Abstract
Drug-induced liver injury (DILI) is complicated and difficult to predict. It has been observed that drugs with extensive hepatic metabolism have a higher likelihood of causing DILI. Cytochrome P450 (P450) enzymes are primarily involved in hepatic metabolism. Identifying the associations of DILI with drugs that are P450 substrates, inhibitors, or inducers will be extremely helpful to clinicians during the decision-making process of caring for a patient suspected of having DILI. We collected metabolism data on P450 enzymes for 254 orally administered drugs in the Liver Toxicity Knowledge Base Benchmark Dataset with a known daily dose, and applied logistic regression to identify these associations. We revealed that drugs that are substrates of P450 enzymes have a higher likelihood of causing DILI [odds ratio (OR), 3.99; 95% confidence interval (95% CI), 2.07–7.67; P < 0.0001], which is dose-independent, and drugs that are P450 inhibitors have a higher likelihood of generating DILI only when they are administered at high daily doses (OR, 6.03; 95% CI, 1.32–27.5; P = 0.0098). However, drugs that are P450 inducers are not observed to be associated with DILI (OR, 1.55; 95% CI, 0.65–3.68; P = 0.3246). Our findings will be useful in identifying the suspected medication as a cause of liver injury in clinical settings.
Introduction
Drug-induced liver injury (DILI) is one of the most frequent adverse reactions that causes the withdrawal of an approved drug from the market (Chen et al., 2013b). Currently, more than 50% of cases of acute liver failure in the United States are attributed to DILI (Lee et al., 2008). Although DILI is complicated and difficult to predict because of its complex etiology, some simple rules can be followed to identify drugs associated with an increased risk of liver injury. For example, the Rule of Two (RO2), based on a combination of high daily dose (≥100 mg) and high lipophilicity (logP ≥3), was recently proposed for the identification of drugs with an increased risk of DILI (Chen et al., 2013a). RO2 is an effective tool in preclinical application and will be particularly helpful for drug screening. However, use of RO2 in the clinical setting is limited. This is largely due to the fact that RO2 only focuses on the drug properties, without taking into account the effects of the liver on the drug (i.e., hepatic metabolism).
The highest concentration of drugs and metabolites after oral administration is usually exposed by the liver (Jaeschke et al., 2002). Most hepatotoxic drugs are metabolized by cytochrome P450 (P450) enzymes (U.S. Food and Drug Administration, 2009), which are primarily involved in the generation of reactive metabolites (Williams et al., 2004). The covalent binding of reactive metabolites to hepatic proteins has been considered as a key event for the occurrence of DILI in humans (Park et al., 2005; Walgren et al., 2005). However, there are some exceptions. For example, ximelagatran, although not prone to generating reactive metabolites, has been withdrawn from the market because of DILI (Keisu and Andersson, 2010). Besides being substrates of P450 enzymes, drugs can also interact with P450 enzymes as either inhibitors or inducers. The exact role of these interaction modes in DILI has not been extensively examined.
It is known that dose-dependent liver toxicity is predictable, and the relationship between daily doses of oral medications and DILI has also been observed (U.S. Food and Drug Administration, 2009). Data show that most drugs that are required to carry black-box warnings or that have been withdrawn from the market due to DILI are prescribed at daily doses higher than 50 mg (Uetrecht, 2007). However, DILI, which is not clearly dose-dependent, is unpredictable and hard to detect because of differences in individual susceptibilities (U.S. Food and Drug Administration, 2009). In addition, polypharmacy and drug–drug interactions (DDIs) increase the risk of DILI (Stine et al., 2013). Examining large drug data sets may allow us to fill critical gaps in current knowledge on the role of hepatic metabolism in DILI, and thus to associate individual susceptibilities with DILI in the context of hepatic metabolism in clinical application.
