Pharmacogenetics

Most enzymes look ordinary. One does not.

Star-allele calls from a microarray are a screen. CPIC guidelines are cited where the SNP is the actual decision variant. Do not change a prescription from this page — take the one-line card to a prescriber.

GeneCallPractical note
CYP2C19*1/*1Standard clopidogrel
CYP2C9*1/*1Standard warfarin metabolism
VKORC1−1639G/GHigher warfarin dose haplotype
SLCO1B1*1/*5Avoid high-dose simvastatin
CYP3A5*3/*3Non-expressor, typical European
TPMT / NUDT15common alleles WTStandard thiopurine start
DPYDcommon alleles WTStandard 5-FU start
HLA-B*5701tag negativeAbacavir tag clear
CYP1A2*1F/*1FFast caffeine
CYP2D6possible *3 hetConfirm before codeine/tamoxifen

SLCO1B1 · rs4149056 · C/T

Statin transporter *5 carrier

ActGuideline

One copy of SLCO1B1 c.521T>C. Higher myopathy risk on high-dose simvastatin.

CPIC and the FDA label treat this as decreased OATP1B1 function. Heterozygotes have several-fold higher risk of simvastatin-related muscle injury at 80 mg, and a smaller increase at 40 mg. Atorvastatin, pravastatin, rosuvastatin, and fluvastatin are preferred if a statin is indicated. This does not mean you cannot take a statin — it means the drug and dose should be chosen with this genotype in mind.

If a statin is ever prescribed, prefer non-simvastatin agents or keep simvastatin at a low dose. Mention this result to the prescriber.

CYP2C19 · rs4244285 / rs4986893 / rs12248560 · *1/*1

CYP2C19 normal metabolizer

FavorableGuideline

No *2, *3, or *17. Standard clopidogrel bioactivation and standard PPI exposure.

rs4244285 G/G (not *2), rs4986893 G/G (not *3), rs12248560 C/C (not *17). Clopidogrel should form its active metabolite normally. This is the genotype CPIC treats as standard dosing for clopidogrel, voriconazole, and most CYP2C19 substrates.

CYP2C9 + VKORC1 · rs1799853 / rs1057910 / rs9923231 · *1/*1 + −1639G/G

Warfarin: normal CYP2C9, higher-dose VKORC1

TypicalGuideline

No CYP2C9 *2 or *3. VKORC1 −1639 is G/G, the higher warfarin-dose haplotype.

rs9923231 C/C is the plus-strand equivalent of −1639G/G. Combined with CYP2C9 *1/*1 this is the typical European high-to-average dose cluster. Warfarin should still be INR-guided. The genotype mainly tells a prescriber not to start at a tiny dose.

CYP3A5 · rs776746 · C/C

CYP3A5 non-expressor (*3/*3)

TypicalGuideline

Typical European genotype. Standard-to-lower tacrolimus requirements if a transplant were ever needed.

The C allele is *3 (splicing defect). CC means no functional CYP3A5. Most Europeans are *3/*3. Expressors (*1) need higher tacrolimus doses. No action unless immunosuppressants enter the picture.

TPMT + NUDT15 · rs1142345 / rs1800460 / rs116855232 · normal / normal

Thiopurine enzymes look normal

FavorableGuideline

No common TPMT *2/*3 or NUDT15 *3 alleles. Standard azathioprine / 6-MP starting point.

CPIC still recommends considering a clinical TPMT/NUDT15 test before thiopurines because rare alleles and assay confirmation matter. The common risk SNPs on this chip are wild-type.

DPYD · rs3918290 / rs55886062 / rs67376798 · normal

No common DPYD deficiency alleles

FavorableGuideline

*2A, *13, and c.2846A>T are absent. Standard fluoropyrimidine starting point if cancer chemo were needed.

These three variants explain a large share of severe 5-FU / capecitabine toxicity. Absence is good news but not a complete DPYD sequence. Oncology teams still use their own protocols.

HLA-B · rs2395029 · T/T

HLA-B*5701 tag negative

FavorableGuideline

The HCP5 tag for abacavir hypersensitivity is absent.

rs2395029 G tags HLA-B*5701. T/T is the non-risk call. Abacavir is still tested in clinic before use; this is consistent with a negative screen.

CYP1A2 · rs762551 · A/A

Fast caffeine metabolizer

FavorableReplicated

*1F/*1F. Coffee is cleared quickly. The caffeine–heart-attack interaction seen in slow metabolizers is less relevant.

A/A at rs762551 is the inducible fast phenotype, especially in smokers and heavy coffee drinkers. Fast metabolizers generally tolerate afternoon coffee better and do not show the same coffee–MI association reported for slow (*1A) metabolizers. Sleep still depends on timing and dose.

UGT1A1 · rs887829 · C/T

Possible Gilbert-range bilirubin

TraitGuideline

One *80-linked allele. Can mean mildly higher unconjugated bilirubin; irinotecan caution is usually for *28/*28.

rs887829 T is in near-perfect LD with UGT1A1*28 in Europeans. Heterozygotes sometimes have slightly higher baseline bilirubin (Gilbert spectrum) and do not usually need irinotecan dose cuts. Mention it if a chemistry panel shows isolated high bilirubin.

CYP2D6 · rs5030655 · D/I

Possible CYP2D6 *3 carrier

WatchModerate

The *3 frameshift looks heterozygous. Microarrays cannot resolve CYP2D6 copy number, so this is a hint, not a star-allele call.

CYP2D6 metabolizes many antidepressants, atomoxetine, codeine, tamoxifen, and metoprolol. A single *3 would lean intermediate if the other allele is *1. Hybrid genes, deletions (*5), and duplications are invisible here. Do not change psychiatric or pain meds from this chip alone.

If a CYP2D6-sensitive drug is being started (codeine, tamoxifen, some SSRIs), a clinical PGx panel is the right test.

OPRM1 · rs1799971 · A/A

OPRM1 Asn118 — typical opioid receptor

TypicalModerate

No A118G. Standard mu-opioid binding in most studies.

118G (Asp) has been tied to altered alcohol reward and slightly higher opioid-dose needs. A/A is Asn/Asn, the common form.