IDEAYA Biosciences, Inc. (IDYA) Earnings Call Transcript & Summary
December 12, 2022
Earnings Call Speaker Segments
Operator
operatorGood morning, and welcome to the IDEAYA Investor R&D Day. [Operator Instructions] As a reminder, this event is being recorded, and a replay will be made available on the IDEAYA website. I would now like to turn the call over to your host, Yujiro Hata, President and Chief Executive Officer. Please go ahead, sir.
Yujiro Hata
executiveGood morning, and welcome to our 2022 Investor R&D Day. My name is Yujiro Hata, and I'm the Founder and Chief Executive Officer of IDEAYA Biosciences, and I'll serve as your host today. And please note, we will be making forward-looking statements today and please refer to our SEC filings as appropriate. I would like to first start with welcoming our registered online listeners and provide a special thanks to our KOL speakers for their participation. Today, we have brought together a phenomenal lineup of speakers that bring deep expertise and are the foremost leaders in oncology spanning basic research to clinical development. Our KOL speakers today will be: Dr. Frank McCormick from UCSF; Dr. Carol Shields from Thomas Jefferson University; Dr. Karlene Cimprich from Stanford University; Dr. Mathew Garnett from the Wellcome Sanger Institute; Dr. Timothy Yap from the MD Anderson Cancer Center; and Dr. Ben Schwartz from GSK. To our KOLs, we are grateful for each of your time and very much look forward to hearing your deep insights today. To facilitate a smooth presentation, I will ask each speaker to please note next slide when you like your slide advanced. In terms of today's agenda, we'll first begin with the synthetic lethality paradigm, which Dr. McCormick will kick us off. Next, we'll go through darovasertib clinical evaluation in the Neoadjuvant Uveal Melanoma space, which Dr. Carol Shields, will walk us through. Next, Mike White, our Chief Scientific Officer, will go through combination approaches and MTAP deletion. Then we'll go into the section around our DDR, synthetic lethal pipeline. Dr. Karlene Cimprich will kick us off on targeting replication stress as an emerging synthetic lethality paradigm. And then Dr. Tim Yap will cover IDE161, which earlier today, we announced the IND filing for our PARG inhibitor, and he will also walk through that clinical development plan. Dr. Mathew Garnett from the Sanger Institute will then cover Werner Helicase. And then Dr. Ben Schwartz from GSK will finish this off with Pol Theta, and then we'll go into closing remarks and analyst Q&A. So with that, we'll have Dr. Frank McCormick from UCSF, kick us off. Take us away, Frank.
Frank McCormick
attendeeOkay. Thank you, Yujiro. Good morning, everybody. I'd like to explain to you the concept of synthetic lethality, which is at the core of IDEAYA's technology and a really important paradigm in cancer therapy. So synthetic lethality occurs in genetics when the simultaneous perturbation of 2 genes results in cellular or organismal death, whereas the perturbation of individual genes has no effect. So in cancer, this translates to synthetic lethal target as a protein that is dispensable in normal cells, but becomes essential in cells expressing an oncogene or losing a tumor suppressor. This protein is therefore, an ideal cancer target. This little cartoon explains how this works, and I'll give you a couple of examples to clarify it further. On the bottom left, we have 2 genes, A and B, which are expressed in normal cells, everything is good. In the tumor cell on the left, in this case, gene A is mutated either because it has a direct role in developing cancer or because it was bystander with some mutational event, but A is missing in these cells. The point here is, when we treat these cells with an inhibitor of protein B, in the normal cells, nothing happens because B is not essential in the presence of A. In the cancer cell, the cell is killed. So again, it's based out of this concept of perfect paradigm for treating cancer because the target is essential in the cancer cell in the context of mutations, but is not essential in normal cells because of the presence of other teams, which makes it nonessential. Now I'll just show you a couple of examples to explain how this works little more clearly in the next slide, please. So this is a classic example of synthetic lethality in cancer drug development, the synthetic lethal relationship between PARP inhibitors and BRCA1, BRCA2 mutations. So the way this works is, in normal cells, if a cell acquires a single-strand DNA break, this can be repaired by the enzyme PARP, and everything is okay. In the second panel, in the case of normal cells, again, if we inhibit PARP with a PARP inhibitor, then the single-strand break cannot be repaired by PARP, obviously. But luckily, BRCA1 and BRCA2 can take over and fix the damage to the DNA using a somewhat different biochemical mechanism. And in this case, the cell survives because BRCA1, BRCA2 fixed the damage in the absence of active PARP. But in the bottom panel, obviously, in a tumor cell in which the BRCA1, BRCA2 complex is defective for some reason, if we now inhibit PARP, then the single-strand break cannot be fixed and the cell then dies. So the lack of a backup system, the BRCA1 system enables PARP to kill cells in the tumor cell environment in situation, but not in normal cells because of this backup of the BRCA1 complex. Now the next slide, please. This shows a slightly different take on the synthetic lethal concept in the world of signal transduction. And signal transduction, many pathways are redundant in normal cells. So in this case, I show that KRAS activates RAF kinases, of which there are 3 varieties: A-RAF, B-RAF and RAF 1. If we ablate any one of these RAF proteins, the cell doesn't really care because they have functional redundancy. However, we find that in a cancer cell with mutant KRAS driving the oncogenic process, the signal from KRAS goes -- or the oncogenic signal from KRAS goes exclusively through RAF 1. This means, if we ablate RAF 1, then the tumor cell driven by KRAS will die, whereas normal cells will tolerate that ablation because of the redundancy between the RAF -- 3 RAF isoforms. Unfortunately, we don't have a way of ablating RAF 1 as a therapeutic modality at this point in time, but this just makes the concept that in normal cells, redundancy makes the cells able to take these kind of hits. Next slide, please. Now we can identify these synthetic legal relationships by a deep understanding of the pathways involved in DNA repair and related activities. I showed on these very complicated pathways on the left, or by understanding the signal transduction networks shown on the right panel. And the scientists at IDEAYA and the advisory Board members are indeed experts in these areas, and can certainly identify novel synthetic lethal path, just based on our deep understanding of these pathways. Next slide, please. In addition to analyzing literature and databases which explain how these pathways work, IDEAYA has developed novel methods for identifying new sensitivity for pathways using a CRISPR technology, another state-of-the-art technology for identifying functionality in normal cells and cancer cells and identifying new relationships that could be exploited by using the synthetic lethal paradigm. And that's one of the real major strengths of IDEAYA, the ability to integrate public databases, novel techniques to identify and prosecute synthetic legal targets. Thank you. I think that was my explanation of synthetic legal paradigm. Thank you.
Yujiro Hata
executiveGreat. Thank you so much, Dr. McCormick, for kicking us off. We'll now go into the next section, which I'll go through, just 2 slides here on IDEAYA's vision, strategy and broader pipeline. Since the company's founding over 7.5 years ago, we have never been more excited about the progress at IDEAYA, and the field has made an advancing first-in-class synthetic lethality targets, both pre-clinically and clinically. And we believe the next several years will be an extraordinarily exciting period for IDEAYA and the broader biotech and pharmaceutical industry in the field of synthetic lethality, as punctuated by the announcement of the IND filing to the U.S. FDA on first-in-class PARG inhibitor, IDE161 to treat PARG inhibitor resistant BRCA1/2 Breast and Ovarian Cancer patients earlier this morning. IDEAYA's vision and strategy to build a leading synthetic lethality-focused precision medicine oncology company has been driven by the following key strategic imperatives: First, since our founding, building a pipeline of first-in-class synthetic lethality programs that target high unmet medical needs has been at the epicenter of our corporate strategy as exemplified by PKC inhibitor darovasertib; MAT2A inhibitor IDE397; PARG inhibitor IDE161; Pol Theta Helicase development candidate and our Werner Helicase program. Next, our underlying thesis to build IDEAYA has been on the importance of having a biomarker to enrich for the responder population. It's clearly exemplified by the GNAQ/11 biomarker for darovasertib, the MTAP deletion biomarker for IDE397, the BRCA HRD biomarker for IDE161, the BRCA HRD biomarker for the Pol Theta development candidate, and a high MSI biomarker for the Werner Helicase program. Next, we believe, a key strategy to deliver maximum patient benefit will be through enabling compelling rational combinations such as PKC and cMET, MAT2A and PRMT5, Pol Theta and PARP, and Werner Helicase and PD-1, and we will continue to invest in this area, specifically in the partnerships we form and with our next-generation synthetic lethality programs. From a strategic capabilities perspective, we believe that data exploration and synthetic lethality, and cancer genetics more broadly, creates a unique challenge, but more importantly, an unprecedented opportunity. And with that, we have built leading capabilities in bioinformatics and AI machine learning to enable robust synthetic lethality target and biomarker discovery platform that will continue to enable our existing and next-generation pipeline. Next, in terms of strategic capabilities, IDEAYA has built a truly differentiated drug discovery capabilities in synthetic lethality where we now have a proven track record of successfully drugging historically challenging target classes, such as helicases and polymerases. This point is exemplified by our structural biology success in resolving the co-crystal structures for the MAT2A, PARG, Pol Theta Helicase and Werner Helicase programs amongst many others. Lastly, due to the breadth of our targets and patient selection biomarkers, we believe, ctDNA will be a core technology that will enable our pipeline as well as the broader field of synthetic lethality. For example, liquid biopsy technology provides a powerful platform to enable non-evasive patient selection and a non-evasive method to measure tumor pharmacodynamic response. And perhaps, most importantly, it provides a potential tool to be able to intervene earlier in the patient's journey. Our pipeline slide provides a compelling snapshot of the progress we have made in executing on our vision and strategy with 3 potential first-in-class clinical to IND stage programs with darovasertib, IDE397 and IDE161 and the GNAQ/11,MTAP deletion and BRCA HRD biomarker settings. Next, in the near term, we are targeting to have 5 potential first-in-class clinical programs with the advancement of Pol Theta Helicase to Phase 1 in the first half of 2023 and a Werner Helicase candidate nomination next year. Next, within our 2026 cash runway, we anticipate we will have 6 or more potential first-in-class synthetic lethality programs in the clinic, all of which with an associated patient selection biomarker to help enrich for patient response. The next sections of the presentation that will be presented by our KOLs and Chief Scientific Officer, will provide key highlights and insights across each of these programs. With that, we'll move on to our next KOL speaker. Just gives me absolute great pleasure to introduce Dr. Carol Shields, who will walk through darovasertib clinical evaluation and Neoadjuvant Uveal Melanoma. As several listeners are very aware, we're targeting to initiate a potential registrational trial in the Metastatic Uveal Melanoma setting. We wanted to take this moment on R&D Day to cover a new expansion opportunity, Neoadjuvant Uveal Melanoma, which we know -- we as well as various KOLs are quite excited about. So with that, Dr. Shields, please take it away.
