PMID- 34834582
OWN - NLM
STAT- PubMed-not-MEDLINE
LR  - 20240404
IS  - 2075-4426 (Print)
IS  - 2075-4426 (Electronic)
IS  - 2075-4426 (Linking)
VI  - 11
IP  - 11
DP  - 2021 Nov 19
TI  - PharmVIP: A Web-Based Tool for Pharmacogenomic Variant Analysis and 
      Interpretation.
LID - 10.3390/jpm11111230 [doi]
LID - 1230
AB  - The increasing availability of next generation sequencing (NGS) for personal 
      genomics could promote pharmacogenomics (PGx) discovery and application. However, 
      current tools for analysis and interpretation of pharmacogenomic variants from 
      NGS data are inadequate, as none offer comprehensive analytic functions in a 
      simple, web-based platform. In addition, no tools exist to analyze human 
      leukocyte antigen (HLA) genes for determining potential risks of immune-mediated 
      adverse drug reaction (IM-ADR). We describe PharmVIP, a web-based PGx tool, for 
      one-stop comprehensive analysis and interpretation of genome-wide variants 
      obtained from NGS platforms. PharmVIP comprises three main interpretation modules 
      covering analyses of pharmacogenes involved in pharmacokinetics, pharmacodynamics 
      and IM-ADR. The Guideline module provides Clinical Pharmacogenetics 
      Implementation Consortium (CPIC) drug guideline recommendations based on the 
      translation of genotypic data in genes having guidelines. The HLA module reports 
      HLA genotypes, potential adverse drug reactions, and the relevant drug 
      guidelines. The Pharmacogenes module is employed for prioritizing variants 
      according to variant effect on gene function. Detailed, customizable reports are 
      provided as exportable files and as an interactive web version. PharmVIP is a new 
      integrated NGS workflow for the PGx community to facilitate discovery and 
      clinical application.
FAU - Piriyapongsa, Jittima
AU  - Piriyapongsa J
AUID- ORCID: 0000-0003-3313-4286
AD  - National Biobank of Thailand, National Science and Technology Development Agency, 
      Klong Luang, Pathum Thani 12120, Thailand.
FAU - Sukritha, Chanathip
AU  - Sukritha C
AD  - National Biobank of Thailand, National Science and Technology Development Agency, 
      Klong Luang, Pathum Thani 12120, Thailand.
FAU - Kaewprommal, Pavita
AU  - Kaewprommal P
AUID- ORCID: 0000-0001-7760-3158
AD  - National Biobank of Thailand, National Science and Technology Development Agency, 
      Klong Luang, Pathum Thani 12120, Thailand.
FAU - Intarat, Chalermpong
AU  - Intarat C
AD  - National Biobank of Thailand, National Science and Technology Development Agency, 
      Klong Luang, Pathum Thani 12120, Thailand.
FAU - Triparn, Kwankom
AU  - Triparn K
AD  - National Biobank of Thailand, National Science and Technology Development Agency, 
      Klong Luang, Pathum Thani 12120, Thailand.
FAU - Phornsiricharoenphant, Krittin
AU  - Phornsiricharoenphant K
AD  - National Biobank of Thailand, National Science and Technology Development Agency, 
      Klong Luang, Pathum Thani 12120, Thailand.
FAU - Chaosrikul, Chadapohn
AU  - Chaosrikul C
AD  - National Biobank of Thailand, National Science and Technology Development Agency, 
      Klong Luang, Pathum Thani 12120, Thailand.
FAU - Shaw, Philip J
AU  - Shaw PJ
AUID- ORCID: 0000-0003-3913-3057
AD  - National Center for Genetic Engineering and Biotechnology, National Science and 
      Technology Development Agency, Klong Luang, Pathum Thani 12120, Thailand.
FAU - Chantratita, Wasun
AU  - Chantratita W
AD  - Center for Medical Genomics, Faculty of Medicine Ramathibodi Hospital, Mahidol 
      University, Phayathai, Bangkok 10400, Thailand.
FAU - Mahasirimongkol, Surakameth
AU  - Mahasirimongkol S
AD  - Division of Genomic Medicine and Innovation Support, Department of Medical 
      Sciences, Ministry of Public Health, Nonthaburi 11000, Thailand.
FAU - Tongsima, Sissades
AU  - Tongsima S
AD  - National Biobank of Thailand, National Science and Technology Development Agency, 
      Klong Luang, Pathum Thani 12120, Thailand.
LA  - eng
GR  - HSRI.64-104/the Health Systems Research Institute (HSRI), Thailand/
GR  - P-19-51269/the National Science and Technology Development Agency (NSTDA), 
      Thailand/
PT  - Journal Article
DEP - 20211119
PL  - Switzerland
TA  - J Pers Med
JT  - Journal of personalized medicine
JID - 101602269
PMC - PMC8618518
OTO - NOTNLM
OT  - CPIC dosing recommendation
OT  - HLA
OT  - adverse drug reaction
OT  - allele prediction
OT  - bioinformatics
OT  - next-generation sequencing
OT  - pharmacogenomics
OT  - variant analysis
OT  - variant effect prediction
OT  - web-based-tool
COIS- The authors declare no conflict of interest. The funders had no role in the 
      design of the study; in the collection, analyses, or interpretation of data; in 
      the writing of the manuscript, or in the decision to publish the results.
EDAT- 2021/11/28 06:00
MHDA- 2021/11/28 06:01
PMCR- 2021/11/19
CRDT- 2021/11/27 01:25
PHST- 2021/08/17 00:00 [received]
PHST- 2021/10/17 00:00 [revised]
PHST- 2021/11/16 00:00 [accepted]
PHST- 2021/11/27 01:25 [entrez]
PHST- 2021/11/28 06:00 [pubmed]
PHST- 2021/11/28 06:01 [medline]
PHST- 2021/11/19 00:00 [pmc-release]
AID - jpm11111230 [pii]
AID - jpm-11-01230 [pii]
AID - 10.3390/jpm11111230 [doi]
PST - epublish
SO  - J Pers Med. 2021 Nov 19;11(11):1230. doi: 10.3390/jpm11111230.