P450 enzymes are involved in the metabolism of approximately 75% of marketed drugs with a wide range of structural variations (Williams et al., 2004). Several drugs are often coadministered, which poses a challenge to a clinician who, without performing a formal causality assessment, has to make a decision regarding which drug should be stopped when clinical symptoms or signs of DILI are observed. The goal of our study was to find a simple rule applicable to clinical settings that will help clinicians to avoid DILI risk when multiple drugs are used to treat patients. We hypothesized that drugs that are P450 substrates, inhibitors, and inducers may not have the same likelihood of causing DILI and that the daily dose may not be equally important for these three groups of drugs.
Materials and Methods
Collection of Data on P450-Mediated Metabolism.
Data on metabolism mediated by P450 enzymes for drugs from the Liver Toxicity Knowledge Base Benchmark Dataset (LTKB-BD; http://www.fda.gov/ScienceResearch/BioinformaticsTools; Chen et al., 2011), developed by the U.S. Food and Drug Administration (FDA) National Center for Toxicological Research, were collected from SuperCYP (http://bioinformatics.charite.de/supercyp/), DrugBank (http://www.drugbank.ca/), and PubChem (http://pubchem.ncbi.nlm.nih.gov/). The obtained information was verified by searching PubMed (http://www.ncbi.nlm.nih.gov/pubmed) and drug metabolism data in the pharmacology reviews in FDA approval packages (U.S. Food and Drug Administration, 2012). The following combinations of queries were used in the PubMed search: “drug name and P450/CYP/Cytochrome/Microsome,” “drug name and metabolism/metabolite/metabolic,” “drug name and biotransformation,” and “drug name and disposition/elimination/excretion”.
Drugs with known data on P450-mediated metabolism are categorized as substrates, inhibitors, and inducers. In a situation in which a drug can be all three via the different isoforms, the drug was included in all three situations in statistical analyses. We did not consider the subgroups of substrates, inhibitors, and inducers based on their affinity for P450 enzymes. Drugs classified as “not the substrates of P450 enzymes” include those drugs that are not metabolized and principally excreted in unchanged forms, those that are metabolized by other enzymes, and those for which the role of P450 enzymes on their biotransformation is currently unknown. Drugs were classified as “not inhibitors/inducers of P450 enzymes” when no available data were found to confirm whether they are P450 inhibitors or inducers.
Data Analysis.
Drugs in the LTKB-BD are classified as drugs of most concern (most-DILI), less concern (less-DILI), and no concern (no-DILI) for DILI (Chen et al., 2011). We combined the most-DILI and less-DILI drug classifications into a DILI-positive group, and the remaining drugs comprised the DILI-negative group. Drugs taken orally were classified according to their doses as drugs administered at high daily doses (≥100 mg) and drugs administered at low daily doses (<100 mg). A daily dose ≥100 mg was considered as a high daily dose based on our previous findings that a significantly higher proportion of medications administered orally at a daily dose ≥100 mg caused DILI (Chen et al., 2013a). In addition, Stepan et al. (2011) also consider this dose as a high daily dose.
Logistic regression was used to assess the associations of DILI with drugs that are P450 substrates, inhibitors, or inducers and drugs that are not, and whether the former has the higher likelihood of causing DILI compared with the latter. For each association, the odds ratio (OR) with 95% confidence interval (95% CI) was reported. The Fisher’s exact test was used to calculate the statistical significance of the associations. Multivariate logistic regression was used to estimate the relationship between the potential of the drug to cause DILI and the following variables: the drug being a P450 substrate, inhibitor, and inducer; high daily dose; high lipophilicity; and different combinations of these variables. In addition, stratified analysis by the daily dose or lipophilicity was performed for P450 substrates, inhibitors, and inducers to assess their association with DILI. The Epicalc R package (http://cran.r-project.org/web/packages/; R Project for Statistical Computing, Vienna, Austria) was used for statistical analysis.
