Age estimation by DNA methylation levels in Iraqi subjects

Al-Ghanmy, Hiba S.G.; Al-Rashedi, Nihad A.M.; Ayied, Asaad Y.

doi:10.1016/j.genrep.2021.101022

Cited by 10 publications

(6 citation statements)

References 22 publications

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“…Forensic science should further address the influence of ethnicity/ancestry to optimize the potential of age estimation based on DNAm; a need for research has been already stated by others [9,13,15,39,40]. Thong et al [13] suggested the retraining of age prediction models, if they are to be applied to individuals of other populations.…”

Section: Discussionmentioning

confidence: 99%

Evidence for differences in DNA methylation between Germans and Japanese

et al. 2021

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As a contribution to the discussion about the possible effects of ethnicity/ancestry on age estimation based on DNA methylation (DNAm) patterns, we directly compared age-associated DNAm in German and Japanese donors in one laboratory under identical conditions. DNAm was analyzed by pyrosequencing for 22 CpG sites (CpGs) in the genes PDE4C, RPA2, ELOVL2, DDO, and EDARADD in buccal mucosa samples from German and Japanese donors (N = 368 and N = 89, respectively).Twenty of these CpGs revealed a very high correlation with age and were subsequently tested for differences between German and Japanese donors aged between 10 and 65 years (N = 287 and N = 83, respectively). ANCOVA was performed by testing the Japanese samples against age- and sex-matched German subsamples (N = 83 each; extracted 500 times from the German total sample). The median p values suggest a strong evidence for significant differences (p < 0.05) at least for two CpGs (EDARADD, CpG 2, and PDE4C, CpG 2) and no differences for 11 CpGs (p > 0.3).Age prediction models based on DNAm data from all 20 CpGs from German training data did not reveal relevant differences between the Japanese test samples and German subsamples. Obviously, the high number of included “robust CpGs” prevented relevant effects of differences in DNAm at two CpGs.Nevertheless, the presented data demonstrates the need for further research regarding the impact of confounding factors on DNAm in the context of ethnicity/ancestry to ensure a high quality of age estimation. One approach may be the search for “robust” CpG markers—which requires the targeted investigation of different populations, at best by collaborative research with coordinated research strategies.

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Section: Discussionmentioning

confidence: 99%

Evidence for differences in DNA methylation between Germans and Japanese

et al. 2021

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“…These models relied on different tissues (blood or other body fluids) and included fewer than a dozen markers using mainly pyrosequencing to several tens or hundreds of loci using methylation arrays [4][5][6]. A variety of different epigenetic models exploiting different DNA methylation technologies and different statistical methods for forensic age prediction have been developed to date [8,14,15,20,24,[50][51][52]. Among them, the most accurate provide prediction errors of 3-4 years, which are in line with those from eyewitness reports.…”

Section: Discussionmentioning

confidence: 75%

“…Results are reported as MAE, along with a graphical representation of the MAE and its confidence interval. Source: [8,15,16,[20][21][22][23][24][25].…”

Section: Elovl2 Methylation-based Prediction Modelsmentioning

confidence: 99%

An ELOVL2-Based Epigenetic Clock for Forensic Age Prediction: A Systematic Review

Paparazzo

Lagani

Geracitano

et al. 2023

IJMS

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The prediction of chronological age from methylation-based biomarkers represents one of the most promising applications in the field of forensic sciences. Age-prediction models developed so far are not easily applicable for forensic caseworkers. Among the several attempts to pursue this objective, the formulation of single-locus models might represent a good strategy. The present work aimed to develop an accurate single-locus model for age prediction exploiting ELOVL2, a gene for which epigenetic alterations are most highly correlated with age. We carried out a systematic review of different published pyrosequencing datasets in which methylation of the ELOVL2 promoter was analysed to formulate age prediction models. Nine of these, with available datasets involving 2298 participants, were selected. We found that irrespective of which model was adopted, a very strong relationship between ELOVL2 methylation levels and age exists. In particular, the model giving the best age-prediction accuracy was the gradient boosting regressor with a prediction error of about 5.5 years. The findings reported here strongly support the use of ELOVL2 for the formulation of a single-locus epigenetic model, but the inclusion of additional, non-redundant markers is a fundamental requirement to apply a molecular model to forensic applications with more robust results.

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“…These include pyrosequencing [59,60,74], massively parallel sequencing [75][76][77], and SNaPshot assays [78][79][80], with the majority using pyrosequencing. Different population groups were studied, including Chinese [59,81], Japanese [60], German [26,60], Thai [63], Spanish [64], Iraqi [82], Italian [83], and French [84]. A variety of body fluids were investigated, including peripheral blood [26,59,81,82,84], buccal mucosa [60,62], bone [76], teeth [64,85], fingernails, toenails [61], and even postmortem blood [63].…”

Section: Age Predictionmentioning

confidence: 99%

“…Different population groups were studied, including Chinese [59,81], Japanese [60], German [26,60], Thai [63], Spanish [64], Iraqi [82], Italian [83], and French [84]. A variety of body fluids were investigated, including peripheral blood [26,59,81,82,84], buccal mucosa [60,62], bone [76], teeth [64,85], fingernails, toenails [61], and even postmortem blood [63]. Table 1 summarizes some of the most recent papers (2019-2022) using pyrosequencing, including number of CpGs, genetic location, population, type of sample, mean average age deviation, and main findings.…”

Section: Age Predictionmentioning

confidence: 99%

Pyrosequencing: Current forensic methodology and future applications—a review

et al. 2022

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The recent development of small, single-amplicon-based benchtop systems for pyrosequencing has opened up a host of novel procedures for applications in forensic science. Pyrosequencing is a sequencing by synthesis technique, based on chemiluminescent inorganic pyrophosphate detection. This review explains the pyrosequencing workflow and illustrates the step-by-step chemistry, followed by a description of the assay design and factors to keep in mind for an exemplary assay. Existing and potential forensic applications are highlighted using this technology. Current applications include identifying species, identifying bodily fluids, and determining smoking status. We also review progress in potential applications for the future, including research on distinguishing monozygotic twins, detecting alcohol and drug abuse, and other phenotypic characteristics such as diet and body mass index. Overall, the versatility of the pyrosequencing technologies renders it a useful tool in forensic genomics.

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Age estimation by DNA methylation levels in Iraqi subjects

Cited by 10 publications

References 22 publications

Evidence for differences in DNA methylation between Germans and Japanese

Evidence for differences in DNA methylation between Germans and Japanese

An ELOVL2-Based Epigenetic Clock for Forensic Age Prediction: A Systematic Review

Pyrosequencing: Current forensic methodology and future applications—a review

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