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Pereira S, Carmi S, Altarescu G, Austin J, Barlevy D, Hershlag A, Juengst E, Kostick-Quenet K, Kovanci E, Lathi RB, Mukherjee M, Van den Veyver I, Zuk O, Lázaro-Muñoz G, Lencz T. Polygenic embryo screening: four clinical considerations warrant further attention. Hum Reprod 2022; 37:1375-1378. [PMID: 35604365 PMCID: PMC9247413 DOI: 10.1093/humrep/deac110] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/12/2022] [Revised: 04/28/2022] [Indexed: 10/25/2023] Open
Abstract
Recent advances in developing polygenic scores have made it possible to screen embryos for common, complex conditions and traits. Polygenic embryo screening (PES) is currently offered commercially, and though there has been much recent media and academic coverage, reproductive specialists' points of view have not yet been prominent in these discussions. We convened a roundtable of multidisciplinary experts, including reproductive specialists to discuss PES and its implications. In this Opinion, we describe four clinically relevant issues associated with the use of PES that have not yet been discussed in the literature and warrant consideration.
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Affiliation(s)
- S Pereira
- Center for Medical Ethics and Health Policy, Baylor College of Medicine, One Baylor Plaza, MS420, Houston, TX 77030, USA
| | - S Carmi
- Braun School of Public Health and Community Medicine, The Hebrew University of Jerusalem, Jerusalem, Israel
| | - G Altarescu
- Preimplantation Genetic Unit and lysosomal Clinic, Medical Genetics Institute, Shaare Zedek Medical Center, Hebrew University, Jerusalem, Israel
| | - J Austin
- Departments of Psychiatry and Medical Genetics, University of British Columbia, Vancouver, BC, Canada
| | - D Barlevy
- Center for Medical Ethics and Health Policy, Baylor College of Medicine, One Baylor Plaza, MS420, Houston, TX 77030, USA
| | - A Hershlag
- Renaissance School of Medicine, Stony Brook University, Stony Brook, NY, USA
- Zucker School of Medicine, Hofstra University, Hempstead, NY, USA
| | - E Juengst
- Center for Bioethics, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
| | - K Kostick-Quenet
- Center for Medical Ethics and Health Policy, Baylor College of Medicine, One Baylor Plaza, MS420, Houston, TX 77030, USA
| | - E Kovanci
- Houston Assisted Reproductive Technologies (HART) Fertility Clinic, The Woodlands, TX, USA
| | - R B Lathi
- Stanford University, Stanford, CA, USA
| | - M Mukherjee
- Center for Medical Ethics and Health Policy, Baylor College of Medicine, One Baylor Plaza, MS420, Houston, TX 77030, USA
- Department of Sociology, University of Califorinia, Berkeley, Berkeley, CA 94720 USA
| | - I Van den Veyver
- Department of Obstetrics and Gynecology, Baylor College of Medicine, Houston, TX, 77030, USA
- Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX, 77030, USA
| | - O Zuk
- Department of Statistics and Data Science, The Hebrew University of Jerusalem, Jerusalem, Israel
| | - G Lázaro-Muñoz
- Center for Bioethics, Harvard Medical School, Boston, MA, USA
- Department of Psychiatry, Massachusetts General Hospital, Boston, MA, USA
| | - T Lencz
- Departments of Psychiatry and Molecular Medicine, Zucker School of Medicine at Hofstra/Northwell, Hempstead, NY, USA
- Institute of Behavioral Science, Feinstein Institutes for Medical Research, Manhasset, NY, USA
- Division of Psychiatry Research, Zucker Hillside Hospital, Glen Oaks, NY, USA
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Tsafrir D, Tsafrir I, Ein-Dor L, Zuk O, Notterman DA, Domany E. Sorting points into neighborhoods (SPIN): data analysis and visualization by ordering distance matrices. Bioinformatics 2005; 21:2301-8. [PMID: 15722375 DOI: 10.1093/bioinformatics/bti329] [Citation(s) in RCA: 111] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
Abstract
SUMMARY We introduce a novel unsupervised approach for the organization and visualization of multidimensional data. At the heart of the method is a presentation of the full pairwise distance matrix of the data points, viewed in pseudocolor. The ordering of points is iteratively permuted in search of a linear ordering, which can be used to study embedded shapes. Several examples indicate how the shapes of certain structures in the data (elongated, circular and compact) manifest themselves visually in our permuted distance matrix. It is important to identify the elongated objects since they are often associated with a set of hidden variables, underlying continuous variation in the data. The problem of determining an optimal linear ordering is shown to be NP-Complete, and therefore an iterative search algorithm with O(n3) step-complexity is suggested. By using sorting points into neighborhoods, i.e. SPIN to analyze colon cancer expression data we were able to address the serious problem of sample heterogeneity, which hinders identification of metastasis related genes in our data. Our methodology brings to light the continuous variation of heterogeneity--starting with homogeneous tumor samples and gradually increasing the amount of another tissue. Ordering the samples according to their degree of contamination by unrelated tissue allows the separation of genes associated with irrelevant contamination from those related to cancer progression. AVAILABILITY Software package will be available for academic users upon request.
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Affiliation(s)
- D Tsafrir
- Department of Complex Systems, Weizmann Institute of Science, Rehovot 76100, Israel.
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