Carol Shields
attendeeThank you very much. Good morning, everybody. Today, I'd like to talk to you about uveal melanoma. This is the most common eye cancer -- primary eye cancer in the United States and in Europe. This eye cancer develops from a mutation in the GNAQ, GNA11 region of the cell that leads to the PKC or the protein kinase C pathway, and this is where darovasertib interacts and inhibits this pathway. This pathway leads to the MAP kinase pathway that eventually leads to the development of ocular melanoma. Darovasertib, or I'll call it, daro, is an investigational potent and selective PKC inhibitor that is administered orally. And GNAQ and GN11 mutations occur in over 90% of patients who develop uveal melanoma. So this is a common pathway. Now on the bottom, we see 2 schematics. These were 2 pre-clinical in vivo experiments on primary uveal melanoma with GNAQ mutant cell lines. And you can see on the left graph, there was a robust, dramatic dose response to daro. The black line indicates vehicle only; the blue line, daro 15 mgs/kgs; The red, the orange and the purple line with increasing dose, you can see that tumor volume was completely controlled with daro. Now on the right graph, we see that daro maintains sensitivity. So the black lines chose vehicle only with no response and the purple line shows daro causing tumor volume to drop down to 0. And when we stop dosing, the volume eventually comes back, but it's still sensitive. If we re-dose the tumor goes away again, and this is very important. Currently, there are no approved systemic therapies for uveal melanoma and daro could be the first approved systemic therapy for Neoadjuvant Uveal Melanoma. Next slide. So the current -- there's a high unmet need to improve patient outcomes with uveal melanoma, and daro could fit this unmet need for neoadjuvant and adjuvant setting for the management of uveal melanoma. Currently, we treat uveal melanoma with eye removal or a nucleation for patients who have large tumors. And those that have small and medium tumors were able to save the eye, but we need to use radiation. And this leads to poor vision in about 80% of patients, blindness in these patients. And to top that, metastatic disease occurs in about 50% of patients who have uveal melanoma. So this is a terrible disease to deal with. We need a neoadjuvant or an adjuvant systemic therapy because it could reduce or prevent micrometastatic disease and save lives. But in addition, we might be able to save the eye by avoiding a nucleation and we might be able to shrink tumors to the point that the amount of radiation we need to give to the eye is much less and patients may have lives saved, eyes saved, and they may actually have some vision saved. So this could impact 8,000 to 9,000 patients in the U.S. and Europe. Next slide. So there is preliminary clinical proof of concept from our colleagues in Australia for the use of daro as neoadjuvant for uveal melanoma. In this waterfall plot, I show you 5 cases of patients who had primary uveal melanoma who received daro in the neoadjuvant setting. Now the 3 blue columns indicate patients who had daro monotherapy for only 1 month. And you can see that the primary tumor in the eye showed a response in all 3 cases with 10% to 20% reduction in thickness. This is amazing. We've never had a drug to do this before. And then, in the yellow column, this was a patient who had primary eye melanoma and metastatic disease, and daro monotherapy for 2 weeks caused 75% reduction in the tumor in the eye, again, measured by PET scan and a very impressive response. And then the last purple column is perhaps the most amazing of the 5 cases. This patient had primary uveal melanoma and metastatic disease, received daro and crizotinib for 10 months, and the tumor completely resolved with 100% tumor reduction. All 5 of these cases show consistent and clear evidence of response even within 1 month of the use of daro, and this provides a rationale to treat to the maximal response for clinically meaningful improvement in primary therapies, and it should be stated that this was a well-tolerated oral treatment. But I'd like to talk about that last column, the purple column on the next slide, please. So this was a 50-year-old patient who had a large melanoma in his right eye. And you can see on the MRI imaging, the top shows axial use -- cross-sectional axial views, and the bottom shows cross-sectional sagittal use of the tumor. And this patient received daro and crizotinib. And in the first, on the upper left, you see baseline axial view showing the tumor filling almost half the eye. And that month 5, next to it on the right, you can see a response where the red arrow is. Then month 8, further response, and at month 10 on the far right upper level, there was a 100% response. The tumor was completely gone. Now on the bottom, on the sagittal view, you see the same with the red arrow showing the math at baseline month 5, month 8 and completely gone at month 10. This patient remains on treatment at 11 months, and this was 100% response. Again, very impressive. I've been in the field for 37 years, and we've never had a medication that could cause such dramatic response in the eye. Next slide. So we have plans for Phase II study of neoadjuvant and adjuvant daro monotherapy treatment. And this will be a Phase II study. The neoadjuvant component will have 2 cohorts. Cohort 1 are those eyes that we would normally submit to a nucleation. Cohort 2 would be those that we would normally treat with plaque brachytherapy. That's the small to medium tumors, enucleation to large tumors. And then we'll give neoadjuvant daro and treat until maximum benefit with our definitive primary therapy, to hopefully obtain organ preservation and vision preservation. Then after we deliver the definitive primary therapy, we will move on to adjuvant therapy, monotherapy of daro, to look for relapse free survival and useful vision in these 2 cohorts of patients. So again, for cohort 1, our goal is for -- the primary endpoint for neoadjuvant therapies of daro. We would want eye preservation so we could shrink the tumor and save the patients from having the eye removed and maybe move on to radiation. And in cohort 2, our goal would be to reduce the tumor to a point where radiation does not impact the vision as much as it currently does. These neoadjuvant endpoints are anticipated to be proximal in time to the definitive primary therapy. And then, our secondary endpoints for the adjuvant trial would be relapse free survival and useful vision. Next slide. So I'd like to thank you for allowing me to speak to you on the clinical applications of daro monotherapy as neoadjuvant and adjuvant therapy for the most common eye cancer, uveal melanoma. Thank you.
Yujiro Hata
executiveGreat. Thank you so much, Dr. Shields, and it's wonderful to have your perspective as an oncologist and clinician coming on 40 decades in this important area. So with that, we'll shift gears here. I pass it on to Dr. Michael White, our Chief Scientific Officer, that will go through mechanistic advances to support combinations to treat MTAP deleted tumors. Mike, take it away.