We used the statistically significant DILI predictors identified by multivariate logistic regression (i.e., high daily dose and the drug that is a P450 substrate) to examine five drug pairs selected from the Liver Toxicity Biomarker Study (http://www.fda.gov/Drugs/ScienceResearch/ResearchAreas/ucm079281.htm) and drugs that caused DILI in 11 cases of clinical studies retrieved from the National Institutes of Health LiverTox database (http://livertox.nlm.nih.gov/).
Results
Association of DILI with a Drug That Is a Substrate, Inhibitor, or Inducer of P450 Enzymes.
There are 287 drugs recorded in the LTKB-BD; 26 drugs with parenteral administration and 7 drugs with an unknown daily dose were removed before the analysis. Consequently, the remaining 254 drugs used in this study included 206 DILI-positive and 48 DILI-negative drugs (Supplemental Table 1). There were 168 drugs that are P450 substrates and 86 drugs that are not. Among the substrates and nonsubstrates, 88.7% (149 of 168) and 66.3% (57 of 86) were DILI-positive drugs, respectively. As shown in Table 1, the drugs that are substrates of P450 enzymes would have a 3.99 times higher likelihood of causing DILI compared with drugs that are not metabolized by P450 enzymes (OR, 3.99; 95% CI, 2.07–7.67; P < 0.0001).
We found that 42.9% (109 of 254) of the drugs were P450 inhibitors; 85.3% (93 of 109) were DILI-positive drugs and 14.7% (16 of 109) were DILI-negative drugs. Among all DILI-positive drugs, 45.1% (93 of 206) were P450 inhibitors. Drugs that were P450 inhibitors had no significantly higher likelihood of causing DILI compared with drugs that were not (OR, 1.65; 95% CI, 0.85–3.18; P = 0.1372). Fifty drugs (19.7%) were P450 inducers; 86% (43 of 50) were DILI-positive drugs and 14% (7 of 50) were DILI-negative drugs. Among all DILI-positive drugs, only 20.9% (43 of 206) were P450 inducers. Drugs that were P450 inducers had no significantly higher likelihood of causing DILI compared with drugs that were not (OR, 1.55; 95% CI, 0.65–3.68; P = 0.3246).
The Role of an Individual P450 Enzyme in DILI Risk.
Since drugs that are substrates of P450 enzymes were closely associated with DILI risk, we further analyzed the association of the individual P450 enzyme with DILI risk. Most of these enzymes exhibited a high degree of interindividual variations (Tanaka, 1999; Meibohm et al., 2002; Wolbold et al., 2003; Parkinson et al., 2004; Zhou et al., 2009), which could be relevant to the clinical application of DILI assessment. We found that drugs metabolized by CYP1A2, CYP2C8/CYP2C9, and CYP3A5 may have a higher likelihood of causing DILI (Table 2).
A Combined Assessment of Daily Dose, Lipophilicity, and Drug–P450 Interaction Modes in DILI.
As shown in Table 3, drugs with high daily doses had a 4.98 times higher likelihood of causing DILI compared with drugs with low daily doses (OR, 4.98; 95% CI, 2.55–9.76; P < 0.0001). Drugs with high lipophilicity (logP ≥3) did not have a higher likelihood of causing DILI compared with drugs with low lipophilicity (OR, 1.44; 95% CI, 0.75–2.77; P = 0.3312). For drugs with high daily doses, P450 inhibitors would have a 6.03 times higher likelihood of causing DILI than those that were not P450 inhibitors (OR, 6.03; 95% CI, 1.32–27.5; P = 0.0098). On the contrary, P450 inducers were not observed to be closely associated with DILI even when they were administered at high daily doses. DILI caused by P450 substrates was both dose- and lipophilicity-independent.
Identifying Significant Drug-Specific Predictors for DILI.
