Fig. 36.1
Schematic representation of target-based drug discovery and development process . Drug discovery process typically begins with the identification and the validation of the target in vitro and in vivo studies. The next stages involve the choosing of the agents, compound libraries, or assessment of the approaches for obtaining agents to be screened. Also involved at these stages are the assays and their development, the choice of which must be based on the target, and the evaluation of agents against the target, lead discovery and optimization, with medicinal chemistry, and ultimately the evaluation of candidate drugs against suitable in vivo models of the type of cancer.
36.3 Target-Based Drug Discovery and Development Approac h
Molecular-targeted drugs are designed with the aim of modulating the cancer phenotype by interacting with and altering the properties of specific biological molecules. Those biological molecules are altered in such ways that make them crucial for the initiation of cancer, and for the survival of the cancer cells and are therefore important for maintaining the cancer phenotype. The target of any molecular-targeted drug may be cell surface entities (extracellular domains of receptors, membrane phospholipids, integrins, and adhesion molecules), membrane-anchored proteins (receptors), or intracellular, cytoplasmic entities (intracellular domains of receptors, enzymes and signaling proteins, RNA, microRNA, and DNA). They are typically dysregulated in some fashion in tumor cells, compared to normal tissue and are expected to be specifically modulated by the novel anticancer agent. Therefore the forward, target-based approach to drug discovery builds on the premise that the biological molecules that make up the target(s) have potential roles in terms of their aberrant functions and thereby contribute to the development and the progression of the cancer phenotype. However, it needs to be stressed that what constitutes an important target for consideration for a drug development project is a crucial question that should not be taken lightly. In that context, it needs to be stressed that the mere association of a biological molecule or event with malignant transformation and tumorigenesis does not constitute sufficient evidence for target status nor does it necessarily make the biological molecule a good target. Although a biological molecule or event may have an association with the disease phenotype, one ought to be open-minded, but critical going into the drug discovery project, especially at the initial phase of the discovery process and recognize the need for a thorough examination of the target-worthiness of the biological entity prior to making any commitment to pursue the biological entity. In that regard, there are key issues that need to be considered following the initial observations of an association of a biological entity with the disease phenotype, but prior to deciding to focus on the biological entity as a target in terms of designing, adopting, and applying a strategy for evaluating and identifying compounds that modulate the biological entity. We will now look at these important issues and discuss their significance within the context of the forward, target-based approach to drug discovery [7–9].
36.3.1 Target Identification, Selection, and Validation, and Criteria to Establish Validity
36.3.1.1 Target Identification and Sel ection
Any type of disease condition will likely be associated with several abnormal molecular entities and pathological events. For discovering and developing molecular-targeted therapeutics against a disease condition, it will be important to determine which of those altered molecular entities and biological events are essential to the disease onset and to the underlying pathological mechanism(s) that initiate, support, and maintain the disease condition, and also promote its progression. The knowledge of this information is crucial for determining the suitability of the biological entity as a target and for defining the significance of the target to the disease. Target identification thus represents the key first step in the target-based discovery approach. A cancer drug target represents a biological entity with molecular and biochemical functions that are critical to the key biological processes underlying the existence of cancer. The altered biological entity may be a genetic material, a gene or gene product, or a molecular or biological mechanism present within cancer. The identity or the knowledge of the critical target also provides a basis for defining some aspects of the biological and molecular underpinnings of the disease. A defined target may be distinctive to the particular cancer type, representing part of the properties that define the cancer phenotype, as well as distinguish the cancer from other cancer types or subtypes, or the cancer cells from their normal counterparts from which the tumorigenesis events may have originated. It provides a means of characterization of the cancer in terms of differences in specific molecular and biological properties that are the foundation of the disease and for which the target is critically important. Identifying and defining a target is also an important step toward setting priorities regarding the specific aspects of the target that need to be focused on that might be relevant to function. Selecting the target influences the decision on what approach to take in order to maximize the potential to achieve the highest level of selectivity and specificity of effects for the candidate drug. The knowledge of the target is also useful for making predictions about the potential to regulate specific tumor types with minimal toxicity to the patient. It could be said that a defined target for a tumor type provides the platform for predicting the potential clinical outcome when the new drug is used in a patient against the target, which is aberrantly regulated in some fashion, although it needs to be stressed that this prediction is no guarantee of the clinical success of the candidate drug. Other important considerations in determining target identity that impacts significance are the cellular location and the expression profile of the target, molecular status in normal versus tumor cells, the functional status in relation to the tumor phenotype, as well as other physical/biochemical and biological properties of the target.
