CLASSIFICATION AND FUNCTIONAL ANALYSIS OF GENE EXPRESSION DYNAMICS IN THE HUMAN PLACENTA DURING UNCOMPLICATED PREGNANCY
Ключові слова:
placenta, gene, expression, dynamics, clusteringАнотація
This article analyzes placental gene expression dynamics during pregnancy. 9 expression dynamics clusters were grouped into 4 “mirrored” groups. Functional analysis revealed that genes in these groups partake in immune, metabolic, structural, and developmental processes, offering insight into coordinated function of genes in placenta.
Посилання
Turco M. Y., Moffett A. Development of the human placenta. Development. 2019. Vol. 146, no. 22. DOI: 10.1242/dev.163428.
Dynamic genome-wide gene expression and immune cell composition in the developing human placenta / H. Suryawanshi et al. Journal of Reproductive Immunology. 2022. P. 103624. DOI: 10.1016/j.jri.2022.103624.
NCBI GEO: archive for functional genomics data sets–update / T. Barrett et al. Nucleic Acids Research. 2012. Vol. 41, no. D1. P. D991–D995. DOI: 10.1093/nar/gks1193.
Profiling Gene Expression in Human Placentae of Different Gestational Ages: An OPRU* Network and UW SCOR Study / A. M. Mikheev et al. Reproductive Sciences. 2008. Vol. 15, no. 9. P. 866–877. DOI: 10.1177/1933719108322425.
Increased placental expression and maternal serum levels of apoptosis-inducing TRAIL in recurrent miscarriage / K. Rull et al. Placenta. 2013. Vol. 34, no. 2. P. 141–148. DOI: 10.1016/j.placenta.2012.11.032.
The placental transcriptome of the first-trimester placenta is affected by in vitro fertilization and embryo transfer / L. Zhao et al. Reproductive Biology and Endocrinology. 2019. Vol. 17, no. 1. DOI: 10.1186/s12958-019-0494-7.
Dysregulation of the Circulating and Tissue-Based Renin-Angiotensin System in Preeclampsia / F. Herse et al. Hypertension. 2007. Vol. 49, no. 3. P. 604–611. DOI: 10.1161/01.HYP.0000257797.49289.71.
Epigenetics and Preeclampsia: Defining Functional Epimutations in the Preeclamptic Placenta Related to the TGF-β Pathway / E. Martin та ін. PLOS ONE. 2015. Т. 10, № 10. С. e0141294. DOI: 10.1371/journal.pone.0141294.
Onset of human preterm and term birth is related to unique inflammatory transcriptome profiles at the maternal fetal interface / R. Bukowski et al. PeerJ. 2017. Vol. 5. P. e3685. DOI: 10.7717/peerj.3685.
Differentially expressed microRNAs and affected biological pathways revealed by modulated modularity clustering (MMC) analysis of human preeclamptic and IUGR placentas / L. Guo et al. Placenta. 2013. Vol. 34, no. 7. P. 599–605. DOI: 10.1016/j.placenta.2013.04.007.
Mid-Gestational Gene Expression Profile in Placenta and Link to Pregnancy Complications / L. Uusküla et al. PLoS ONE. 2012. Vol. 7, no. 11. P. e49248. DOI: 10.1371/journal.pone.0049248.
Clustering gene expression time series data using an infinite Gaussian process mixture model / I. C. McDowell et al. PLOS Computational Biology. 2018. Vol. 14, no. 1. P. e1005896. DOI: 10.1371/journal.pcbi.1005896.
Gene Ontology overview. Gene Ontology Resource. URL: https://geneontology.org/docs/ontology-documentation/.
Shannon P. Cytoscape: A Software Environment for Integrated Models of Biomolecular Interaction Networks. Genome Research. 2003. Vol. 13, no. 11. P. 2498–2504. DOI: 10.1101/gr.1239303.
Cytoscape StringApp: Network Analysis and Visualization of Proteomics Data / N. T. Doncheva et al. Journal of Proteome Research. 2018. Vol. 18, no. 2. P. 623–632. DOI: 10.1021/acs.jproteome.8b00702.
clusterProfiler 4.0: A universal enrichment tool for interpreting omics data / T. Wu et al. The Innovation. 2021. Vol. 2, no. 3. P. 100141. DOI: 10.1016/j.xinn.2021.100141.