Michael White
executiveThank you, Yujiro. I'd like to start out by just harking back to Frank's introduction. And on the next slide, noting that IDEAYA's MAT2A inhibitor program was really launched to address disease that arises as a consequence of the most common homozygous deletion observed across all tumors. This occurs on chromosome 9p21.3, and disables a cell intrinsic barrier to tumor genesis by eliminating the CDKN2A and CDKN2B tumor suppressors. Now, more often than not, this deletion also eliminates a nearby gene MTAP, methyl-thioadenosine phosphorylase, and this creates an Achilles heel in these tumors that can be attacked by inhibition of MAT2A, methyl -- methionine adenosyltransferase. And a mechanistic basis of this well-appreciated synthetic lethal relationship is illustrated on the left. I'll quickly go through that. Elimination of MTAP causes an accumulation of the MTAP substrate MTA, methyl-thioadenosine. This is a metabolic intermediate that directly binds and partially inhibits the arginine methyltransferase PRMT5, and PRMT5 is an essential enzyme required for mRNA maturation. So inhibition of MAT2A reduces the cellular concentration of S-adenosyl methionine, SAM, the methyl donor required for PRMT5 activity, thereby further reducing PRMT5 activity in MTAP null tumor cells below the threshold required for life. And over there on the right, you'll see that IDE397 is a potent MAT2A inhibitor, reducing cellular SAM with low nanomolar IC 50. This in turn impairs PRMT5 dependent protein methylation selectively in MTAP-null cells, which, as expected, is selectively lethal in MTAP-null cells. Now based on the prevalence of MTAP deletions, this synthetic lethal relationship potentially arises in over 75,000 cancer patients per year. On the next slide, please, Yujiro. Consistent with this mechanistic data, clinically relevant doses of IDE397 display broad anti-tumor activity across MTAP-null patient derived xenografts derived from multiple tumor types. In the panel on the upper left, we're plotting percent tumor growth inhibition by IDE397. We're 100% indicates, complete tumor spaces, and greater than 100% indicates tumor regressions. You'll note that while tumor control is histology agnostic, tumor regressions are enriched within distinct tumor types. As shown on the bottom left, maximal PRMT5 inhibition as measured here by drug-dependent reduction in tumor SDMA, the product of PRMT 5. This is also enriched within distinct histologies. The most notable is squamous cell lung cancer disease with high unmet need, where fully half of the models tested respond to IDE397 monotherapy with tumor regressions, middle corner on the top panel. Now, as expected, tumors that shrink upon IDE397 exposure show marked perturbation of RNA splicing on drug, a key consequence of PRMT5 inhibition. You can see that on the bottom panel, contrasted with an example of a treatment-resistant tumor labeled here as PDX7. This particular analysis employee - multivariant analysis of transcript splicing from ultra-deep RNAseq. So collectively, to us, these observations really indicate that MTAP deletion is necessary, but not sufficient for a maximal antitumor response to PRMT5 pathway inhibition. Context matters. This became even more evident when we examined baseline PRMT5 activity in MTAP wild type versus MTAP-null tumors. This was evaluated by SDMA staining of tissue micro arrays of sections from over 600 PDX models, where MTAP status was confirmed by both NGS and IHC. As you can see on the top right panel there, in our most responsive tumor type, there is a highly significant reduction of SDMA accumulation in MTAP-null tumors at baseline compared to MTAP wild type. Exactly what you would expect if the PRMT5 pathway was partially suppressed in MTAP-null tumors due to the accumulation of MTA. On the bottom are a couple of examples that show you what the mean H-scores actually look like in this histology. You can see it's a big difference. Contrasting examples shown on the upper right, here's the tumor type with no discernible differences in SDMA accumulation in MTAP-null versus MTAP wild type, and we don't see regressions in response to IDE397 monotherapy in PDX models derived from this particular tumor type. So 2 take-home messages here. First, context matters, and we are leveraging this knowledge to prioritize our clinical POC strategy in tumor indications most likely to respond to monotherapy. Second, are there a combination strategies that can broaden the frequency of deep therapeutic responses to IDE397 in MTAP cancers across histologies? Now we believe the answer to this question is yes, because we find an inhibition of MAT2A and MTAP-null cancers confers mechanistic vulnerabilities to multiple clinically actionable synthetic lethal drug combinations, relevant in multiple tumor types, and I'll show you how we got there, on the next slide. So to identify rational IDE397 combination partners, we employed a comprehensive 3-pronged approach. This dovetailed molecular profiling of IDE397 drug effects in vivo, computational identification of selective drug sensitivities in MTAP-null cancer cell lines across the CCLE, and empirical high-throughput in vitro drug combination screens. As you can see in Column 1, unbiased pathway analysis of IDE397 dependent gene expression changes in MTAP-null PDX tumors revealed perturbations of RNA splicing, DNA damage repair and mitotic spinal assembly as drug effects that are shared across tumor types. Notably, as indicated in column 2, single agent response to drugs that inhibit these same processes were enriched in MTAP-null versus MTAP wild type cell line. So this suggests that the biology altered by IDE397 in tumors is already partially impaired by MTAP deletion. Finally, as indicated in Column 3, an IDE397 drug combination with [ validity ] screen of over 400 compounds across multiple cell lines, return hits that engage these same mechanisms, namely taxanes, platins, DNA damage enzyme inhibitor, splicing inhibitors and antifolates such as pemetrexed that synergize with IDE397 to kill MTAP-null cancer cells. So when you put all this together, these observations indicate that MAT2A inhibition can induce cell states that are now vulnerable to important approved chemotherapies and targeted therapies. And this is important because it potentially provides a predictive biomarker strategy for multiple IDE397 synthetic lethal combination opportunities. That concept chemically converts synthetic lethality, is illustrated on the next slide. As shown there on the far left, we think that within disease context like squamous cell lung cancer, there's already an optimal cell state for a single-agent intervention with IDE397. Importantly, in disease contexts that are cell optimal for monotherapy response, IDE397 exposure installs a new vulnerability selectively in the MTAP-null setting that can be exploited with an appropriate combination partner. The 2 standouts for us are the folate cycle and the PRMT5 pathway itself. As noted in the center panel, a pemetrexed combination with IDE397 exploits the tight interconnectivity of methionine salvage, de novo machine synthesis, and folate metabolism to disrupt purine and pyrimidine production required for rapid cell proliferation and resistance to environmental stress. As noted on the right, an MTA cooperative PRMT5 combination with IDE397 delivers maximum SDMA pathway suppression. I'll show you what these interactions look like in vivo on the next slide. On the far left there is a lung and a carcinoma PDX model where the maximum benefit with IDE397 or pemetrexed monotherapy is tumor spaces or partial tumor growth inhibition. In contrast, the drug combination flips this phenotype into robust regression. Combination benefit was observed in other tumor types as well, and we are now testing this drug combination in the clinic. In the middle panel, you'll note complete responses in a lung adenocarcinoma model with a combination of IDE397 and an MTA-cooperative PRMT5 inhibitor using doses well below those required for any notable single-agent activity as much as tenfold below, in fact. Similarly, on the far right, we saw tumor regression in a very challenging pancreatic cancer model exclusively in combination. So based on the strength of this pre-clinical data, we've done a collaboration with Amgen to evaluate this combination in the clinic. On the next slide, last slide for this section, our KOL feedback advocates a novel-novel combination development strategy for MAT2A and PRMT5 combination that employs a crossover dose escalation design to capitalize on compounds that are expected to show combination benefit at doses well below those required to single-agent activity. Based on the pre-clinical data, proof-of-concept could come quickly. So with that, Yujiro, I'd like to switch gears and introduce today's section on selective essentiality in DNA damage repair, another important therapeutic paradigm that holds great promise for many cancer patients. As Frank and Yujiro alluded to, cellular genomes are constantly dealing with damage control due to replication errors and exposure to environmental stresses. And as such, defects in the cellular machinery preserving genomic integrity leads to the accumulation of mutations that can promote cancer. But they also lead to cancer cell specific dependencies on backup DNA repair systems. This, of course, presents synthetic lethal opportunities to kill those cancer cells by dragging our backup data and repair systems. IDEAYA's DNA damage response synthetic lethal pipeline aims to do just that, and is maturing quickly. As you heard from Yujiro, a potential first-in-class PARG inhibitor, IDE161 is on target into the clinic early next year to address synthetic lethal opportunities in HRD cancers, including PARP inhibitor resistant disease. PARG inhibition also has the potential to address a newly appreciated synthetic lethal opportunity with oncogene induced replication stress. This is a widespread phenomenon in cancer cells, whereby this regulated DNA replication can generate a cascade of damage producing lesions in tumor DNA, and you'll be hearing about that from Dr. Cimprich and Dr. Yap in a moment. Our Pol Theta Helicase program in collaboration with GSK is also on track to enter the clinic next year as a potential best-in-class asset, to drive deep and durable responses in combination with niraparib in patients with HRD cancers. And our Werner's Helicase program also in collaboration with GSK has established pre-clinical proof of concept in cancers with high microsatellite instability, and we expect to nominate a clinical development candidate next year. You'll be hearing about Werner's from Dr. Garnett, and Pol Theta from Dr. Schwartz. So, with that, Dr. Cimprich, I am completely delighted to turn the floor over to you to tell us about targeting replication stress as an emerging synthetic legal paradigm.
