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      Pharmacogenes that demonstrate high association evidence according to CPIC, DPWG, and PharmGKB

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          Abstract

          Background

          Different levels of evidence related to the variable responses of individuals to drug treatment have been reported in various pharmacogenomic (PGx) databases. Identification of gene-drug pairs with strong association evidence can be helpful in prioritizing the implementation of PGx guidelines and focusing on a gene panel. This study aimed to determine the pharmacogenes with the highest evidence-based association and to indicate their involvement in drug-gene interactions.

          Methodology

          The publicly available datasets CPIC, DPWG, and PharmGKB were selected to determine the pharmacogenes with the highest drug outcome associations. The upper two levels of evidence rated by the three scoring methods were specified (levels A–B in CPIC, 3–4 in DPWG, or 1–2 levels in PharmGKB). The identified pharmacogenes were further ranked in this study based on the number of medications they interacted with.

          Results

          Fifty pharmacogenes, with high to moderately high evidence of associations with drug response alterations, with potential influence on the therapeutic and/or toxicity outcomes of 152 drugs were identified. CYP2D6, CYP2C9, CYP2C19, G6PD, HLA-B, SLCO1B1, CACNA1S, RYR1, MT-RNR1, and IFNL4 are the top 10 pharmacogenes, where each is predicted to impact patients' responses to ≥5 drugs.

          Conclusion

          This study identified the most important pharmacogenes based on the highest-ranked association evidence and their frequency of involvement in affecting multiple drugs. The obtained data is useful for customizing a gene panel for PGx testing. Identifying the strength of scientific evidence supporting drug-gene interactions aids drug prescribers in making the best clinical decision.

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          Most cited references73

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          Pharmacogenomics knowledge for personalized medicine.

          The Pharmacogenomics Knowledgebase (PharmGKB) is a resource that collects, curates, and disseminates information about the impact of human genetic variation on drug responses. It provides clinically relevant information, including dosing guidelines, annotated drug labels, and potentially actionable gene-drug associations and genotype-phenotype relationships. Curators assign levels of evidence to variant-drug associations using well-defined criteria based on careful literature review. Thus, PharmGKB is a useful source of high-quality information supporting personalized medicine-implementation projects.
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            CPIC: Clinical Pharmacogenetics Implementation Consortium of the Pharmacogenomics Research Network.

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              Pharmacogenetics: from bench to byte--an update of guidelines.

              Currently, there are very few guidelines linking the results of pharmacogenetic tests to specific therapeutic recommendations. Therefore, the Royal Dutch Association for the Advancement of Pharmacy established the Pharmacogenetics Working Group with the objective of developing pharmacogenetics-based therapeutic (dose) recommendations. After systematic review of the literature, recommendations were developed for 53 drugs associated with genes coding for CYP2D6, CYP2C19, CYP2C9, thiopurine-S-methyltransferase (TPMT), dihydropyrimidine dehydrogenase (DPD), vitamin K epoxide reductase (VKORC1), uridine diphosphate glucuronosyltransferase 1A1 (UGT1A1), HLA-B44, HLA-B*5701, CYP3A5, and factor V Leiden (FVL).
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                Author and article information

                Contributors
                Journal
                Front Med (Lausanne)
                Front Med (Lausanne)
                Front. Med.
                Frontiers in Medicine
                Frontiers Media S.A.
                2296-858X
                25 October 2022
                2022
                : 9
                : 1001876
                Affiliations
                [1] 1Population Health Research Section, King Abdullah International Medical Research Center , Riyadh, Saudi Arabia
                [2] 2King Saud Bin Abdulaziz University for Health Sciences, Ministry of National Guard Health Affairs (MNGHA) , Riyadh, Saudi Arabia
                [3] 3Interdisciplinary Nanotechnology Centre, Aligarh Muslim University , Aligarh, India
                [4] 4Department of Pharmacy, Qatif Central Hospital , Qatif, Saudi Arabia
                Author notes

                Edited by: Ahmed Waqas, University of Education Lahore, Pakistan

                Reviewed by: Liang Chen, University of Science and Technology of China, China; Christian Tagwerker, Quest Diagnostics, United States

                *Correspondence: Mohammad A. Alshabeeb shabeebonline@ 123456hotmail.com

                This article was submitted to Translational Medicine, a section of the journal Frontiers in Medicine

                Article
                10.3389/fmed.2022.1001876
                9640910
                ec014cf4-d31c-47fc-95a3-b2b65b2e9cb9
                Copyright © 2022 Alshabeeb, Alyabsi, Aziz and Abohelaika.

                This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

                History
                : 24 July 2022
                : 22 September 2022
                Page count
                Figures: 1, Tables: 3, Equations: 0, References: 74, Pages: 12, Words: 7916
                Categories
                Medicine
                Original Research

                pharmacogenes,cpic,dpwg,pharmgkb,evidence levels,gene panel,genetic testing

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