The functional status of the candidate target should be considered relative to the mechanism of carcinogenesis and the development of the cancer phenotype. The important questions to address here are what role the target has and in what manner, as well as how important the target’s role is to the disease phenotype. Determining the answers to these key questions provides the framework for making the critical decision on whether to focus on the target for drug discovery purposes. These questions are addressed experimentally to ensure that the selected candidate target sufficiently meets certain minimum conditions or set guidelines. Information from those studies becomes the basis for making critical decisions on moving forward. Other important issues include druggability and how well drugs can be designed and developed against the target, as well as the tractability of the target or the difficulty of inhibiting the target. It is proposed that of the genes in the human genome, only a small percentage is druggable and is associated with diseases. This is even more important when the disease phenotype is linked to several similar targets, and the question becomes which one of these possible targets should be pursue in the discovery program. It is worth stating that what constitutes a good target may be regarded as an ongoing debate and this debate and the evaluation of the target should continue throughout the drug discovery process to ensure suitability. In that regard, what is now emerging is a sense of value that the potential target presents and this influences the “go-no-go” decision. Moreover, emphasis is placed on target value for the sake of patentability and intellectual property matters, which are important considerations from financial standpoint, given how much of resources would need to be invested and how much efforts would be allocated for pursuing the target in the discovery program, and the overall cost associated. It is a common practice for one target to be pursued by many organizations, particularly if it is highly relevant to the cancer type and its druggability is high. Overall, the concept of target is generally accepted as one of the most critical factors to consider in the anticancer drug discovery process [10–14].
36.3.1.2 Target Validation
The concept of target represents one of the most important issues i n anticancer drug discovery. Granted the multiple genetic alterations, which are associated with the cancer type, lead to a myriad of functional aberrations in the gene products with altered biological outcome, it is reasonable to expect many factors to become associated with any particular cancer phenotype. While such associations are significant and may suggest some level of importance for the altered entities in relation to the carcinogenesis and the tumor formation processes, rigorous investigative studies are required before any major conclusions can be made regarding target validity. The point needs to be made that an observation that a biological molecule is altered in some fashion in cancer cells, while suggesting an association with the cancer phenotype, should not necessarily be taken as an indication the altered entity is essential for the events that led to the cancer phenotype or that it is important within the underlying mechanisms leading to carcinogenesis, tumor formation, and tumor progression. Ideally, to be considered as potential targets, altered proteins, or biological molecules and their functions should have critical roles in the underlying events leading to the cancer formation. Adopting this viewpoint is to safeguard against selecting and focusing on spurious biological entities that may not be essential to the basis of the disease phenotype, but may be readily available for targeting for reasons other than a requirement for the cancer formation. This brings us to the issue of the cause and effect. This is an important consideration, which indicates the need to establish the causal relationship between the altered molecular entity (and its function), as a potential target, and the biological or pathological events underlying the cancer phenotype. It will be ideal to envision that the altered molecular entity will have a causal role in the induction of the cancer phenotype in order to represent a validated and credible target for drug discovery and development.
