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Ординатура / Хирургия / Библиотека им академика М.И. Перельмана / Книга_5849_Библиотеки_им_академика_М_И_Перельмана

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Knock-out or humanized animals may also be used to assess specific metabolism
clearance mechanisms [155].
4.5.5.2 In Situ Perfused Organs Isolated perfused organs have been used to investigate drug metabolism in numerous preclinical animal species. Isolated liver models in the rat have been used most extensively and the procedure is described elsewhere [23, 156–158]. The in situ perfusion of liver has several advantages including intact tissue architecture, cell polarity, and bile flow. This model is able to perform both metabolism and hepatic uptake and biliary secretion, and thus can be used to determine the overall hepatic elimination.
4.5.5.3 Liver Slices Liver slices are prepared from liver by using a razor blade or a precision-cutting device to cut small sections of liver tissue to a thickness of 200–500 mm [159]. The slices can then be incubated in buffer or cell culture medium and used for drug metabolism experiments. As drug metabolism tools, liver slices contain intact cells and have some of the same advantages as hepatocytes [160].
4.5.5.4 In Vitro Cell-Based Systems Hep atocyte suspension is a very popular system for studying drug metabolism. Hepatocytes are intact cells and thus are capable of performing both Phase I and Phase II metabolic reactions and also sequential biotransformation reactions.
Hepatocytes are prepa red from intact liver by perfusing the liver with collagenase to isolate the hepatocytes from the extracellular matrix. The isolated hepatocytes can be incubated immediately with test compound in cell culture medium in an oxygen­ated atmosphere, or can be cryopreserved for future use.
4.5.5.5 In Vivo Subcellular Fractions Subcellular fractions isolated from animal or human liver such as microsomes, S9 fraction, and cytosolic fraction are widely used in drug discovery to study the rate of metabolism, reaction phenotyping, and predicting metabolic profiles of drug candidates, and their potential DDI. Microsomes preparations are the system most frequently used for high-throughput metabolic screening as well as for more mechanistic drug metabolism studies in vitro.
Liver Microsomes Liver microsomes are prepared by further centrifuging liver S9
endoplasmic reticulum, which contains membrane-bound drug-metabolizing enzymes, into vesicles called microsomes, which can be resuspended in buffer and stored frozen. The microsomes contain the important CYP, FMO, and UDP-GT enzymes, among others.
MICROSOMES VERSUS HEPATOCYTES Microsomes and hepatocytes can both be used for
determination of metabolic stability and intrinsic clearance. Each system has advantages and disadvantages. Microsomes that are subcellular fractions lack cell membranes and provide ready access of the test compound to the metabolizing enzymes. They are used mostly for determining metabolism by CYP enzymes, which
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represent a viable screening strategy since CYP metabolism has the greatest overall impact on metabolic stability. Microsomes can also be used to determine the metabolic rates of other membrane-bound drug-metabolizing enzymes. However, the addition of exogenous cofactors may be required, for example, UPD-glucuronic acid fortified systems are used to facilitate formation of glucuronide conjugates by UDP-GT enzymes. Hepatocyte incubations, by comparison, use cultured intact cells, and thus have the advantage of structurally intact membrane-bound and cytosolic enzymes. They are capable of catalyzing the entire complement of hepatic drug­metabolizing functions, and may thus provide a more relevant prediction of in vivo metabolism. Hepatocyte systems sometimes yield artifactual low rates of metabolism particularly for highly lipophilic compounds often encountered in early discovery because of either poor solubility of test compound in the cell culture medium or inability to enter the hepatocytes to gain access to the drug-metabolizing enzymes. For lipophilic compounds, especially in screening mode, microsomal incubations tend to provide higher rates of metabolism and are more useful for decision making and rank ordering of compounds.
Liver S9 Fractions Liver S9 is a subcellular fraction prepared by homogenizing liver, centrifuging at 9000 g and saving the postmitochondrial supernatant, which can be stored frozen and used as a crude source of drug-metabolizing enzymes. An advantage of liver S9 fraction is that it contains both cytosolic and membrane-bound drug-metabolizing enzymes.