Multivariate logistic regression revealed that among multiple drug-specific variables (high daily dose, high lipophilicity, and the drug being a P450 substrate, an inhibitor, and an inducer), high daily dose (OR, 7.10; 95% CI, 3.36–15.0; P < 0.0001) and the drug being a substrate of P450 enzymes (OR, 5.04; 95% CI, 2.34–10.9; P < 0.0001) were two significant predictors for DILI (Table 4). Multivariate logistic regression on all of the interaction terms of these five variables also demonstrated that only the combination of high daily dose and being a P450 substrate would have the higher likelihood of causing DILI (OR, 6.36; 95% CI, 1.38–29.2; P = 0.0175) (data not shown).
Using Drug-Specific Predictors in Examining Drug Pairs.
We used the two significant predictors of DILI (i.e., high daily dose and the drug being a P450 substrate) to examine five drug pairs identified by the Liver Toxicity Biomarker Study. Each drug pair consists of a “clean” compound and a “toxic” compound. Both are similar in chemical structure and have identical primary target activity with exhibiting no liver toxicity in the preclinical study. When applied to humans, the toxic compound exhibits the more severe liver injury than the clean compound. Anxiolytic alpidem, antiparkinsonian tolcapone, and trovafloxacin, which was used in the treatment of chronic granuloma inguinale, marked as “toxic” in three drug pairs are P450 substrates and they were administered at high daily doses. All nonsteroidal anti-inflammatory drugs (NSAIDs), such as benoxaprofen, ibuprofen, bromfenac, and diclofenac, were predicted to be hepatotoxic based on our two predictors (Table 5).
Using Drug-Specific Predictors in Identifying Drugs Causing Liver Injury in Clinical Studies.
The two predictors (i.e., high daily dose and the drug being a P450 substrate) were also applied to identify drugs that might cause liver injury in 11 clinical cases from the National Institutes of Health LiverTox database, in which patients were treated with comedications. In each case, the causality assessment was confirmed by physicians or health care professionals. In these case studies, drugs that caused liver injury (i.e., cyclophosphamide, valproic acid, isoniazid, efavirenz, mercaptopurine, fluconazole, diclofenac, ketoconazole, fenofibrate, disulfiram, and ticlopidine) were identified by the two predictors (Table 6).
Discussion
In this study, we analyzed how 254 orally administered drugs (i.e., P450 substrates, inhibitors, or inducers) from the LTKB-BD were associated with DILI. We discovered that drugs/substrates for P450 enzymes showed a statistically significant but dose-independent association with DILI; drugs/inhibitors for P450 enzymes would have the higher likelihood of causing DILI when they were administered at high daily doses (≥100 mg). On the contrary, drugs/inducers for P450 enzymes were not observed to be significantly associated with DILI. These findings will be helpful to identify drugs with the high likelihood of causing DILI in clinical settings.
We determined that high daily dose and the drug being a substrate of P450 enzymes, which had the significantly higher likelihood of causing DILI, were two important predictors of DILI (Table 4). In addition, we also revealed that only the integration of high daily dose and being a P450 substrate had a higher likelihood of causing DILI. A list of structural alerts associated with the formation of toxic reactive metabolites has been established (Kalgutkar et al., 2005). However, the mere presence of a structural alert in a drug will not necessarily be associated with DILI (Stepan et al., 2011). Some drugs with the same structural alerts may have different risk of DILI. For example, troglitazone, rosiglitazone, and pioglitazone contain the same thiazolidinedione scaffold, which is the structural alert to generate the toxic reactive metabolites. Troglitazone has been withdrawn because of DILI, whereas rosiglitazone and pioglitazone are currently still in use. Their daily dose may be a key difference [i.e., troglitazone (400 mg/d) versus rosiglitazone (6 mg/d) and pioglitazone (30 mg/d)]. On the contrary, the key difference to explain the different risk of DILI for ibuprofen (1200 mg/d) and ibufenac (2400 mg/d) is the formation of toxic reactive metabolites. Therefore, high daily dose and being the P450 substrate should be simultaneously considered to identify the DILI-positive drugs.
