Databases in the Area of Pharmacogenetics

Overview

Journal Hum Mutat

Specialty Genetics

Date 2011 Feb 11

PMID 21309040

Citations 19

Authors

Sarah C Sim

Russ B Altman

Magnus Ingelman-Sundberg

Affiliations

Soon will be listed here.

Abstract

In the area of pharmacogenetics and personalized health care it is obvious that databases, providing important information of the occurrence and consequences of variant genes encoding drug metabolizing enzymes, drug transporters, drug targets, and other proteins of importance for drug response or toxicity, are of critical value for scientists, physicians, and industry. The primary outcome of the pharmacogenomic field is the identification of biomarkers that can predict drug toxicity and drug response, thereby individualizing and improving drug treatment of patients. The drug in question and the polymorphic gene exerting the impact are the main issues to be searched for in the databases. Here, we review the databases that provide useful information in this respect, of benefit for the development of the pharmacogenomic field.

Citing Articles

Development and application of a computable genotype model in the GA4GH Variation Representation Specification.

Goar W, Babb L, Chamala S, Cline M, Freimuth R, Hart R Pac Symp Biocomput. 2022; 28:383-394.

PMID: 36540993 PMC: 9782714.

Joint Analysis of Phenotypic and Genomic Diversity Sheds Light on the Evolution of Xenobiotic Metabolism in Humans.

Mouterde M, Daali Y, Rollason V, cizkova M, Mulugeta A, Al Balushi K Genome Biol Evol. 2022; 14(12).

PMID: 36445690 PMC: 9750130. DOI: 10.1093/gbe/evac167.

Genetic Variation among Pharmacogenes in the Sardinian Population.

Idda M, Zoledziewska M, Urru S, McInnes G, Bilotta A, Nuvoli V Int J Mol Sci. 2022; 23(17).

PMID: 36077453 PMC: 9456055. DOI: 10.3390/ijms231710058.

Efficacy of computational predictions of the functional effect of idiosyncratic pharmacogenetic variants.

McConnell H, Andrews T, Field M PeerJ. 2021; 9:e11774.

PMID: 34316407 PMC: 8286708. DOI: 10.7717/peerj.11774.

Prevalence of five pharmacologically most important and allelic variants in the population from the Republic of Srpska in Bosnia and Herzegovina.

Vidovic S, Skrbic R, Stojiljkovic M, Vidovic V, Becarevic J, Stoisavljevic-Satara S Arh Hig Rada Toksikol. 2021; 72(3):129-134.

PMID: 34187105 PMC: 8265196. DOI: 10.2478/aiht-2021-72-3499.

References

Eichelbaum M, Ingelman-Sundberg M, Evans W . Pharmacogenomics and individualized drug therapy. Annu Rev Med. 2006; 57:119-37. DOI: 10.1146/annurev.med.56.082103.104724. View

Mackenzie P, Bock K, Burchell B, Guillemette C, Ikushiro S, Iyanagi T . Nomenclature update for the mammalian UDP glycosyltransferase (UGT) gene superfamily. Pharmacogenet Genomics. 2005; 15(10):677-85. DOI: 10.1097/01.fpc.0000173483.13689.56. View

Sim S, Ingelman-Sundberg M . The Human Cytochrome P450 (CYP) Allele Nomenclature website: a peer-reviewed database of CYP variants and their associated effects. Hum Genomics. 2010; 4(4):278-81. PMC: 3525213. DOI: 10.1186/1479-7364-4-4-278. View

Ozawa N, Shimizu T, Morita R, Yokono Y, Ochiai T, Munesada K . Transporter database, TP-Search: a web-accessible comprehensive database for research in pharmacokinetics of drugs. Pharm Res. 2004; 21(11):2133-4. DOI: 10.1023/b:pham.0000048207.11160.d0. View

Davies E, Green C, Taylor S, Williamson P, Mottram D, Pirmohamed M . Adverse drug reactions in hospital in-patients: a prospective analysis of 3695 patient-episodes. PLoS One. 2009; 4(2):e4439. PMC: 2635959. DOI: 10.1371/journal.pone.0004439. View