Liver Cytosolic Fractions Liver cytosolic fraction is prepared from the liver S9 fraction during the preparation of microsomes (see section “Liver Microsomes”). During the final centrifugation step, the microsomes form the pellet and the supernatant comprises the cytosolic fraction, which contains soluble drug-metabo­lizing enzymes, as opposed to the membrane-bound enzymes in the microsomes. The cytosolic fraction is an excellent source of numerous Phase I drug-metabolizing enzymes, including epoxide hydrolase, several reductases, alcohol dehydrogenase, aldehyde oxidase, xanthine oxidase, and also Phase II enzymes capable of conju­gating drugs with sulfate, glutathione, and methyl and acyl groups.
4.5.5.6 In Vivo Recombinant Drug-Metabolizing Enzymes Recombinant cDNA­expressed human drug-metabolizing enzymes are metabolism tools that are now commercially available from numerous sources. A specific human drug-metabolizing enzyme mRNA is used as the source for generation of a cDNA, which is recombined with an expression vector and introduced into a cell culture system suitable for production of a large quantity of human enzyme. The cells can be homogenized and centrifuged to prepare microsomes or the enzymes can be further purified and reconstituted.
4.5.5.7 In Silico Tools In silico models have been developed to predict drug metabolism properties [161]. The simplest models are used for screening and utilize physicochemical properties to predict metabolic stability. More sophisticated models
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have been developed for predicting hepatic clearance, metabolite formation, the potential for metabolic DDI, and other metabolism properties [20, 162].
4.5.6 Applications of Drug Metabolism Tools
A variety of tools are available to investigate the role of metabolism in the overall disposition of a test compound or drug candidate. The main uses of metabolism tools are for the prediction of human exposure and safety, and generally fall into the following four categories:
1. metabolic stability and the intrinsic clearance;
2. reaction phenotyping (identification of enzymes contributing to the metabolism of a particular chemical entity);
3. metabolic profiling; and
4. prediction of potential metabolic DDI.
4.5.6.1 Metabolic Stability and Intrinsic Clearance The determination of met­abolic stability of the newly synthesized compounds is usually done at a very early stage of the drug discovery projects in a high-throughput screening mode aiming to determine basic metabolic liabilities of the compounds, estimate their intrinsic metabolic clearance, and establish so-called in vitro–in vivo correlations (IVIVC).
Metabolic Stability Liver microsomes and S9 fraction are the tools of choice for determining metabolic stability, and fully automated, high-throughput systems for these are applied at early stages of drug discovery. Test compounds are incubated in vitro with the enzyme preparation and an NADPH regenerating system to supply electrons for the CYP reactions. Consumption of parent compound from the incu­bation mixture is measured either at a fixed time point or using a time course to determine the in vitro metabolic disappearance half-life. The resulting information is used to advance compounds for further testing based on a pass/fail criterion or to determine the rank order of a series of drug candidates.
Drugs that are eliminated principally by metabolism require a rate of metabolism that is appropriate for the desired pharmacokinetic profile: short elimination half-life for fast acting drugs, longer half-life suitable for BID or QD dosing regimen for most chronically administered drugs. For drug candidates intended for chronic adminis­tration, rapid metabolism is often a key factor in poor pharmacokinetics. Several tools and techniques are used at various discovery stages to screen out compounds demonstrating undesirable high rates of metabolism.
Intrinsic Clearance Metabolic stability assays that measure an in vitro half-life are used to determine intrinsic clearance, which essentially represents the fraction of hepatic cleara nce driven by metabolism. The in vitro half-life is converted to an in vitro intrinsic clearance value, and then physiological scaling factors are applied. The scaled value is incorporated into a calculation of in vivo hepatic clearance, such as
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the well-stirred model (described previously in Section 4.3.3). The in vivo hepatic clearance can be used for elucidation of the metabolic contribution to clearance and also can be incorporated into the prediction of the in vivo elimination half-life [84].
In Vitro–In Vivo Clearance Correlation An important technique in the investigation of the rate of drug metabolism is the determination of the correlation of in vitro predicted hepatic clearance to that of in vivo hepatic clearance from animal phar­macokinetic studies. A lack of correlation such that the in vivo clearance is significantly higher than the in vitro predicted value usually indicates that the in vitro system represents only a part of the overall clearance mechanism. In the case of underpredicted clearance using microsomes, either an S9 system fortified with cofactors or a hepatocyte incubation system may provide the missing metabolic contribution and a more accurate prediction. If metabolic intrinsic clearance still underpredicts in vivo clearance, the results may indicate that either biliary secretion or extrahepatic metabolism are significant factors in the elimination of the compound.