Karlene Cimprich
attendeeThanks, Mike. Good morning, everyone. My lab is interested in understanding how genome instability arises in cancer cells. And these 2 images here illustrate this instability in a couple of ways by examining metaphase chromosomes on the left and by sequencing on the right. And what you can see in both our translocations and aneuploidy or the loss or gain of whole chromosomes. But what you can see are the smaller changes that are also quite abundant in cancer cells, ranging from smaller insertions and deletions to point mutations. Next slide. So genome instability is one of the so-called hallmarks of cancer, with each segment of this circle shown representing one of the hallmarks articulated on the right, and genome instability is a driver of many of these hallmarks because it allows cells to accumulate mutations rapidly. Thus, cancers can more quickly gain the other characteristics that allow them to become tumorigenic. Next slide. Now importantly, genome instability is often induced by DNA damage and by replication stress, which is also quite common in cancer, and this is really the heart of what I do at my lab. And notably, there's been an intense interest in replication stress since it was learned that oncogenes and tumor suppressors as well as activated growth factor signaling can lead not only to sustained proliferation, but also to replication stress, thereby driving the genome instability that we just looked at. Next slide. So what is replication stress. I want to define that more clearly with this illustration, which shows you 2 replication forks in the process of copying DNA and approaching in the center a number of potential barriers to replication work progression. These can range from lesions in the DNA to secondary structures such as R loops or limiting nucleotide conditions, and these types of barriers can arise in cancer cells from alterations and metabolism that lead to oxidative damage, to defects and repair, changes in the control of DNA replication, or changes in nucleotide pools. And when these barriers persist due to loss of resolution factors, the replication fork can slow at these barriers causing so-called replication stress. And while slowing itself is not necessarily a bad thing, a fork stalled at a lesion or other barrier is prone to double strand brake formation and can be difficult to repair, leading then to breakage and rearrangement. So to be clear, replication stress itself is not damaged, but damage can lead to replication stress, and replication stress can result in damage. Next slide. Now fortunately, the cell has a robust response to stalled replication forks known as the replication stress response, and this response can be activated by many DNA damaging agents, chemotherapeutic agents and by oncogenes, and that helps slow down cell cycle progression and DNA replication. It can also help promote and coordinate different forms of repair, and in the extreme promote cell death. ATR is a key regulator of this response, acting at the level of DNA to effectively sense the damage that causes stress. And a question we asked ourselves was, how does the ATR kinase acting upstream of the Chk1 kinase detect all of these different types of damage. And a key finding that's been made is that these different types of damage effectively activate ATR and S phase by turning those lesions into the same common intermediate, as shown on the left. That intermediate results when the replicative helicase moves past the lesion or barrier and continues to unwind the DNA, but the DNA polymerase stalls at that lesion. That leads to the formation of single-stranded DNA and other structures that can be a platform to recruit the single-stranded binding protein RPA, then ATR and its activator TOPP1, inducing this stress response. So it's not really the different lesions per se that activate ATR, but their common effect on DNA replication. Now importantly, ATR activation effectively stabilizes forks and prevents the dangerous continuation of replication. And we now know that loss of ATR, its inhibition, particularly under conditions of replication stress can lead to extensive DNA brake formation. And this replication catastrophe, which is sometimes called, is shown on the right, and can result from premature origin firing and cell -- premature cell cycle entry. Now because cancer cells have high levels of replication stress, they may rely heavily on this pathway to keep them alive. And that's led to the idea that ATR and its effectors could be targeted in the clinic. But there's still a lot about this response that we don't understand and resistance to ATR inhibitors can emerge at least in cell culture systems. Moreover, it's important to recognize that cancer cells also somehow tolerate replication stress and damage. So despite their high levels of stress, they somehow continue to replicate their DNA and they don't persist in this arrested state. So an important question is, how is it that they tolerate that damage and that stress. Next slide. So one process really relevant to the idea of tolerating damage and replication stress is replication for reversal which can be observed following a variety of different types of DNA damage. And that idea is shown here. Fork reversal is a rearrangement of the replication fork that occurs when the 2 parental strands shown here in black are re-annealed sort of like a zipper being closed. That's accompanied by the hybridization of the 2 nascent DNA strands, which are shown in green, to form a fourth arm at the fork. This rearrangement effectively backs up the progressing fork, slowing its movement. And when a lesion is present, which is cartooned here in yellow, it puts that lesion back into the context of double-stranded DNA so that repair can occur. And it turns out this is a relatively common event observed by electron microscopy at about 25% of forks in cells treated with DNA damaging agents. Next slide. So Fork reversal is actually an active process mediated by a variety of enzymes, among which are a set of ATP-dependent chromatin remodelers, which help reverse the fork and form that structure, and another enzyme called PARP which stabilizes this structure. But fork reversal can also be countered by other processes that promote fork progression, and inhibition of certain steps in these different pathways can really tip the balance between these processes to prevent persistent fork stalling. So to introduce you to these pathways, one pathway that allows the fork to continue in the presence of damage is translesion synthesis or TLS, shown on the lower right. And during this process, the cell uses an alternative polymerase that can accommodate a lesion in its active sites to continue DNA replication. Another process that can occur is known as repriming, and this involves the PrimPol enzyme, which has both primase and polymerase activities. And as shown on the upper right, PrimPol can bind single-stranded DNA to restart DNA replication, downstream of the lesion. And that also keeps the fork moving that leaves behind gaps in the DNA that can be filled either by TLS or by other recombination like processes. And while both processes are thought to be mutagenic in nature, they can allow replication to proceed, and they can help the cell tolerate damage. Hence, they can lead to the emergence of resistance. It's worth noting though that some mutations observed in cancer can alter this balance. So for example, treatment of BRCA deficient cells with cisplatin can lead ultimately to upregulation of PrimPol, driving the cells towards this outcome. And we've also observed that the loss of a protein called HLTF prevents fork reversal, promoting continued replication and resistance to replication stress inducing agents and ATR inhibitors by allowing PrimPol to act. Next slide. To sum up that idea and a number of others, I think a lot of new work is suggesting that the replication fork is a highly adaptable process and that there's remarkable plasticity in the ability of the fork to respond to stress that cancer cells take advantage of to tolerate that stress by tweaking the balance of these pathways, and this makes some of these pathways potentially interesting new targets. For example, PARG inhibition prevents the restart of reversed forks, keeping forks in the state on the lower right and unable to adapt to or tolerate replication stress by continuing through other processes. Similarly, TLS polymerase inhibitors can block continued synthesis and gap filling on the left. And very recent evidence also suggests that Pol Theta may play a role along with TLS in filling gaps at the fork, creating an opportunity for use of inhibitors to this enzyme as well. Next slide. Now our interest in understanding how cancer cells tolerate and respond to replication stress also led us to another question, and that is, what are the natural sources of damage and replication stress in cells that activate proteins like ATR. And to get at this years ago, we did a genetic screen asking what pathway suppressed damage in human cells. And somewhat, to our surprise, one of the most common sources of damage we identified were perturbations to RNA processing and to splicing. And this observation ultimately led us to realize that our loop structures, which are shown here, are likely an abundant source of replication stress in human cells. So first, to explain in R loop, this is a structure that forms co-transcriptionally when newly synthesized RNA rehybridizes to DNA near RNA polymerase 2, to form a hybrid and a stretch of single-stranded DNA, and you see that in the center here. And what we found is that there are many different perturbations that can cause the formation of these structures, which can in turn cause DNA damage in a particular DNA double-strand break. At the same time, it's known that these structures are present throughout the genome at low levels, and they have physiological roles in the cells, for example, controlling transcription. So the cell seems to dedicate a lot of resources to prevent the accumulation or persistence of R loops and they're turned over rapidly by helicases, nucleases and some repair factors like the tumor suppressor genes, BRCA1 and BRCA2. Next slide. Another complexity in our genome is also that transcription and replication happen on the same template, and that can create conflicts with R loops at the center of many of these conflicts. So to better understand these collisions, we actually studied the interaction of R loops with a replication for approaching in both orientations, as you've seen here. And while both types of collisions are a problem for the cell, what we learned is that cells can activate ATR when the machineries -- the replication and transcription machineries collide head on, but they could activate a different damage response kinase ATM, when they're moving in the same direction. And recent studies have indicated that ATR activations seen in the context of R loops may help prevent damage at the stalled forks. So ATR inhibitors may be effective in settings where R loops are elevated. For example, MAT2A inhibition could promote R loop accumulation and MTAP-null tumors by inhibiting mRNA splicing, elevating replication stress, particularly in combination with ATR inhibitors. Next slide. In recent years has also come the discovery that cells can signal the replication stress response to the tumor microenvironment by activating a pro-inflammatory response, and this can happen in a couple of ways. For example, in certain conditions stalled for processing has been linked to the formation of cytoplasmic single-stranded DNA shown on the top here, and that can lead to activation of the cGAS STING pathway and an interferon response. Additionally, aberrant DNA replication can lead to mitotic defects in micronuclei formation as shown on the little right, and that appears to activate a related pathway through cGAS as well. And while activation of this pathway could in principle lead to cell death, it also appears that cancer cells have often adapted to this state. Next slide. Next -- Recently, we've also made the observations that R loop processing can lead to activation of this response. So specifically, we found the deregulation of nuclear R loops by various means leading to their accumulation, leads to a problem with their clearing and their efficient resolution. And we find that these persistent R loops can be processed by 2 endonucleases, leading to the accumulation of RNA DNA hybrids in the cytoplasm and DNA breaks. And that, like single-stranded DNA can in turn trigger IRF3-mediated innate immune signaling through cGAS and TLR3, and ultimately lead to apoptosis and other responses. Next slide. So I'll just kind of conclude by saying that our efforts in that many labs to understand fundamental mechanisms of the replication stress response have really shown that replication stress is a common characteristic of cancer with many causes and many consequences. We've also learned that cancer cells can critically depend upon this response and have found ways to adapt to and really tolerate that stress. And this really opens the doors for new treatments, of course. ATR inhibitors and others targeting the stress response pathway are now under active clinical investigation. IDE397, as mentioned earlier, may be an intriguing combination partner in this setting due to its ability to safely promote R loop accumulation in MTAP depleted tumors. As you'll hear from Timothy Yap in a moment, PARG inhibition can also be attractive inducing the collapse of stalled replication forks and this may be a new target opportunity in tumors that have high replication stress. And finally, there's a lot of emerging very recent evidence that implicates Pol Theta in the resolution of replication stress associated DNA damage by preventing the conversion of single-stranded DNA gaps into double-stranded DNA. So as I suspect that we've probably just begun to tap into the potential of drugs targeting the damage response, the replication response and R loop processing pathways, and there will be many ways to think about this in the future. So I'll just wrap it up there. Thank you for your attention.
