CYP2B6 Q172H - GET-Evidence

Note: This variant has not been sufficiently evaluated by a GET-Evidence editor.

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Curation:
Currentness:

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CYP2B6 Q172H

(CYP2B6 Gln172His)


You are viewing an old version of this page that was saved on November 29, 2012 at 6:39am by Genome Importing Robot.

Short summary

 

Variant evidence
Computational -
Functional -
Case/Control -
Familial -
 
Clinical importance
Severity -
Treatability -
Penetrance -
 

Impact

Insufficiently evaluated pharmacogenetic

(The "insufficiently evaluated" qualifier is assigned automatically based on the above evidence and importance scores.)

Inheritance pattern

unknown

Summary of published research, and additional commentary

 

Allele frequency

  • T @ chr19:41512841: 29.2% (3138/10758) in EVS
  • T @ chr19:46204680: 31.2% (40/128) in GET-Evidence
  • Frequency shown in summary reports: 29.2% (3138/10758)

Publications
 

Rocha V, Porcher R, Fernandes JF, Filion A, Bittencourt H, Silva W Jr, Vilela G, Zanette DL, Ferry C, Larghero J, Devergie A, Ribaud P, Skvortsova Y, Tamouza R, Gluckman E, Socie G, Zago MA. Association of drug metabolism gene polymorphisms with toxicities, graft-versus-host disease and survival after HLA-identical sibling hematopoietic stem cell transplantation for patients with leukemia. Leukemia. 2009 Mar;23(3):545-56. Epub 2008 Nov 13. PubMed PMID: 19005482.

 

Genomes
 

hu034DB1 - CGI sample GS00253-DNA_A02_200_37
het T @ chr19:41512841

 

hu04FD18 - CGI sample GS00253-DNA_F01_200_37
het T @ chr19:41512841

 

hu0D879F - CGI sample GS00253-DNA_G01_200_37
het T @ chr19:41512841

 

hu0E64A1 - CGI sample GS01173-DNA_B02 from PGP sample 94378523
het T @ chr19:41512841

 

 

hu241DEA - CGI sample GS01175-DNA_D05 from PGP sample 1205491
hom T @ chr19:41512841

 

hu2D6140 - CGI sample GS01173-DNA_F06 from PGP sample 64191565
het T @ chr19:41512841

 

hu2DBF2D - CGI sample GS01173-DNA_G02 from PGP sample 67180598
het T @ chr19:41512841

 

 

hu342A08 - CGI sample GS01175-DNA_B05 from PGP sample 83494370
hom T @ chr19:41512841

 

 

hu3CAB43 - CGI sample GS01175-DNA_D03 from PGP sample 27486199
hom T @ chr19:41512841

 

hu4040B8 - CGI sample GS01175-DNA_D01 from PGP sample 31286272
het T @ chr19:41512841

 

hu4339C0 - CGI sample GS01175-DNA_H01 from PGP sample 94797469
het T @ chr19:41512841

 

hu43860C - CGI sample GS00253-DNA_A01_200_37
het T @ chr19:41512841

 

hu604D39 - CGI sample GS00253-DNA_B02_200_37
het T @ chr19:41512841

 

 

 

hu8229AE - CGI sample GS01173-DNA_A07 from PGP sample 96240009
het T @ chr19:41512841

 

hu9385BA - CGI sample GS00253-DNA_E01_200_37
het T @ chr19:41512841

 

huA0E089 - CGI sample GS01175-DNA_B04 from PGP sample 88590671
het T @ chr19:41512841

 

Added in this revision:

huAE4A11 - CGI sample GS01669-DNA_F02 from PGP sample 40767107
het T @ chr19:41512841

 

huBAAC98 - CGI sample GS01173-DNA_F02 from PGP sample 70008981
het T @ chr19:41512841

 

huC30901 - CGI sample GS00253-DNA_B01_200_37
het T @ chr19:41512841

 

huD81F3D - CGI sample GS01173-DNA_D06 from PGP sample 69488604
het T @ chr19:41512841