Although the validation of a putative target may be viewed as a complex and long process, when successfully done, it authenticates the drug discovery process and has the potential to improve the chances of success in terms of the clinical outcome in patients for the drug candidate that emerges from targeting the altered biological entity. The question of what makes a good target for anticancer drug design and development may not be answered in one study. The attempt to address this question may take the form of a number of observations made from a series of studies throughout the drug discovery and development process. The significance of these studies is primarily in terms of establishing the nature of the relationship between the candidate target and the disease. The type of relationship will have a strong influence on the potential response of the drug candidate in the treatment of the disease based on the effect of the drug on the target. Thus, a high importance should be placed on defining the importance of the altered biological entity, as a target, in relation to the cancer. In that regard, there ought to be a set of criteria with minimum requirements that need to be fulfilled by the putative target in regard to its consideration as the target of choice for the cancer phenotype, and to the justification to develop agents that modulate its activity or function. The validation does not only make certain that the target is critical to the cancer type in terms of the viability and the survival of the cancer cells, but also serves to minimize the chances of toxicity by ensuring that the potential drug candidate would exert specific effect preferentially on tumor cells without indiscriminate effect on normal cells. Overall, target validation is an important consideration in the drug discovery process, and establishing the causal role for a target in the disease phenotype is a good beginning of a potentially viable anticancer drug discovery process. However, target validation should be perceived as an ongoing process pursued at all stages of the drug discovery and development process. By its very nature, the validation therefore represents a complex process that will require diverse experimental approaches and important decision-making steps in order to accomplish and establish a tractable and viable drug target [10, 14].
36.3.1.3 Criteria for Validating a Target
An important issue in considering a candidate target for drug discovery is whether an entity hypothetically associated with a disease necessarily represents an appropriate point for new drug intervention. It is vital to establish the credibility of the hypothetical target as it relates to its activity in the context of the disease and the target’s mechanism(s) of action, and to establish a cause and effect relationship between the disease and the candidate target. There are no standard processes for validating and establishing the credibility of a target, and different organizations may consider different approaches for accomplishing this goal. Notwithstanding, the main goal is to present a clear definition of the position of the target in relation to the disease phenotype and the molecular and biological events leading to cancer. Achieving this goal will require using various experimental models of the disease and diverse approaches. It should be pointed out that disease-relevant systems that are available for experimental use outside of humans may not be accurately reflective, but nonetheless serve the purpose at this stage of the discovery process. While the establishment and the use of appropriate disease models for target validation present some challenges, the lack thereof for evaluating a potential target for credibility will only compromise the pharmacological usefulness of the emerging drug candidate. Given the objective, which is to verify the credibility of the potential target in relation to its role in the cancer phenotype, one could propose some minimum conditions and lay out a set of criteria that need to be fulfilled by a molecular entity that is being considered or evaluated as a potential target for cancer drug discovery:
- 1.
There should be evidence in cell culture and whole animal models that changes in the function of the candidate target alone is sufficient to alter the relevant disease phenotype. Here, studies need to establish that the elevation of the expression or function of the putative target alone, in the case where it is stimulatory, is sufficient to induce the cancer phenotype. Where the function of the putative target is suppressive, there should be evidence that its overexpression alone is sufficient to abrogate the malignant phenotype. Such studies when appropriately conducted will provide information to build confidence in the target and to establish the causal relationship between the putative target and the cancer type.
- 2.
Definitive proof from studies in disease-relevant models of cell culture, and whole animals, and in clinical models that modulating the function of the molecular entity as a target alters the disease phenotype. Complementary to the studies conducted in response to the requirements in the criterion (1) above, it is important to employ the appropriate disease models, both in vitro and in vivo, to investigate the underlying critical role of the potential target in the incidence and the progression of the cancer phenotype. Granted that the putative target has a critical role in the disease, the modulation of the candidate target will be expected to result in a corresponding change in the cancer phenotype that is consistent with the purported role of the target in the disease.
- 3.
Finally, the molecular mechanism(s) of oncogenesis must be clearly outlined and defined in accordance with the assertion that a potential biological entity as target has a critical role in the development of the cancer type. One needs to ascertain how the function of the biological molecule is essential to the events that ultimately lead to the cancer phenotype. This will ensure that targeting this biological entity modulates some critical underlying mechanism(s) that support(s) the maintenance of the tumor.