Yujiro Hata
executiveGreat. Thank you so much, Dr. Cimprich, for a really elegant walk-through of very complex biology. So thank you so much for that. So with that, it gives me great pleasure to introduce Dr. Timothy Yap from MD Anderson Cancer Center. As was earlier noted, we announced earlier today the IND filing on potential first-in-class IDE161, and we're delighted to have Dr. Yap introduce the program as well as the molecule and the first outline of the proposed clinical development plan. With that, Dr. Yap, we'll hand it off to you.
Timothy Yap
attendeeThanks very much, Yujiro. So, thanks again for the very kind invitation, and thanks all for being here. So PARG really is a poly (ADP-ribose) glycohydrolase that removes the PAR chains from proteins that have been modified by PARP. As you heard Frank describe earlier, PARP activity initiates the repair of damaged DNA by recruiting DNA repair proteins to the DNA break. And PARP is the enzyme that actually competes -- that completes the DNA repair cycle by releasing those DNA repair proteins from the restored double Helix. And this activity places PARG in a clinically validated pathway that is synthetic lethal with HRD. So the hypothesis here is that the position of PARG, and the PAR relation cycle really presents opportunities for our PARG inhibitor that are distinct from PARP inhibitors, and these include tolerability, activity and PARP inhibitor resistant BRCA mutated cancers, and the potential to work in TMS beyond BRCA and HRD. The letters, particularly evident in the context of replication stress, which as you just heard from Karlene, is a potentially widespread phenomenon in cancer cells that leads to a heavy reliance on PARG to maintain replication forks' ability through assays. Where things get really interesting is that PARP and PARG inhibition in the setting of replication stress can lead to 2 distinct cellular outcomes. PARP inhibition promotes unrestrained fork progression and DNA damage that needs to be repaired by translesional synthesis, template switching, NHEJ, MMEJ or HR. And in contrast, PARG inhibition leads to stalled replication fork reversal, creating these so-called chicken foot structures, which have not resolved as followed by endonucleolytic attack and genomic replication of fork collapse and mitotic catastrophe, and this difference potentially accounts for the observed distinct cellular response to PARG inhibition versus PARP inhibition, and leads to a synthetic lethality concept whereby any context that increases the number of stalled forks in a cell would be expected to increase reliance on PARG activity. And the data to date suggests that replication stress is indeed a tumor-selective vulnerability that can be exploited by PARG inhibition. Next slide, please. So the clinical candidate IDE161 is a potent orally bioavailable PARG inhibitor that was discovered through extensive chemical compound screening and a biochemical PARG activity assays, coupled with crystal structure-based design strategies. And if I can draw your attention to the right, cellular PARG inhibition with IDE161 results in accumulation of power chains and the induction of the DNA damage response pathway in HRD cancer cells, consistent with the expected mechanism of action. Next slide, please. So the team at IDEAYA have tested the response of over 260 molecularly characterized cancer cell lines to IDE161. And we found that the most sensitive cell lines are shown to the left of the vertical dash line, and the first panel had molecular features associated with defective DNA repair systems, high parylation activity and replication stress. That has shown -- an example of this is shown in a middle panel where you can see very strong enrichment of HRD as defined by mutations in key HRR genes among breast cancer cell lines with low IDE161, IC 50s, and the P value here is 0.008. And finally, as shown on the right panel, it's important to note that many HRD cell lines are indeed selectively sensitive to PARG inhibitors versus PARP inhibitors. Next slide, please. And then consistent with all this, there are indeed many instances where IDE161 induces strong regression of HRD tumor models in vivo. As shown on the left, these responses can be quite durable over time at well-tolerated doses. And as expected from IDE161's mechanism of action, we see very nice PARG accumulation in TMS as early as 1 hour post dosing, which we expect to be able to follow in patients as a robust pharmacodynamic response biomarker. And on the right are examples of IDE161 induced regressions in BRCA mutated breast cancer PDX models that are only marginally responsive to PARP inhibition using the maximum tolerated dose of niraparib. Next slide, please. IDE161 has demonstrated a favorable safety profile in pre-clinical pharmacology and toxicology studies, and this differentiates it from PARP inhibitors. And consistent with myelosuppression observed in a clinic, PARP inhibitors show clear evidence of myelosuppression and nonclinical toxicology studies that -- systemic exposures that are associated with clinically relevant doses. And as shown in the graph on the left, PARP inhibitors show a reduction in circuiting red cells and neutrophil counts in the red following repeat oral dosing for either 4 weeks or 13 weeks. IDE161 did not show decreases in these parameters in the rat and exposures equivalent to all several multiples of the systemic exposure at the estimated human therapeutic dose. And these data point to the possibility that the combination of IDE 161 and chemotherapy may be better tolerated than PARP and episodic chemo combinations tested to date. As noted in the bullets on the right, the human efficacious dose predicted is based on the pre-clinical dose required to induce tumor regressions, as you saw in the previous slide, and we expect to get there within the first few cohorts of our dose-finding study. And also shown here, IDEAYA has successfully developed a robust IDE161 API synthetic process and a late phase ready tablet formulation and produced a high-quality GMP tablet batches and 3 [ strengths ]. Next slide, please. The clinical development plan will be built and driven directly on the pillars that have been laid out from the pre-clinical work, namely, the ability to impact tumors that have evolved through prior therapies with platinum agents and/or PARP inhibitors. And patients who have progressed on PARP inhibitors certainly represent an ever-increasing population with high clinical unmet need, and unfortunately, currently, very few available effective therapies and conditions -- options. The trial will also provide the ability to impact tumors that are not expected to respond to PARP inhibitors, and the potential to move beyond HRD as we characterize the additional tumor cell states that define PARG inhibitor sensitivity. And finally, the safety profile protects a large therapeutic window to both maximize monotherapy benefit while allowing a broad potential for combinatorial synergies that are not directly limited by myelosuppression. Thank you very much for your kind attention, and back to you, Yujiro.
Yujiro Hata
executiveGreat. Thank you so much, Dr. Yap, for the terrific walk-through, and we look forward to collaborating with you as this program proceeds in the clinic. Thank you again very much for that walk-through. So next speaker will be Dr. Mathew Garnett from the Wellcome Sanger Institute to go through Werner Helicase. And Dr. Garnett has -- in his lab has tremendous experience on this target in high MSI, and I know it's also collaborated with GSK in the past, and we're very grateful for your time today to walk through this program in this broader space of Werner Helicase.