 

huE80E3D - CGI sample GS00253-DNA_D01_200_37
het T @ chr19:41512841

 

GS06985 - var-GS06985-1100-36-ASM
het T @ chr19:46204681

 

GS06994 - var-GS06994-1100-36-ASM
het T @ chr19:46204681

 

GS12004 - var-GS12004-1100-36-ASM
het T @ chr19:46204681

 

GS18502 - var-GS18502-1100-36-ASM
het T @ chr19:46204681

 

GS18508 - var-GS18508-1100-36-ASM
het T @ chr19:46204681

 

GS18537 - var-GS18537-1100-36-ASM
het T @ chr19:46204681

 

GS18558 - var-GS18558-1100-36-ASM
hom T @ chr19:46204681

 

GS19017 - var-GS19017-1100-36-ASM
hom T @ chr19:46204681

 

GS19026 - var-GS19026-1100-36-ASM
het T @ chr19:46204681

 

GS19129 - var-GS19129-1100-36-ASM
het T @ chr19:46204681

 

GS19238 - var-GS19238-1100-36-ASM
het T @ chr19:46204681

 

GS19239 - var-GS19239-1100-36-ASM
het T @ chr19:46204681

 

GS19649 - var-GS19649-1100-36-ASM
het T @ chr19:46204681

 

GS19700 - var-GS19700-1100-36-ASM
het T @ chr19:46204681

 

GS19701 - var-GS19701-1100-36-ASM
het T @ chr19:46204681

 

GS19703 - var-GS19703-1100-36-ASM
het T @ chr19:46204681

 

GS19735 - var-GS19735-1100-36-ASM
hom T @ chr19:46204681

 

GS19834 - var-GS19834-1100-36-ASM
hom T @ chr19:46204681

 

GS20509 - var-GS20509-1100-36-ASM
het T @ chr19:46204681

 

GS21767 - var-GS21767-1100-36-ASM
het T @ chr19:46204681

 

Other external references
 

    dbSNP
  • rs3745274
    www.ncbi.nlm.nih.gov/projects/SNP/snp_ref.cgi
    PharmGKB
  • [HIV Infections]
    [efavirenz]
    This variant in exon 4 together with K262R in exon 5 are the determining SNP of the *6 allele. *6 occurs with high frequency across different populations. A study in human liver microsomes found the CYP2B6*6 allele was significantly associated with a pronounced decrease in CYP2B6 expression and activity, as well as a low rate of efavirenz 8-hydroxylation. In a study in HIV-1 patients treated with efavirenz, the mean plasma efavirenz concentration of patients with CYP2B6 *6/*6 was significantly higher than that of patients with genotypes *6 heterozygote or without alleles *6. In vitro expression studies found the 516G>T variant as the causal sequence variation for severely decreased expression and function associated with CYP2B6*6.
    www.ncbi.nlm.nih.gov/pubmed/15194512; PubMed ID:17559344; PubMed ID:17638512; PubM
  • [efavirenz; nevirapine]
    CYP2B6:516G>T is part of the CYP2B6 haplotype. It has been associated with lower activity and response to NNRTIs. See VIP annotation for more details.
    www.pharmgkb.org/search/annotatedGene/cyp2b6
  • [Drug Toxicity]
    [cyclophosphamide]
    Risk or phenotype-associated allele: T. Phenotype: CYP2B6*6 genotype of the transplant donor was associated with toxicity and venoocclusive disease of the liver in the recipient. Study size:107 . Study population/ethnicity: Donors and patients with leukemia after HLA-identical hematopoietic stem cell transplantation, France. Significance metric(s): p = 0.03. Type of association: TOX
    www.ncbi.nlm.nih.gov/pubmed/19005482
    PolyPhen-2
  • Score: 0.009 (benign)

Other in silico analyses
 

  • NBLOSUM100 score = –1
  • GET-Evidence autoscore = 1

Edit history
 

Gene search

"GENE" or "GENE A123C":

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