4.5.6.2 Reaction Phenotyping An important discovery stage activity is the determination of which drug-metabolizing enzymes are responsible for the elimi­nation of a drug candidate. This knowledge is used to predict if the drug candidate will be eliminated by a single metabolic pathway, resulting in a potential metabolic DDI risk (especially for CYP3A4). It is also implemented to predict whether the drug candidate will be metabolized by an enzyme that is polymorphically expressed in human and could lead to high variability of drug exposures, which could result in clinical safety issues [163]. The polymorphically expressed human drug-metaboliz­ing enzymes of most concern are CYP2D6 and CYP2C19 [164]. Depending on which enzymes and how many enzymes contribute to metabolism, different techniques are employed.
In vitro incubation with different subcellular liver fractions can be used to assess the location of the enzyme (microsomal membrane-bound or cytosolic fraction). Addition or subtraction of required cofactors and/or specific chemical inhibitors to in vitro incubations can be used to assess the type of enzyme (CYP,UDP-GT,etc.). For CYP enzymes, the battery of assays used to determine the fraction of metabolism catalyzed by the various CYPs is referred to as reaction phenotyping [163] and utilizes pooled human liver microsome incubations in combination with isof orm-selective inhibitors and additional experiments with recombinant human CYP enzymes.
4.5.6.3 Metabolic Profiling The aim of the metabolic profiling of drug candidates at early stages of the discovery projects is to determine the structural elements of the molecules causing high metabolic instability of the compounds. Those functional groups (“soft spots”) can then be modified or replaced with different functional groups in order to reduce the rate of the metabolism of the drug candidates.
At later stages of discovery projects, metabolic profiling is typically used to compare the metabolites formed in the preclinical animal species with those that can be formed in the humans to ensure the safety of human subjects in clinical trials.
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Identification of Metabolites and Metabolic “Soft Spots” Metabolic soft spot identification is utilized in early discovery to identify metabolically labile sites that cause unacceptably high rates of metabolism. For a compound of interest or a few compounds in a chemical series, major metabolites are putatively identified using LC–MS/MS (liquid chromatography–electrospray tandem mass). The metabolic profiles are examined to determine whether a single site can be blocked or if multiple metabolic routes exist and thus metabolism will be more difficult to reduce by strategic modifications. Liver microsome, S9 or hepatocyte incubations, as well as animal plasma and urine can all be used as the source of metabolites for assessment of highly labile sites, although in early discovery screening, microsomes are the tool used most often.
In vitro metabolizing systems, particularly liver microsomes, are used as a source of metabolites for the assessment of active metabolites in early discovery pharma­cology screens. Test compounds are incubated in vitro with liver microsomes to generate metabo lites. The incubations are then subjected to a simple purification procedure and the resulting supernatants or resuspended extracts are tested for in vitro potency. In later stages of discovery, major metabolites (>10% in circulation compared to parent compound) may be purified or synthesized and submitted to pharmacology testing to more accurately evaluate the contribution of the metabolite to the overall in vivo pharmacological activity.
Animal and Human Metabolites in Safety Testing Prediction of the human met­abolic profile is required in order to predict the elimination mechanisms in humans and to understand the likely role of metabolism in human clearance. An additional important consideration is that all predicted human metabolites should be adequately represented in preclinical animal species during safety studies. The only relevant tools for prediction of the human metabolic profile in the discovery stages are human in vitro systems, due to species differences in metabolism, most significantly for CYP enzymes.
Hepatocyte incubations are preferred as they provide the best overall picture of metabolism. For low turnover compounds, liver microsomes and occasionally recombinant expressed human CYP enzymes may be used to generate and identify putative human metabolites. In the development stage, when human plasma and urine become available from clinical Phase I studies, metabolite scouting can be performed, while definitive human metabolite identification is typically performed later in development using radiolabeled compound.