These target-focused requirements are important considerations in determining the validity of a target for developing novel anticancer drugs for therapeutic purposes. The ultimate test of the validity of the target in relation to the cancer type is the clinical outcome in the appropriate cancer patients who are given the drug. An example is seen in the good clinical activity of Bevacizumab, the humanized anti-VEGF monoclonal antibody as standalone or used in drug combination. Various genetic, molecular, biological, and pharmacological approaches are frequently used to evaluate and validate a putative target and its relevance to cancer. While the experimental approaches to evaluate the potential for a molecular entity or biological event to make a good target may vary from one organization to the next, the basic premise remains the same and that is to establish the credibility of the putative target for the disease phenotype. The emphasis is on ensuring that a particular biological entity has all the necessary properties and fulfills the criteria for its consideration as a valid drug target. It suffices to mention that even when a target is validated, its credibility as a good target continues to be evaluated at every stage throughout the drug discovery process and finally at the level of clinical response when the drug is administered to patients [8, 10, 11, 14–18].
36.3.2 Lead Identification and Optimization , and the Development of a New Drug
The successful identification and validation of a target pave the way for the next step in the discovery process, which could be classified as designing and identifying leads that target the biological entity or entities and modulate their function (Fig. 36.1). This is an important phase in the discovery and development process and thus carrying out the studies in this phase may take several months to complete. Also, many small-molecule drug discovery approaches do not result in clinical candidates in a large because of the lack of a good lead [19, 20], thus securing a suitable lead for the drug discovery and development process is critical for the success of the program. There are no specific set of guidelines regarding how this phase may proceed. However, further studies defining and expanding on the understanding of the molecular and biochemical bases for the induction of the target could be incorporated into this phase so as to facilitate identifying specific key aspects of the target’s properties that may be amenable to exploitation for the design of lead molecules as modulators and potential anticancer agents. To some extent, studies here will also serve as proof-of-concept testing in order to establish the validity and viability of the strategy for generating suitable lead compounds. These studies may also test the therapeutic potential of the candidate drug in modulating the target(s) and the function of the target(s). The work at this stage includes the development of assays , both in vitro and in vivo, the screening of compounds, which may be on a high throughput screening (HTS) platform to identify leads, and a medicinal chemistry component with lead optimization steps, and subsequent further evaluation of derivatives or analogs. Where appropriate, these steps may be interspersed with the evaluation of activity, with the expectation of progress in terms of enhancement and improvement over previous generations of agents.
It should be noted that there are variations in the sequence of the conduct of these studies. The use of the lead compounds in studies to further provide proof-of-concept could also be conducted, and different types of assays can be performed simultaneously to evaluate multiple targets. Because each of the steps involved in the evaluation in this phase of the discovery and development process is crucial and will impact the final outcome, there are key considerations. These include the assay development and factors driving the assays and the screening strategy, such as specificity to the target, robustness, and the reproducibility of results, with minimum inherent errors or tendency for false positives, high sensitivity, and the cost-effectiveness. It is also important to establish criteria for the consideration of compounds for the initial screening and for the next stage of the evaluation following the first screening. The availability of set criteria allows to define and select suitable agents with optimum characteristics that lend themselves to the drug discovery process [21].
36.3.3 Specific Strategies to Identify and Develop Novel Anticancer Drugs
We will now examine some specific models of anticancer drug targets and the strategies taken to develop agents that modulate the functions of these targets. The discovery, identification, and validation of a molecular entity as a critical cause for the development, maintenance, and progression of cancer, and as a target are all important initial steps in the development of a new drug. Those initial investigations and evaluations together represent the rationale for initiating a discovery process with the focus on the target, and serve as the proof-of-concept in the support of the development of new anticancer agents that are directed at that target. Many of the critical biological entities that are altered in cancer and are considered as targets are signal transduction mediators or signaling intermediates, although there is also focus on nucleic acids as targets for developing anticancer therapeutics. Frequent genetic aberrations , including activating-mutations that lead to hyperactive behavior of the target proteins, suppressive mutations that result in repressed or lost functions, gene silencing by methylation that causes loss of functions, and abnormal post-translational modification patterns that create altered functions of proteins altogether serve as the driving force for the altered cellular phenotype and tumorigenesis. The abnormal functional properties of those altered biological molecules contribute to the dysregulation of the cell growth and survival processes , and induce angiogenesis, migration, invasion and metastasis, and the repression of host immune surveillance.