The drug pairs have similar chemical structures and are usually expected to have similar efficacy and safety. Drugs marked as toxic that were withdrawn from the market in the United States and elsewhere due to DILI (i.e., alpidem, tolcapone, trovafloxacin, benoxaprofen, and bromfenac; Table 5) were identified as DILI-positive drugs by our two predictors. Ibuprofen and diclofenac were also identified as DILI-positive drugs, and their DILI potential was confirmed by case reports of acute liver failure (Helfgott et al., 1990; Banks et al., 1995; Javier Rodriguez-Gonzalez et al., 2002). Because of the DILI potential of these two drugs, they are annotated as less-DILI and most-DILI drugs in the LTKB, respectively (Chen et al., 2011). Thus, our two predictors can identify the toxic compound in the drug pair. In addition, these two predictors could identify the drugs that caused DILI among multiple medications used by patients in clinical studies (Table 6). These results confirmed that two identified predictors (high daily dose and the drug being a P450 substrate) could have the useful clinical applications, particularly for clinicians during the decision-making process of caring for a patient suspected of having DILI. Drug developers are currently encouraged to provide metabolism data on P450 enzymes for new drug applications (U.S. Food and Drug Administration, 2012), which will facilitate a practical use of the identified two predictors in the future.
It has been reported that almost all of the drugs known to be associated with DILI cause clinically significant DDIs (Li, 2002). Many DDIs can be explained by the inhibition or induction of the expression of P450 enzymes in the liver (Tanaka, 1998). Our results suggest that clinically observed DILI may occur when P450 inhibitors are administered at high daily doses (Table 3). Based on the mechanisms of enzyme inhibition, a P450 inhibitor needs to bind to P450 enzymes and then decreases their activity. Therefore, the inhibitory effect is expected to be increased with the increasing dose of the inhibitor. Other authors also find that the inhibition of P450 enzymes is dose-dependent (Lin et al., 2000; Hollenberg, 2002). The inhibition of P450 enzymes may increase liver exposure of the parent drug, which has the potential to cause DILI. For example, clinically dose-dependent hepatotoxicity of fluconazole, which is a potent inhibitor of CYP2C19 and a moderate inhibitor of CYP2C9 and CYP3A, was observed (Wells and Lever, 1992). Phenytoin (300 mg/d) is an inhibitor of CYP2C9 with a narrow therapeutic index. It is also a substrate of CYP2C9. Therefore, the increased liver exposure of phenytoin by the inhibition of CYP2C9 might increase the risk of DILI. Phenytoin has been considered as one of the most common drugs, other than acetaminophen, reported to cause acute liver failure in the United States (Russo et al., 2004), which confirmed our findings that P450 inhibitors would have the higher likelihood of causing DILI at high daily doses. Inhibitory effects usually occur immediately; however, induction of P450 enzymes is usually both time- and dose-dependent (Markowitz et al., 2003), which will lead to a delay before enzyme activity increases depending on the duration of exposure and half-life of the inducer in the liver. Consequently, induction of hepatic P450 enzymes rarely leads to altered metabolism and toxicity in the patient, which typically occurs only if the induction is very extensive (Mohutsky et al., 2010). For example, three drugs were recorded by the U.S. FDA as potent P450 inducers (i.e., carbamazepine, phenytoin, and rifampin; (http://www.fda.gov/Drugs/DevelopmentApprovalProcess/DevelopmentResources/DrugInteractionsLabeling/ucm093664.htm). All of these drugs are considered as DILI-positive drugs in the LTKB-BD.