Cross-species metabolite identification is performed in the late discovery stage to determine if the predicted human metabolite profile is qualitatively similar to the metabolic profiles in the preclinical animal species (usually rat and dog or monkey) used for toxicology testing. Identification of the formation of a metabolite that is unique to human represents a drug development risk because the metabolite cannot be generated by the toxicity species and thus cannot be evaluated prior to clinical trials. Also, predicted human major metabolites may be subject to required preclinic al toxicity assessment in addition to the testing required for the parent compound as described in the FDA Guidance for Industry called MIST (Metabolites in Safety
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Testing) [165]. Cross-species metabolite identification is performed, minimally, by incubating the test compound in vitro with hepatocytes from human and all relevant toxicity species, and then determining and comparing the metabolic profiles. Addi­tional profiling of in vivo plasma and/or urine from the toxicity species can help to understand the relevance of the in vitro metabolite profile to the in vivo situation and strengthen the human prediction.
4.5.6.4 Prediction of Metabolic Drug–Drug Interactions A variety of human in vitro systems are used for the prediction of a potential metabolic DDI due to the inhibition or the induction of the CYP enzymes.
CYP Inhibition and Potential DDI CYP inhibition studies are conducted to assess the potential for new chemical entities or drug candidates to potently inhibit any of the major human CYP isoforms, typically CYP1A2, CYP2C9, CYP2C19, CYP 2D6, and CYP3A4. Different techniques are used in differentstages of discovery but most assays use pooled human liver microsomes as the CYP enzyme source and either a single concentration or varying concentrations of test compounds to generate IC
50
values.
Early stage discovery assessment of CYP inhibition employs high-throughput assays to screen large numbers of compounds and facilitate building structure– inhibitor relationships that can be used for lead compound design [147].
In later stages of discovery, emphasis shifts to the determination of K
i
values and investigation of possible atypical kinetics and determination of the type of inhibition, especially nonreversible time-dependent inhibition [166]. In addition, rigorous, validated assays have been developed for the definitive determination of CYP inhibition during development [167]. Understanding of the potency and type of CYP inhibition, combined with knowledge of the fraction metabolized by individual CYP isoforms, can be used effectively to predict the potential for human metabolic DDI using commercially available prediction software.
CYP Induction and Potent ial DDI Several in vitro models can be utilized to predict the likelihood of a metabolic DDI due to induction. The main focus of these models is to assess the potential for induction of CYP3A4 via binding to the nuclear receptor PXR, which is the mechanism for most of the important examples of clinical metabolic DDI caused by induction.
In early discovery, a CYP3A4 reporter gene assay can be used to screen a large number of compounds. The cell line most often used is the HepG2 cell line [168]. In this assay, compounds can be rank-ordered and compared to known clinical inducers to categorize them as potential inducers. For definitive assessment of induction potential, either the immortalized hepatocyte cell line Fa2N-4 can be used, or preferably,primary cultured human hepatocytes. In either system, CYP3A4 induction can be measured by increases in CYP3A4 mRNA, CYP3A4 protein, and CYP3A4 functional enzyme activity using a probe substrate. These increases can be compared to established potent inducers such as rifampicin. The Fa2N-4 system has the advantage of cell availability and batch-to-batch reproducibility, but has disadvan­tages such as low expression of some hepatic uptake transporters.
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Cultured human hepatocytes have been proposed as the preferred system for definitive in vitro determination of human induction potential [149] (http://www.fda. gov/downloads/Drugs/GuidanceComplianceRegulatoryInformation/Guidances/ ucm072101.pdf) and is considered to be most predictive. However, this system has the disadvantage of limited availability and batch to batch variability of induction response [169].
4.5.7 Tools for Studying Drug Excretion
Tools for determining the role of excretion in the elimination of a drug candidate can be employed at various stages of the drug discovery process and include in vivo pharmacokinetic studies, in situ models, and cell-based or membrane vesicle trans­porter systems.
As opposed to the myriad of tools for assessing drug metabolism, excretion tools are more limited and in many cases utilized only after it has been determined that metabolism is not the major mechanism of elimination.
4.5.7.1 In Vivo Animal Studies Due to the complexity of the excretion proce ss that often involves a combination of passive and active transport processes, in vivo animal models are useful tools for investigating the role of excretion in drug elimination.
