Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference · 2025
Development of rplec: An R package of placental epigenetic clock to estimate aging by DNA-methylation-based gestational age.
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Sufriyana Herdiantri, Su Emily Chia-Yu
Аннотация
BACKGROUND: Latest placental epigenetic clocks (PlECs) were less accurate in earlier trimesters. We aimed to develop an R package of PlEC to estimate aging by DNA-methylation-based GA (DNAm-GA).
METHODS: We developed a three-stage prediction model, including residual DNAm-GA for measuring placental aging. An R package was developed to simplify our scikit-learn models into a single function and to utilize DNAm-GA for placental aging study.
RESULTS: Our PlEC achieved a lower root mean squared-error for preterm samples (0.558, 95% confidence interval [CI] 0.545, 0.570) compared to the two previous PlECs using the common dataset: (1) Lee et al. (1.696, 95% CI 1.667, 1.724); and (2) Mayne et al. (4.018, 95% CI 3.927, 4.108). We also provided a function to utilize DNAm-GA for placental aging study.
CONCLUSIONS: Our R package precisely estimated DNAm-GA and our analytical framework could utilize DNAm-GA for placental aging study.Clinical Relevance- Our placental epigenetic clock allows individual assessment of placental aging in clinical settings via the residual DNAm-GA.
METHODS: We developed a three-stage prediction model, including residual DNAm-GA for measuring placental aging. An R package was developed to simplify our scikit-learn models into a single function and to utilize DNAm-GA for placental aging study.
RESULTS: Our PlEC achieved a lower root mean squared-error for preterm samples (0.558, 95% confidence interval [CI] 0.545, 0.570) compared to the two previous PlECs using the common dataset: (1) Lee et al. (1.696, 95% CI 1.667, 1.724); and (2) Mayne et al. (4.018, 95% CI 3.927, 4.108). We also provided a function to utilize DNAm-GA for placental aging study.
CONCLUSIONS: Our R package precisely estimated DNAm-GA and our analytical framework could utilize DNAm-GA for placental aging study.Clinical Relevance- Our placental epigenetic clock allows individual assessment of placental aging in clinical settings via the residual DNAm-GA.