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Transcriptome and DNA methylome analyses reveal underlying mechanisms for the racial disparity in uterine fibroids
Emmanuel N. Paul, … , Hui Shen, Jose M. Teixeira
Emmanuel N. Paul, … , Hui Shen, Jose M. Teixeira
Published September 6, 2022
Citation Information: JCI Insight. 2022;7(20):e160274. https://doi.org/10.1172/jci.insight.160274.
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Research Article Reproductive biology

Transcriptome and DNA methylome analyses reveal underlying mechanisms for the racial disparity in uterine fibroids

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Abstract

Uterine fibroids (leiomyomas) affect Black women disproportionately compared with women of other races and ethnicities in terms of prevalence, incidence, and severity of symptoms. The causes of this racial disparity are essentially unknown. We hypothesized that myometria of Black women are more susceptible to developing fibroids, and we examined the transcriptomic and DNA methylation profiles of myometria and fibroids from Black and White women for comparison. Myometrial samples cluster by race in both their transcriptome and DNA methylation profiles, whereas fibroid samples only cluster by race in the latter. More differentially expressed genes (DEGs) were detected in the Black and White myometrial sample comparison than in the fibroid comparison. Leiomyoma gene set expression analysis identified 4 clusters of DEGs, including a cluster of 24 genes with higher expression in myometrial samples from Black women. One of the DEGs in this group, von Willibrands factor (VWF), was significantly hypomethylated in both myometrial samples from Black women and in all fibroids at 2 CpG probes that are near a putative enhancer site and that are correlated with VWF expression levels. These results suggest that the molecular basis for the disparity in fibroid disease between Black and White women could be found in the myometria before fibroid development and not in the fibroids themselves.

Authors

Emmanuel N. Paul, Joshua A. Grey, Tyler J. Carpenter, Zachary B. Madaj, Kin H. Lau, Scott A. Givan, Gregory W. Burns, Ronald L. Chandler, Ganesa R. Wegienka, Hui Shen, Jose M. Teixeira

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Figure 4

DNA methylation profiles of fibroids (F) and matched myometria (MyoF) from Black and White women.

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DNA methylation profiles of fibroids (F) and matched myometria (MyoF) fr...
DNA methylation in the samples was determined using the Illumina MethylationEPIC Beadchip microarray. (A and B) Multidimension scaling plots of β values for fibroids (F) from Black (n = 16) and White (n = 25) women (A) and matching myometrial samples (MyoF) from Black (n = 13) and White (n = 19) women (B). Each dot represents an individual sample. Significant methylation differences by race were determined by the likelihood ratio test; P = 2.7 × 10–5 for F and P = 2.2 × 10–16 for MyoF. (C and D) Gene-associated differentially methylated regions (DMRs) for the Black and White race comparisons of MyoF and F samples are shown in a Venn diagram as hypomethylated (C) or hypermethylated (D), with the overlap in the circles indicating shared DMRs. Hypergeometric testing of the overlaps in C and D reveal that they were statistically significant (P = 2.6 × 10–9 and 2.3 × 10–66, respectively). (E and F) The congruent hypomethylated (E) and hypermethylated (F) EPIC CpG probes in the Black and White MyoF and the MyoF and F comparisons (>10%) are shown plotted with randomly displayed gene names. A CD9/VWF-associated probe is highlighted in blue.

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