Renal Excretion In Vivo Pharmacokinetic studies in preclinical animal species can be used to determine the renal clearance of test compounds from urine concentration data (Section 5.2.4.1). For compounds that are hydrophilic or charged at physiological pH, renal excretion may represent the main route of elimination. Renal clearance in human is generally well predicted by preclinical animal species [170, 171], especially for passive glomerular filtration. Renal clearance data from pharmacokinetics studies can be effectively used to screen discovery compounds.
Biliary Excretion In Vivo The most useful tool for evaluating the contribution of biliary secretion to drug elimination is the bile-duct cannulated animal model, and rat is the species most widely used for this purpose. In this model, animals are surgically cannulated so that bile can be continuously collected from the bile ducts in the liver. Following intravenous administration of compound, a time course of bile samples can be collected, concentrations determined, and biliary secretion calculated. Knowledge of the rate of biliary secretion can also be used to investigate the role of hepatobi liary recirculation in the disposition of compound.
In Situ and Ex Vivo Animal Models The use of the in situ excretion models is fairly limited and is not very frequently used in the discovery settings.
Renal Excretion In Situ The isolated perfused kidney (IPK) model can be used to study specific aspects of renal excretion [172, 173], and the effect of drug on various renal functions can be determined by adding the drug to the recirculating perfusion
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medium. In addition to excretion, kidney metabolism and toxicity may also be investigated usin g this model. The renal clearance of drug candidates may also be estimated by measuring drug uptake in kidney slices [174].
Renal Excretion Ex Vivo The renal clearance of drug candidates can be estimated by measuring the drug uptake by using kidney slices [174].
4.5.7.2 In Vitro Cell-Based Excretion Models The use of the in vitro cell-based systems for studying drug excretion is a rapidly growing area of science and technology driven by the need to assess the mechanism of the excretion processes mediated by a broad variety of the transporters.
Cell-based transporter systems can be utilized to provide information pertaining to the involvement of individual transporters in the excretion process. Specific trans­porters can be transfected into cells with low background activity.The transporters are expressed in the cell membrane and the transport of compound into the cell can be measured quantitatively. The most important application of this technology is to determine if transport is likely to be saturable, which represents a safety liability.
Primary Cell Cultures Primary cell systems can be used to investigate transporters that are important for renal or biliary excretion. An advantage of primary cell systems is that they express the full complement of transporters and may best represent the in vivo situation. A disadvantage is that these systems exhibit limited cell viability and are also limited by the availability of tissue.
Sandwich-cultured rat and human hepatocytes have been developed and used as tools to evaluate the in vivo biliary clearance of drugs [175]. The sandwich-culture d cells are able to form intact bile canalicular networks and maintain functional expression levels of uptake and efflux transporters for several days. This system may be useful for predicting the huma n biliary secretion of drug candidates.
Immortalized Cells Immortalized cell systems are capable of expressing high levels of specific transporters and can be grown in large quantities. However, expression of some normal transport systems may be lacking, and transporter expression and activity may become unstable in culture over time.
Transfected Cell Lines Numerous heterologous expression (trans fected) systems have been developed to investigate the function of renal and biliary excretion transporters. Transfected cell lines can express specific transporters of interest. Although the transporters are expressed in a nonnative cell background, which may affect the transport kinetics, these systems are especially useful tools for screeni ng because large quantities can be easily produced.
Membrane Vesicle Transporter Systems For polar or charged compounds that cannot enter cells via passive permeability, membrane vesicle systems can be used to study efflux transport. Membrane vesicles are prepared from cells resulting in an inverted transporter configuration, such that the test compound has access to the
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transporter, and uptake of the compound into the vesicle indicates functional efflux transport.
4.6 STRATEGIES FOR ASSESSING ADME PROPERTIES
Designing the right ADME properties into a molecule starts with an understanding of the pharmacokinetic properties needed to deliver the targeted pharmacodynamics (PK–PD). Biomarker identification as an efficacy surrogate is also becoming more important for the success of discovery programs. As nonclinical models are used to predict efficacy in human disease, attention to the consistency of biology system drivers in preclinical models is paramount. Otherwise, predicting efficacious human doses may be quite difficult. Designing in the correct ADME properties can be easier for precedented targets and mechanisms, where benchmark compounds are likely available for comparison. However, unprecedented targets provide more significant challenges to the discovery scientist. The tools applied in the assessment of ADME properties within a screening paradigm will vary by stage of a program and can vary with time as greater knowledge is gained. In general, the logic of applying ADME tools starts with an understanding of the defined in vivo targets and using the appropriate in silico (presynthesis) and in vitro (postsynthesis) tools to predict the desired in vivo behavior. The judicious use and cross-validation of in silico, in vitro, and in vivo tools, with an appreciation for their limitations, should provide a framework for efficient drug design. The primary focus of screening should be on early identification of rate-limiting ADME prope rties and subsequent optimization. This is the topic of further discussion in Section 4.6.1.