Garten Y, Altman R . Teaching computers to read the pharmacogenomics literature ... so you don't have to. Pharmacogenomics. 2010; 11(4):515-8. PMC: 3478760. DOI: 10.2217/pgs.10.48. View

Klein T, Altman R, Eriksson N, Gage B, Kimmel S, Lee M . Estimation of the warfarin dose with clinical and pharmacogenetic data. N Engl J Med. 2009; 360(8):753-64. PMC: 2722908. DOI: 10.1056/NEJMoa0809329. View

Hein D, Boukouvala S, Grant D, Minchin R, Sim E . Changes in consensus arylamine N-acetyltransferase gene nomenclature. Pharmacogenet Genomics. 2008; 18(4):367-8. PMC: 2386960. DOI: 10.1097/FPC.0b013e3282f60db0. View

Weinshilboum R . Inheritance and drug response. N Engl J Med. 2003; 348(6):529-37. DOI: 10.1056/NEJMra020021. View

10.

Moore T, Cohen M, Furberg C . Serious adverse drug events reported to the Food and Drug Administration, 1998-2005. Arch Intern Med. 2007; 167(16):1752-9. DOI: 10.1001/archinte.167.16.1752. View

11.

Garten Y, Altman R . Pharmspresso: a text mining tool for extraction of pharmacogenomic concepts and relationships from full text. BMC Bioinformatics. 2009; 10 Suppl 2:S6. PMC: 2646239. DOI: 10.1186/1471-2105-10-S2-S6. View

12.

Davies E, Green C, Mottram D, Rowe P, Pirmohamed M . Emergency re-admissions to hospital due to adverse drug reactions within 1 year of the index admission. Br J Clin Pharmacol. 2010; 70(5):749-55. PMC: 2997315. DOI: 10.1111/j.1365-2125.2010.03751.x. View

13.

Bertz R, Granneman G . Use of in vitro and in vivo data to estimate the likelihood of metabolic pharmacokinetic interactions. Clin Pharmacokinet. 1997; 32(3):210-58. DOI: 10.2165/00003088-199732030-00004. View

14.

Sim S, Miller W, Zhong X, Arlt W, Ogata T, Ding X . Nomenclature for alleles of the cytochrome P450 oxidoreductase gene. Pharmacogenet Genomics. 2009; 19(7):565-6. PMC: 2753199. DOI: 10.1097/FPC.0b013e32832af5b7. View

15.

Sim E, Lack N, Wang C, Long H, Westwood I, Fullam E . Arylamine N-acetyltransferases: structural and functional implications of polymorphisms. Toxicology. 2008; 254(3):170-83. DOI: 10.1016/j.tox.2008.08.022. View

16.

Hansen N, Brunak S, Altman R . Generating genome-scale candidate gene lists for pharmacogenomics. Clin Pharmacol Ther. 2009; 86(2):183-9. PMC: 2729176. DOI: 10.1038/clpt.2009.42. View

17.

Vatsis K, Weber W, Bell D, Dupret J, Evans D, Grant D . Nomenclature for N-acetyltransferases. Pharmacogenetics. 1995; 5(1):1-17. DOI: 10.1097/00008571-199502000-00001. View

18.

Coulet A, Shah N, Garten Y, Musen M, Altman R . Using text to build semantic networks for pharmacogenomics. J Biomed Inform. 2010; 43(6):1009-19. PMC: 2991587. DOI: 10.1016/j.jbi.2010.08.005. View

19.

Ingelman-Sundberg M . Pharmacogenetics of cytochrome P450 and its applications in drug therapy: the past, present and future. Trends Pharmacol Sci. 2004; 25(4):193-200. DOI: 10.1016/j.tips.2004.02.007. View

20.

Kirchheiner J, Nickchen K, Bauer M, Wong M, Licinio J, Roots I . Pharmacogenetics of antidepressants and antipsychotics: the contribution of allelic variations to the phenotype of drug response. Mol Psychiatry. 2004; 9(5):442-73. DOI: 10.1038/sj.mp.4001494. View