Targeted gene expression profiling for accurate endometrial receptivity testing
Abstract Expressional profiling of the endometrium enables the personalised timing of the window of implantation (WOI). This study presents and evaluates a novel analytical pipeline based on a TAC-seq (Targeted Allele Counting by sequencing) method for endometrial dating. The expressional profiles w...
| Main Authors: | , , , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
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Nature Portfolio
2023-08-01
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| Series: | Scientific Reports |
| Online Access: | https://doi.org/10.1038/s41598-023-40991-z |
| _version_ | 1797560114272534528 |
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| author | Alvin Meltsov Merli Saare Hindrek Teder Priit Paluoja Riikka K. Arffman Terhi Piltonen Piotr Laudanski Mirosław Wielgoś Luca Gianaroli Mariann Koel Maire Peters Andres Salumets Kaarel Krjutškov Priit Palta |
| author_facet | Alvin Meltsov Merli Saare Hindrek Teder Priit Paluoja Riikka K. Arffman Terhi Piltonen Piotr Laudanski Mirosław Wielgoś Luca Gianaroli Mariann Koel Maire Peters Andres Salumets Kaarel Krjutškov Priit Palta |
| author_sort | Alvin Meltsov |
| collection | DOAJ |
| description | Abstract Expressional profiling of the endometrium enables the personalised timing of the window of implantation (WOI). This study presents and evaluates a novel analytical pipeline based on a TAC-seq (Targeted Allele Counting by sequencing) method for endometrial dating. The expressional profiles were clustered, and differential expression analysis was performed on the model development group, using 63 endometrial biopsies spanning over proliferative (PE, n = 18), early-secretory (ESE, n = 18), mid-secretory (MSE, n = 17) and late-secretory (LSE, n = 10) endometrial phases of the natural cycle. A quantitative predictor model was trained on the development group and validated on sequenced samples from healthy women, consisting of 52 paired samples taken from ESE and MSE phases and five LSE phase samples from 31 individuals. Finally, the developed test was applied to 44 MSE phase samples from a study group of patients diagnosed with recurrent implantation failure (RIF). In validation samples (n = 57), we detected displaced WOI in 1.8% of the samples from fertile women. In the RIF study group, we detected a significantly higher proportion of the samples with shifted WOI than in the validation set of samples from fertile women, 15.9% and 1.8% (p = 0.012), respectively. The developed model was evaluated with an average cross-validation accuracy of 98.8% and an accuracy of 98.2% in the validation group. The developed beREADY screening model enables sensitive and dynamic detection of selected transcriptome biomarkers, providing a quantitative and accurate prediction of endometrial receptivity status. |
| first_indexed | 2024-03-10T17:54:51Z |
| format | Article |
| id | doaj.art-5fb92c738fde4f878dd96a1928826e5a |
| institution | Directory Open Access Journal |
| issn | 2045-2322 |
| language | English |
| last_indexed | 2024-03-10T17:54:51Z |
| publishDate | 2023-08-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Scientific Reports |
| spelling | doaj.art-5fb92c738fde4f878dd96a1928826e5a2023-11-20T09:12:57ZengNature PortfolioScientific Reports2045-23222023-08-0113111210.1038/s41598-023-40991-zTargeted gene expression profiling for accurate endometrial receptivity testingAlvin Meltsov0Merli Saare1Hindrek Teder2Priit Paluoja3Riikka K. Arffman4Terhi Piltonen5Piotr Laudanski6Mirosław Wielgoś7Luca Gianaroli8Mariann Koel9Maire Peters10Andres Salumets11Kaarel Krjutškov12Priit Palta13Competence Centre On Health TechnologiesCompetence Centre On Health TechnologiesCompetence Centre On Health TechnologiesCompetence Centre On Health TechnologiesDepartment of Obstetrics and Gynecology, PEDEGO Research Unit, Medical Research Center, Oulu University Hospital, University of OuluDepartment of Obstetrics and Gynecology, PEDEGO Research Unit, Medical Research Center, Oulu University Hospital, University of OuluOviklinika Infertility CenterMedical Faculty, Lazarski UniversitySISMeR, Reproductive Medicine InstituteInstitute of Genomics, University of TartuCompetence Centre On Health TechnologiesCompetence Centre On Health TechnologiesCompetence Centre On Health TechnologiesCompetence Centre On Health TechnologiesAbstract Expressional profiling of the endometrium enables the personalised timing of the window of implantation (WOI). This study presents and evaluates a novel analytical pipeline based on a TAC-seq (Targeted Allele Counting by sequencing) method for endometrial dating. The expressional profiles were clustered, and differential expression analysis was performed on the model development group, using 63 endometrial biopsies spanning over proliferative (PE, n = 18), early-secretory (ESE, n = 18), mid-secretory (MSE, n = 17) and late-secretory (LSE, n = 10) endometrial phases of the natural cycle. A quantitative predictor model was trained on the development group and validated on sequenced samples from healthy women, consisting of 52 paired samples taken from ESE and MSE phases and five LSE phase samples from 31 individuals. Finally, the developed test was applied to 44 MSE phase samples from a study group of patients diagnosed with recurrent implantation failure (RIF). In validation samples (n = 57), we detected displaced WOI in 1.8% of the samples from fertile women. In the RIF study group, we detected a significantly higher proportion of the samples with shifted WOI than in the validation set of samples from fertile women, 15.9% and 1.8% (p = 0.012), respectively. The developed model was evaluated with an average cross-validation accuracy of 98.8% and an accuracy of 98.2% in the validation group. The developed beREADY screening model enables sensitive and dynamic detection of selected transcriptome biomarkers, providing a quantitative and accurate prediction of endometrial receptivity status.https://doi.org/10.1038/s41598-023-40991-z |
| spellingShingle | Alvin Meltsov Merli Saare Hindrek Teder Priit Paluoja Riikka K. Arffman Terhi Piltonen Piotr Laudanski Mirosław Wielgoś Luca Gianaroli Mariann Koel Maire Peters Andres Salumets Kaarel Krjutškov Priit Palta Targeted gene expression profiling for accurate endometrial receptivity testing Scientific Reports |
| title | Targeted gene expression profiling for accurate endometrial receptivity testing |
| title_full | Targeted gene expression profiling for accurate endometrial receptivity testing |
| title_fullStr | Targeted gene expression profiling for accurate endometrial receptivity testing |
| title_full_unstemmed | Targeted gene expression profiling for accurate endometrial receptivity testing |
| title_short | Targeted gene expression profiling for accurate endometrial receptivity testing |
| title_sort | targeted gene expression profiling for accurate endometrial receptivity testing |
| url | https://doi.org/10.1038/s41598-023-40991-z |
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