Because of the differences in individual susceptibility to hepatotoxic drugs, our findings will also be helpful for dose adjustment, which is important to prevent DILI. For example, females are more susceptible to DILI than males (Russo et al., 2004). This could be partly explained by the 2-fold higher activity of CYP3A4 in the female liver compared with the male liver (Wolbold et al., 2003). CYP3A4 has the highest abundance in the human liver (approximately 40%) and is the most frequently involved enzyme in the metabolism of DILI-positive drugs (Li, 2002). As indicated in this study, CYP2C would have the higher likelihood of metabolizing the DILI-positive drugs. Therefore, Hispanics with about twice the activity of CYP2C compared with Caucasians and African Americans (Parkinson et al., 2004) may have a higher risk of liver injury caused by drugs such as NSAIDs, leflunomide, troglitazone, and valproic acid, which are mainly metabolized by CYP2C (Kirchheiner and Brockmoller, 2005). NSAIDs were reported as the most frequently used drugs causing DILI in Spain (Ibanez et al., 2002).
This study has several limitations. First, we do not have a confirmation that one among the P450 enzymes involved in the metabolism of the drugs participates in the formation of toxic reactive metabolites. Second, enzymes other than P450 isoforms can also mediate the generation of toxic reactive metabolites, and their roles are not considered in this study. Third, our results are based on in vitro data on P450-mediated metabolism and their extrapolation to in vivo studies is uncertain. Fourth, the data on P450-mediated metabolism for some drugs and the data on inhibition or induction effects of some drugs on P450 enzymes are currently unavailable. Since the FDA is encouraging the industry to submit metabolism data and safety data on drug metabolites for new drug applications, we can expect to summarize more solid conclusions using the analysis we carried out in this study when those data are available in the future. In addition, authors should be encouraged by journals to publish negative findings because in these cases, it will be certain that drugs classified as “not the substrates of P450 enzymes” are not metabolized by particular P450 enzymes.
In summary, besides high daily dose, our study indicates that the drug being a substrate of P450 enzymes is another important predictor of DILI. In addition, we also learned that P450 inhibitors have a higher likelihood of causing DILI only when they are administered at high daily doses, and P450 inducers are not observed to be closely associated with DILI. Only the integration of high daily dose and being a P450 substrate have the higher likelihood of causing DILI. Our findings can serve as a simple clinical algorithm for the identification of the drug with a high likelihood of causing DILI in clinical settings.
Acknowledgments
The authors thank Reagan Kelly, Qiang Shi, Yuping Wang, and Hong Fang for comments and discussion on this article.
Authorship Contributions
Participated in research design: Ilic, Tong.
Conducted experiments: Yu, Geng, Chen, Zhang.
Performed data analysis: Yu, Geng, Wang.
Wrote or contributed to the writing of the manuscript: Yu, Ilic.
Footnotes
- Received December 2, 2013.
- Accepted January 23, 2014.
K.Y. is supported by the Research Participation Program at the National Center for Toxicological Research (NCTR) administrated by the Oak Ridge Institute for Science and Education (ORISE) through an interagency agreement between the U.S. Department of Energy and the U.S. Food and Drug Administration (FDA). B.W. is supported by the FDA/NCTR Division of Bioinformatics and Biostatistics, ORISE, Chinese Ministry of Science and Technology [National Science and Technology Mega Project Grant 2012ZX09301001-006(003)], and Shanghai Jiao Tong University [K.C. Wong Medical Fellowship Fund]. K.I. worked at NCTR during her summer sabbatical and was supported by ORISE and the Republic of Serbia Ministry of Education and Science (Project 175064, 2011–2014). The views presented in this article do not reflect those of the FDA. Any mention of commercial products is for clarification and is not intended to constitute endorsement or recommendation for use.
K.Y. and X.G. contributed equally to this work.
This article has supplemental material available at dmd.aspetjournals.org.
Abbreviations
- CI
- confidence interval
- DDI
- drug–drug interaction
- DILI
- drug-induced liver injury
- FDA
- U.S. Food and Drug Administration
- LTKB-BD
- Liver Toxicity Knowledge Base Benchmark Dataset
- NSAID
- nonsteroidal anti-inflammatory drug
- OR
- odds ratio
- P450
- cytochrome P450
- RO2
- Rule of Two
- U.S. Government work not protected by U.S. copyright