4.6.1 Assessing ADME Attributes at Different Stages of Discovery Projects
A typical discovery project involves four major stage gates: Target Identification, Lead Selection, Lead Optimization, and Preclinical Development (Figure 4.12). An example of a similar process can be found in the literature [176, 177].
4.6.1.1 Target Identification The Target Identification stage focuses primarily on the biology of a selected target. In addition, an initial assessment is made of the ADME space to which the chemical space of interest belongs. This can provide an early read of the deliverability of targeted molecules.
Animal testing, primarily in rodents, may be utilized for preliminary evaluation of PK properties of screening hits and/or benchmark compounds described in the literature. It is also used for selecting an appropriate dose and route of administration to deliver sufficient exposures in the animal efficacy models to build confidence in the rationale of the biology of the target.
4.6.1.2 Lead Selection The primary purpose of the Lead Selection stage of the discovery project is to (1) identify the spectrum of ADME properties of several chemical templates (series) and (2) determine the drivers of efficacy (and biomarkers)
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by analyzing the relationships between the extent and the duration of in vivo exposure, efficacy and target modulation. Certain tissue distribution studies (e.g., brain pen­etration) and receptor occupancy assessments may provide valuable information as to target site availability. Initial screening PK is used at this stage to assess clearance mechanisms and IVIVC. Initial in vivo mechanistic studies aimed at evaluating the primary routes of elimination may be conducted, and may include bile-duct cannulated (BDC) rats or even dogs. Another important goal at this stage is to begin setting up in silico, in vitro, and in vivo relationships so that these tools can be appropriately incorporated into the screening paradigm paying particular attention to model interrelationships. The Lead Selection stage of the project is particularly important in establishing the program as the working chemical space is narrowed significantly.
4.6.1.3 Lead Optimization Selection of the lead series is a significant milestone for the discovery project, which now moves to the Lead Optimization stage. At this point, much effort is applied to specifically fixing any revealed ADME problems and to identify the best compounds for further advancement. In vitro and in silico tools for ADME assessment are widely used at this stage of the project. In particular, predictive in silico tools provide an effective way to rationally design and enrich the pool of compounds that likely will possess the proper in vivo ADME properties.
4.6.1.4 Preclinical Development In the Preclinical Development stage, typically a front running candidate is chosen from a handful of leads for eventual clinical development. More definitive ADME-related studies are typically conducted in vitro and in vivo to revise early assessments from screening studies. More extensive safety evaluations are run to assess exposure multiples between projected human doses and
Lead Optimization
Preclinical Development
Lead Selection
Target Identification
Characterize ADME space of initial hits Characterize ADME of benchmark compounds if available Early exploration of routes of administration and dose for efficacy assessment
..
Early PKPD and biomarker identification
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Identify ADME issues with lead chemical series
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Correlate extent and duration of exposures with efficacy and target modulation (efficacy drivers)
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Target tissue distribution to ensure exposure at site of action
.
Routes of elimination
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In silico, in vitro, and in vivo correlatation
identified
Optimize ADME
properties in the context of efficacy and safety projections
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Support of efficacy and biomarker studies
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Routes of elimination for
in vitro–in vivo
correlation
.
Early dose projections
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Established in silico, in vitro, and in vivo
correlation
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PKPD and biomarker response understood
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Clearance mechanisms understood
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Expsosure multiple assessment from efficacy and toxicology studies
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Multispecies PK to project human PK
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In vitro inhibition and induction DDI assessment
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Enabling formulation selection based on PK
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In vitro human metabolite profile
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In vivo metabolite profile in toxicolo
gy sp
ecies
.
.
.
Figure 4.12 The stages of the discovery process and primary purposes of ADME studies.
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