4.9%), or diversifying selection (4.8%). Conclusion: We apportion placental gene expression variation into individual, population and biological trait factors and identify how each influence the transcriptome. Additionally, we advance methods to associate expression profiles with different forms of selection. Placental mRNA was sequenced on an Illumina GAIIx. Samples were derived from 4 human groups, 10 individuals per group, 2 samples per individual

			Action	DRS
	18092104.mgf	Mgf
	18092104.raw	Raw
	18092106.mgf	Mgf
	18092106.raw	Raw
	18092107.mgf	Mgf

Dataset Information

Unbiased placental secretome characterization identifies candidates for pregnancy complications

Dataset's files

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure

Tweets