Mathew Garnett
attendeeHello, everybody. It's a pleasure to be here. So microsatellite instability is caused by the deficiency in the DNA repair process called mismatch repair, or MMR. And it's actually quite common in colon cancer, endometrial cancer and gastric cancer. It occurs at a lower frequency in a broad spectrum of other cancer types. It's estimated there are approximately around 600,000 MSI patients worldwide each year. Now these patients respond reasonably well to immune checkpoint inhibitors as observed here in some of the results from the KEYNOTE-158 trial where the waterfall plot is showing response. But there do remain a significant number of patients who do not achieve a durable response to this treatment and for whom alternative treatments are needed. Next slide, please. Now we and others have shown using genome-wide CRISPR-Cas9 screens in cancer cell lines that microsatellite unstable or MSI cancer cell lines have a synthetic lethal dependency on Werner Helicase shown here by the long full change in viability following Werner knockout. Now this is extremely prominent in these MSI predominant lineages such as colorectal cancer, where MSI most frequently occurs. And in stark contrast, microsatellite stable cell lines, those that are proficient in mismatch repair, are not dependent on Werner Helicase. Next slide, please. Now Werner is actually an extremely fascinating gene, and loss of order causes an autosomal recessive disease that's associated with premature aging, as illustrated by this woman here with a mean survival of around 50 years. Werner helicase has 2 enzymatic activities as a helicase and exonuclease activity, and has wide roles in maintaining genome stability through activating and resolve multiple different DNA substrates. Next slide, please. Now we've shown that using tumor xenograft studies, the genetic knockdown of Werner leads to tumor growth suppression, as shown here by the yellow line following genetic ablation of Werner, and this is observed selectively in MSI cells. On the right-hand side, these data show using functional rescue studies following Werner knockout, that reconstitution of cells with wild-type Werner Helicase or exonuclease deficient version was able to rescue the loss of viability. Whereas actually, if we reconstituted with 2 different helicase deficient versions of Werner helicase, is, we did not rescue this viability effect. This indicates that it is specifically the Werner Helicase activity that is required and essential for microsatellite unstable cancer cells. Next slide, please. But the mechanism of Werner dependency is increasingly being understood. Shown on the left-hand side, MSIs causes the accumulation of these TA dinucleotide repeats in the DNA of cells. These then go on to form secondary structures in the DNA. The Werner is actually required to resolve these 3-dimensional structures. And, of course, if you then knock out Werner, the cell is unable to resolve these structures. This leads to the formation of DNA double-strand breaks, extensive DNA damage, and ultimately cell death in the absence of Werner Helicase. Next slide, please. Now, a future application of any Werner targeted medicine will likely be in the clinical setting of treatment refractory disease. And so, using a range of cell models resistant to existing therapies, including, for example, chemotherapy and immunotherapy, we've shown that they retain a dependent on Werner Helicase for viability. When you knock out Werner Helicase with CRISPR, these cells die. And this really supports the concept that Werner medicines would be effective in the setting of advanced disease. Next slide, please. So very excitingly, we've now developed a selective Werner inhibitor. This inhibitor inhibits DNA unwinding in vitro, as shown in the upper left-hand panel. And in the bottom left-hand panel shows that it has selectivity over other RecQ Helicase family members. Now Werner Helicase domain adopts many different confirmations. And so, to develop this model -- these inhibitors rather, require the solving over 85 X-ray crystal co-structures. And these efforts have led to a massive increase in the affinity and improved inhibitors, with high affinity and drug-like properties. Next slide, please. Now notably, treatment of cells with this Werner inhibitor leads to the accumulation of massive DNA damage, and this is observed selectively in the microsatellite unstable cells, where there is no effect in microsatellite stable cells. The activity of the Werner inhibitor is highly correlated with CRISPR gene knockout, collectively indicating that this inhibitor phenocopies the data I've shown you with some of the genetic studies. Next slide, please. We've also gone on to show that Werner dependency and inhibitor sensitivity is recapitulated in patient-derived microsatellite stable colorectal cancer organoids. So shown on the left-hand side, following CRISPR knockout, you can see acute dependency on Werner in the setting of MSI colorectal cancer organoids. The MSI organoids are selectively sensitive to the Werner inhibitor, shown in the middle panel, and on the right-hand side, again, confirming that organoids derived from treatment immunotherapy refractory patients retain their dependency and sensitivity to the Werner Helicase. Next slide. And finally, in tumor xenograft studies, Werner inhibitors led to selective inhibition of tumor growth in MSI cells, but not in MSS cells. We also observed dose-dependent modulation of PD biomarkers when using immunohistochemistry. This included induction of a DNA damage marker, gamma H2AX, and the rest of cell proliferation as illustrated by P21 staining. So in summary, Werner is a selective lethal target in MSI cells, and Werner inhibitors are selectively active in vitro and in vivo in MSI cells. Thank you.
Yujiro Hata
executiveGreat. Thank you, Dr. Garnett, for that wonderful walk-through, and also special thanks -- I know Ben's on the line as well from GSK. It's just been a terrific partner to continue to advance this program. So with that, we will start the final walk through the selective essentiality in DNA damage repair and going through the POLQ or Pol Theta program. And I know GSK has been really a terrific partner for this, and we're very grateful then that you're going to walk through our progress here today.
Benjamin Schwartz
attendeeThank you, Yujiro. If I could have the next slide, please. Thank you. So you've heard a little bit already today about the Pol Theta. The structure of the protein is shown in the left-hand panel. It's actually got multiple functional domains. It has an end terminal helicase domain. It has a C terminal polymerase domain, and it also has several structural domains in the middle of the protein that are capable of binding RAD51. And as a result of the kind of very careful and elegant construction of this protein, it's able to help cells survive when they lose other mechanisms of double-strand DNA brake repair, in particular, homologous recombination. And that's shown in the blue square on the bottom left. So consistent with this mechanism, what's been shown is -- from genetic screens is that Pol Theta synthetic lethal and cells that have a loss of the ability to carry out homologous recombination. And so the idea at GSK team has been developing helicase inhibitors of Pol Theta. They're quite potent. They're based on a lot of structure-based design, which is indicated with that middle panel, and have very good physical properties and can be dosed orally. The team selected a development candidate earlier this year. And as Yujiro mentioned earlier, we'll be in the clinic early next year. Consistent with the fact that both PARP and Pol Theta share a similar biomarker, which is homologous recombination deficiency, actually show very strong synergy that's indicated by the heat map on the right, where the deeper blue color indicates where there's very, very strong synergy, and you can see that over a range of concentrations of the Pol Theta inhibitor when co-dosed with GSK's PARP inhibitor, niraparib. Please go to the next slide. And the way that, that translates in terms of translational efficacy can be shown on the left. This is the in vivo study where is the TNBC model, where you can see it has modest sensitivity to niraparib as a single agent, but with the addition of the Pol Theta inhibitor, we can drive down to deep regressions that are quite durable. So that's one rationale for the value of Pol Theta to patients. Another comes from emerging studies on mechanisms of resistance to PARP in the clinic. There's been many suggested potential mechanisms from in vitro studies, but actually very few that have been clinically validated with patient samples. Probably the most well-validated is the development of second sight mutations in BRCA or HRD components, which can restore functional forms of that protein. And the figure in the middle shows that in a majority of cases, those second sight reversions are actually carried out or bear a scar of kind of alternative end joining, or MMEJ type of pathway that Pol Theta plays a key role in. So the implication from this data is that not only will Pol Theta deepen responses when combined with PARP, but also could potentially prevent the development of these resistance associated mutations in patients. And so, on the right, kind of summing that up is potential clinical opportunities for a Pol Theta inhibitor. We could potentially deepen the effect of PARPs in patients, especially where they may be getting only partial responses. We could potentially be preventing the emergence of PARP resistance based on the fact that a lot of these resistant mutations bear a scar of health data catalyzed MMEJ. And some early data, as was mentioned by Karlene as well as some data that's been in the literature recently, suggest that it's possible that Pol Theta in addition could potentially help in settings where resistance has already occurred. So plenty of opportunities for us to try and find benefit for patients.
Yujiro Hata
executiveGreat. Thank you, Ben, for that walk-through, and we look forward to the targeted advancement of the Pol Theta development candidate into the clinic. Again, thank you so much. So thank you again to all of our KOL speakers and for our listeners today. Since founding the company over 7.5 years ago, we believe IDEAYA's pipeline has reached an important inflection point with 3 first-in-class clinical to IND stage programs and PKC inhibitor darovasertib; MAT2A inhibitor IDE397, and PARG inhibitor IDE161, and with the near-term opportunity to advance 5 first-in-class clinical programs, while the Pol Theta Helicase program targeting Phase I in the first half of 2023 and the Werner Helicase candidate nomination on track for next year. To extend our industry-leading synthetic lethality and to continue to pioneer the next generation of first-in-class targets in this emerging field of precision medicine oncology, we will invest in several key areas, including data informatics, structural biology, ctDNA technology and compelling clinical combinations. Lastly, our perspective is that the interest from pharma and the broader scientific and medical community in the synthetic lethality field has never been greater. We will continue to execute on our strategy to collaborate with the pharmaceutical industry and leading academic centers as we have with GSK, Amgen, Pfizer, the Broad Institute, UCSF, CRUK among others, to build a deep and diversified first-in-class synthetic lethality pipeline and to enable compelling combinations to deliver maximal clinical benefit to patients. This concludes our prepared remarks. And operator, please open up the line for the analyst Q&A portion of our webcast.
Operator
operator[Operator Instructions] The first question will come from Charles Zhu at Guggenheim.
Yue-Wen Zhu
analystMy first question on PARG. In terms of translating towards clinical doses, and correct me if I'm wrong, but I think I saw a tidbit on your GLP tox study saying that you're seeing effectively no toxicity at levels that translate to half of potential efficacious exposure into humans. In this context, how might you be able to advance dosing in the clinic? And how should we think about potential starting dose as well as step-ups in dose escalation, including in context of FDA project Optimus?
Yujiro Hata
executiveMike, do you want to maybe -- I know there was that -- the one slide on the myelosuppression, and I think the starting at least the -- anticipated starting dose. Mike, do you want to lead us off there?
Michael White
executiveYes, sure. So just to step back for a second. We're very, very excited because if you look at the HNSTD from -- our GLP tox study levels are indicating that are safe starting dose is within 1/2 of our predicted efficacious human dose. And so what that means is, we're going to be getting into our predictive human efficacious dose within the first couple of cohorts. This is not common in oncology. So we're extremely excited about this. To your point about project Optimus, I think this program is sitting in a very nice place to be able to evaluate the optimal biological dose, as well as the maximum tolerated dose because we have a really snappy pharmacodynamic biomarker, which is PARG accumulation. We have evidence that we can follow PARG accumulation peripherally in PBMCs as well as in the skin as well as in the tumor. So we certainly intend to follow target engagement. The exposure response occurs in patients using that biomarker. And we will be excited to start seeing benefits early on into those escalation, given the safety profile in our starting dose, which again is 0.5x of our predicted human efficacious build.
Yujiro Hata
executiveThanks, Mike. I think you covered each of the sections of the question.
Yue-Wen Zhu
analystAnd then maybe one more quick follow-up on PARG perhaps. This -- obviously a very interesting target, given some of the data that you had presented. I'm also kind of wondering, it looks like you guys will be first-in-class in the clinic, undoubtedly, yes, with many things in target oncology, once something -- once a promising target gets to de-risk, you have many follow-ons. I guess from that perspective, could you also describe perhaps -- the campaign that you had perhaps undertaken on the chemistry side of things and how we should think about barriers to enter against this target?
Michael White
executiveYes. So we've been working with CRUK on this. This is a very challenging target. I would say, collectively, we've been doing chemistry for probably over 6 years. So it's definitely not a triple target. We've been -- I would say, done a very thorough job on the IP side as well. And so -- and at least our experience here is that this is a fairly long road in terms of chemistry and sort of barriers to entry. But we appreciate -- we think there will be enthusiasm and excitement around this target.
Yue-Wen Zhu
analystAnd maybe one last high-level question from me. I guess, how are you guys thinking about PARG -- given that HRD is a heterogeneous collection of different biomarkers, I guess how are you thinking about it specifically within HRD as well as in context -- or relative to, let me say, a Pol Theta data development?
Yujiro Hata
executiveYes. We think these are different profiles in terms of targets and programs. As I know Ben walked through with POLQ. We think a big application there is around the combination opportunity with PARP and specifically around this MMEJ aspect as it relates to reversions. In terms of PARG, we do think there is a viable opportunity here based on our pre-clinical data around monotherapy development. And as we saw, which Dr. Yap walked through, we do think a delineated profile from PARP in terms of sensitivity. We also do see a different profile and different types of histology, in particular with highlight breast cancer. So we think there are several key pieces, and we think the clinical development strategy for POLQ and PARG are differentiated. Mike, any other you would add there?
Michael White
executiveYes. I think the only last thing I'll point out you, Yujiro, is our anticipated tolerability profile. If that translates, we really have wide open opportunity landscape with respect to combination opportunity…
Benjamin Schwartz
attendeeYes. And then maybe just the last I'd mention, Charles, is, we mentioned biomarker expansion opportunity. The team is also evaluating additional biomarkers, specifically the replication stress area, and I would say more to come on that front, which we believe will continue to drive the differentiation.
Operator
operatorThe next question comes from Priyanka Grover at JPMorgan.
Priyanka Grover
analystThis is Priyanka Grover on for Anupam Rama. We just have one question. For IDE161, will the initial study focus be on a broad range of solid tumors? Or will we have a more targeted focus like ovarian cancer?
Yujiro Hata
executiveYes. So we're -- that's being discussed now. I think as you probably saw from the press release as well as the presentation today, I would say, in particular, we have an interest in breast cancer. And also, within breast cancer, we see a sensitivity within a certain subset of breast cancer. In addition, we do think ovarian cancer as well. So I would say initially, that will be the focus with the emphasis on -- specifically on breast cancer.
Operator
operatorThe next question comes from Yigal Nochomovitz at Citi.
Yigal Nochomovitz
analystDr. Shields did a nice job explaining some of the endpoints for the neoadjuvant trial, nucleation rate and the potential for reducing the radiation dose, and then in an adjuvant trial, the relapse free survival and useful vision. I'm just curious how likely are these endpoints to be regulatory endpoints? And to what extent have you discussed the design of a registrational trial in both neoadjuvant and adjuvant uveal melanoma with the FDA?
Yujiro Hata
executiveSure. I think Dr. Shields is still on, so I'll let her maybe talk about the endpoints and then I'll cover the registrational piece. Dr. Shields, are you...
Carol Shields
attendeeYes. So I'm still on. I think the 5 cases that I showed were very strong cases indicating the power of daro in -- just 1 month of daro in reducing intraocular tumor size. And in every 1 of the 5 cases, the size of the melanoma in the eye reduced. And in that last case I showed, it reduced down to 0. It completely reduced. So I do think it was powerful, the 5 observations from Australia. I think we're going to be able to hopefully reduce the rate of a nucleation. About 10% of eyes currently are enucleated, that means removed, when a patient is found to have melanoma in the eye. And the remainder, hopefully, we'll be able to reduce the amount of radiation that we need to give. And I do think that endpoint is definitely achievable. Just it's -- even if you reduce a melanoma by 1 or 2 millimeters in thickness, you're going to reduce the radiation dose to the center of vision and you're going to protect the vision a little bit better. So I do think these are -- these end points are fairly easily achievable given the 5 cases that we saw.
Yujiro Hata
executiveThank you, Dr. Shields. And yes, I think you've got just -- the latter part. So we did recently submit a clinical protocol to the FDA to initiate a Phase 2 company-sponsored study in the neoadjuvant uveal melanoma setting, and Dr. Shields as well as several other KOLs since -- this is, we think, really the first time a systemic therapy is attempting this. We did get their input on drafting the clinical protocol and specifically the endpoints. In terms of registrational trial, I think here, the goal will be first to generate data from the Phase 2 study. And then depending -- as we see how the data evolves, we hope there could be an opportunity for an accelerated approval type path, we hope, in a fairly near-term time frame.
Yigal Nochomovitz
analystAnd then on 397, you showed some very nice scientific rationale for the combination with pemetrexed as well as with the PRMT5. But you've also talked about, and I believe you have cohorts enrolling with the taxanes with docetaxel and paclitaxel. So can you just comment, is the taxane combo rationale similar to that of the pemetrexed combo rationale? Are there some nuances there in terms of the scientific arguments for combo?
Yujiro Hata
executiveSure. Mike, do you want to take that?
Michael White
executiveSure. The taxane law rationale is based on the ability of MAT2A inhibition in the MTAP-null setting to perturb splicing, gamma tubulin ring complex and other components that defer mitotic spinal fidelity. So this is a conferred liability, as I mentioned. We think that, that mechanism actually may be quite distinct from the pemetrexed combination. The pemetrexed combination may, in fact, be unique to MAT2A given the 3 hits in the metabolic cycle in order to be able to allow for purine and pyrimidine synthesis. So those 2 mechanisms are a little bit different. I think in that -- for the tax all combination, it's through PRMT5 inhibition of our perturbation of mRNA splicing, Pemetrexed is through these 3 hits on those interconnected metabolic pathways and maybe PRMT5 independent.
Yigal Nochomovitz
analystI see -- and then just one -- last one on the pre-clinical program. I was just wondering with the PARP data and the Werner Helicase, given they both do have helicase domains, is there any structural homology on those 2 domains? And if so, did that in any way help you in terms of designing inhibitors to both those targets, leveraging the biology from both? Or are they just very different?
Yujiro Hata
executiveSo I don't think we're going to get too much into kind of the overlay between the 2. But I would say high level, they were 2 distinct drug discovery campaigns.
Operator
operatorThe next question comes from Robert Driscoll at Wedbush.
Robert Driscoll
analystLots of exciting today -- data today. It looks like you've done a really comprehensive assessment looking at the penetrants of that HRD biomarker for PARP inhibition and the differences versus PARP inhibitors. Have you been able to assess how prior PARP inhibitor treatment and resistance to PARP may affect PARP inhibitor activity? And then just wondered if you'd seen any synergy with IDE161 with Pol Theta inhibition or other HRD-targeted therapeutics?
Yujiro Hata
executiveMike, do you want to take that?
Michael White
executiveA lot of that is underway. You kind of hit on some really compelling mechanistic relationships there where a PARG inhibitor, POLQ inhibitor could do something quite interesting. We haven't released any of that information yet. With respect to how hard inhibitor plays in the acquired resistant setting, we have empirical data, both from models that were derived from patients on relapse, where in some cases, we can see tumor regressions with 161. We also have laboratory-derived PARP-resistant models. Sometimes, those models actually induce sensitivity to PARG inhibitor. Sometimes they are independently connected. So they will be resistant to a PARP inhibitor, but not a PARG inhibitor. And in one case, we did, in fact, have cross resistance, and that was in a model that was a RAD51 model, and turning RAD51 back on actually caused the [indiscernible] to both. So we're very interested in the mechanistic framework that you're alluding to here. What is the difference between HRD status that's part responsive versus PARP inhibitor responses, and that data is continuing to evolve.
Robert Driscoll
analystMaybe a question for Professor Cimprich, if you're still on the line. You mentioned it briefly at the end of the talk. I wonder if you could expand more on the idea that the common toxic lesion, if you will, for many of these DDR is unrepaired single-stranded DNA gaps. I think it's been shown for PARP inhibitors, more recently, Pol Theta inhibitors. One might expect some other DDR inhibitors in the clinic as well.
Yujiro Hata
executiveDr. Cimprich? Yes.
Karlene Cimprich
attendeeYes. I mean, you're right. There are quite a number of studies indicating that these unrepaired single-stranded gaps are a potential intermediate or the toxic intermediate. I mean I think there's still work to be done there. There are some examples that seem to indicate that gaps can form in settings where they are not necessarily leading to toxicity, but there's quite a number of scenarios where that's the case. I'm not sure if you had something further in mind with that question or...
Operator
operatorThe next question comes from Maurice Raycroft at Jefferies.
Maurice Raycroft
analystI was going to ask about PAR accumulation. You mentioned you can see accumulation in PBMC, skin and tumor. And then the slide deck also mentions potential [indiscernible] as a biomarker for IDE161. I guess based on the pre-clinical data, do you have an idea how these biomarkers will translate in the clinic? And assuming the IND clears, what could time lines look like for dosing initial patients and getting initial data from the study?
Yujiro Hata
executiveMike, do you want to take the first part?
Michael White
executiveSure. I'll take the first part. We are in the midst of establishing these procedures now for the clinic. The pre-clinical data indicates, as I noted before, that we can see exposure-dependent accumulation of PARG in PBMCs. So we should be able to follow that exposure response relationship. And we also see it in tissues, so we should be able to follow that exposure response relationship. And we intend to take the appropriate samples during dose escalation to be able to establish that very quickly. Yujiro, do you want to take the second half of that?
Yujiro Hata
executiveYes. So I think, Maury, your other question was just related to timing of FPI. So I think here, we have [indiscernible]. We'll probably be giving guidance on that here, not too far in the future. But we feel good about the filing and there's already been some back and forth, I know with the FDA. So we'll hopefully be able to give some update on that here very shortly.
Maurice Raycroft
analystAnd maybe one other question just on Werner Helicase getting into where you're at with that program. You've mentioned the co-crystal structures that you have. Is that an area where you're still doing work? Or are you now in later stages, primarily assessing candidate function and biological assays?
Yujiro Hata
executiveYes. So I would say there -- we haven't given all of that detail, except to say that our candidate nomination target is next year. I would say we have several advanced series, Maury. So I think at this point, that's all we could say.
Operator
operatorMr. The next question comes from Matt Biegler at OpCo.
Matthew Biegler
analystAs it relates to the DDR targets like both data, do you think -- since they act downstream of ATR and/or ATM, do you think they would have a better therapeutic window because I think that, that's kind of been the Achilles heel so far for some of these agents?
Yujiro Hata
executiveYes, Mike, do you want to take that?
Michael White
executiveYes. So I think what we've seen so far suggests that POLQ is going to have a really exceptional safety profile.
Yujiro Hata
executiveAnd I think just to kind of jump on top of that one. So -- and then I think as we pick the next wave of programs, I think POLQ, PARP, Werner, I think several of these in the DDR space. I think one of the reasons why we've been intrigued is related to their selective essentiality.
Matthew Biegler
analystAnd maybe one for Dr. Shields if she's still on. Because I think all of us are kind of undergoing an education session on the opportunity for this neoadjuvant setting. Can you just kind of walk us through how you choose a patient for cohort 1, the enucleation versus Cohort 2, the BRCA therapy? Is that something that's standardized? Or is there quite a bit of a physician decision there? And does that variability -- like can that impact, I guess, the trial in any way?
Carol Shields
attendeeSure. It's fairly well standardized among ocular oncologists. Most of us kind of radiate a melanoma in the eye up into thickness of about 10 to 2 millimeters in thickness. So anything that's 10 to 12 millimeters or greater, we tend to recommend eye removal, enucleation. Anything that's 10 to 12 or less in thickness, we tend to irradiate. I'm not saying radiation protects the vision. I mean we have 3 concerns here. Number one is patients' life; number two is saving the eye; and number 3 is vision. And we pretty much throw in the towel for vision for all patients with uveal melanoma. We tell them all that your vision is not going to be good, you're likely to be legally blind in this eye when -- by the time we're done with treatment. So again, it's fairly well standardized because most of us use the same radiation isotopes of radioactive I-125. Now in Europe, they use a different isotope called ruthenium, and ruthenium can only irradiate up to about 6 millimeters. So it's a bigger problem in Europe because they nucleate many more eyes than we do in the States because the radiation can't reach to the depth that our radiation reaches in the U.S.
Operator
operatorThe last question will come from Benjamin Burnett at Stifel.
Benjamin Burnett
analystI also have a question for Dr. Shields. I appreciate all the commentary around darovasertib in the uveal melanoma space. To the question of, I guess, how long would it take to show a vision benefit with less radiation? So looking at that kind of cohort 2 study design, how long do you expect to see a vision benefit with these types of sort of efficacy profiles? And then does vision loss correlate with the size of the tumor initially? Or is it more about the location of the tumor? Or is it -- I guess, is it both?
Carol Shields
attendeeSure. Regarding the first part of the question, how long to appreciate vision loss, on average, it takes about a year. to appreciate a little drop in vision in an eye that's received radiation. So we're taking a tumor from 10 millimeters in thickness down to 5 millimeters in thickness. I think within a year, we're going to see a difference in visual outcome. If we take it from 10 down to 8.5 millimeters, it may take longer to appreciate when the curves separate regarding vision outcome. And your second part of that question was, what does vision rely on? Well, you nailed it with your question. It relies on tumor thickness and tumor location. The closer the tumor is to the center of vision or to the nerve, the optic nerve that gives us the vision, the more vision loss the patient is going to have. So we use both of those facts when we decide or estimate what vision outcome is. So if a patient has a thin melanoma and it's located way out in the side of the eye, we feel pretty comfortable they're going to have preserved vision. But if we take that same thin melanoma and put it right next to the center of vision, we call that the macula, they're going to have bad vision. So it's 2 factors.
Operator
operatorThis concludes today's Q&A session. I'll now turn it back to you, Yujiro, for concluding remarks.
Yujiro Hata
executiveGreat. Well, thank you so much again for everybody's time, and thank you again for the KOL speakers today. We very much appreciate the opportunity to walk through R&D Day. And so with that, operator, you can close the line.
Read the full transcript via the API
You're viewing the first half of this call. Get the complete IDEAYA Biosciences, Inc. transcript — plus 254,000+ transcripts from 12,000+ companies, speaker segments, AI summaries and full-text search — through the EarningsCalls.dev API.
Get the API View API docs →This call discussed
For developers and AI pipelines
Programmatic access to IDEAYA Biosciences, Inc. earnings transcripts and 254,000+ others is available through the
EarningsCalls.dev REST API. Plans from $24.99/month — full transcripts, speaker segments,
full-text search, and the recently-added /api/v1/transcripts/recent polling endpoint for ETL pipelines.