Abstract

Treatment with immune checkpoint inhibitors (ICPIs) extends survival in a proportion of patients across multiple cancers. Tumor mutational burden (TMB)—the number of somatic mutations per DNA megabase (Mb)—has emerged as a proxy for neoantigen burden that is an independent biomarker associated with ICPI outcomes. Based on findings from recent studies, TMB can be reliably estimated using validated algorithms from next‐generation sequencing assays that interrogate a sufficiently large subset of the exome as an alternative to whole‐exome sequencing. Biological processes contributing to elevated TMB can result from exposure to cigarette smoke and ultraviolet radiation, from deleterious mutations in mismatch repair leading to microsatellite instability, or from mutations in the DNA repair machinery. A variety of clinical studies have shown that patients with higher TMB experience longer survival and greater response rates following treatment with ICPIs compared with those who have lower TMB levels; this includes a prospective randomized clinical trial that found a TMB threshold of ≥10 mutations per Mb to be predictive of longer progression‐free survival in patients with non‐small cell lung cancer. Multiple trials are underway to validate the predictive values of TMB across cancer types and in patients treated with other immunotherapies. Here we review the rationale, algorithm development methodology, and existing clinical data supporting the use of TMB as a predictive biomarker for treatment with ICPIs. We discuss emerging roles for TMB and its potential future value for stratifying patients according to their likelihood of ICPI treatment response.

Implications for Practice

Tumor mutational burden (TMB) is a newly established independent predictor of immune checkpoint inhibitor (ICPI) treatment outcome across multiple tumor types. Certain next‐generation sequencing‐based techniques allow TMB to be reliably estimated from a subset of the exome without the use of whole‐exome sequencing, thus facilitating the adoption of TMB assessment in community oncology settings. Analyses of multiple clinical trials across several cancer types have demonstrated that TMB stratifies patients who are receiving ICPIs by response rate and survival. TMB, alongside other genomic biomarkers, may provide complementary information in selecting patients for ICPI‐based therapies.

Background

The development and therapeutic potential of immune checkpoint inhibitors (ICPIs) has fundamentally changed cancer treatment paradigms across multiple tumor types. However, only a subset of patients treated with ICPIs experience durable clinical responses [1, 2]. Ongoing optimization of ICPI treatment requires additional predictive biomarkers that further establish which patients are most likely to benefit from such therapies. Expression of programmed death‐ligand 1 (PD‐L1) assessed by immunohistochemistry (IHC) has been established as one biomarker that is predictive of ICPI response in many cancer types including non‐small cell lung cancer (NSCLC), urothelial carcinoma, and most recently triple‐negative breast cancer [3-6]. However, stratification by PD‐L1 IHC alone is insufficient to identify the patient population most likely to respond, and approved companion and complementary diagnostics for PD‐L1 expression are variable with respect to performance and reporting thresholds [7-9]. Therefore, additional independent biomarkers that predict ICPI response are needed.

Broad genomic sequencing approaches that have an established role in identifying oncogenic alterations—whole‐exome sequencing (WES) and whole genome sequencing—have been applied to samples from ICPI clinical trials. These initial studies clearly suggested that patients with a higher number of somatic tumor mutations derived more benefit from ICPI therapy compared with patients who had fewer mutations [10]. This has paved the way for the use of targeted next‐generation sequencing (NGS) panels to derive the same information while sequencing fewer DNA base pairs. When properly designed and sufficient in size, these assays can assess tumor mutational burden (TMB; the number of somatic mutations per megabase [Mb] of sequenced DNA), which is a novel biomarker and a newly established independent predictor of ICPI treatment outcome [11, 12]. Targeted yet comprehensive NGS panels can accurately recapitulate the TMB assessment from WES, allowing for broader clinical use of this biomarker [12, 13].

In this review, we summarize the development of currently available methods for assessing TMB, the rationale for TMB to be used as an independent biomarker for ICPI treatment outcome across tumor types, the association between TMB and other aspects of the tumor microenvironment, efforts to prospectively evaluate TMB as a predictive biomarker, and the potential implications for utilizing TMB as a selection tool for ICPI treatment.

Cancer Immunotherapy

Therapeutic manipulation of either the innate or adaptive arms of the immune system, or both, to optimize recognition and elimination of tumors is broadly known as cancer immunotherapy. The role of the immune system in cancer has been recognized for decades, and anticancer immunotherapy can be divided into three general categories: cytokine‐targeting therapies (such as interleukins, interferons, and colony‐stimulating factors), cell‐based therapies (such as chimeric antigen receptor technologies), and ICPIs [14]. ICPIs, one of the most rapidly growing categories of immune‐related agents developed for the treatment of cancer, are monoclonal antibodies that block key molecules in immune checkpoint pathways such as programmed cell death protein 1 (PD‐1) and cytotoxic T‐lymphocyte–associated protein 4 (CTLA‐4) [14]. PD‐L1, which is expressed on both tumor cells and immune cells and binds PD‐1 to attenuate T‐cell activity, is also an immunotherapy target [14].

At the most basic level, tumor cells differ from normal cells because of pathogenic changes in cellular function, which are often a result of genomic alterations that are considered to be “driver” mutations [15]. By contrast, the vast majority of alterations in tumoral DNA are considered “passenger” mutations, neither contributing to nor detracting from tumor growth [16]. However, a subset of these passenger alterations will generate neoantigens at the protein level, which may be recognized by the patient's immune system as non‐self or foreign. Although only a portion of overall immune response, neoantigenicity, correlated with response to checkpoint blockade and augmentation of the immune response, is thought to be the mechanism by which ICPIs act on tumor tissue [17-19]. TMB is a surrogate measure of neoantigenicity, which allows it to serve as a predictive biomarker in this context.

Measurement and Analytical Validation of TMB

TMB was originally measured using WES, and several studies demonstrated an association between WES‐derived TMB and ICPI outcomes [10,20-28]. Although these were encouraging results for patient selection, WES‐derived TMB currently has limited clinical utility in many patient care settings owing to a 6–8‐week sequencing time, the requirement for a matched normal sample, and associated costs. Estimating TMB using clinically validated, commercially available, targeted NGS‐based panels that sequence a sufficient subset of the exome presents an attractive alternate method for calculating TMB [12,13,29] (Fig. 1; [30]). In general, WES methods typically count only nonsynonymous base substitutions that alter the amino acid sequence of a protein, inferring that there is a direct link between protein coding changes and the number of potential neoantigens within a tumor genome [20-27]. However, targeted NGS panels for estimating TMB have taken more sophisticated approaches, including the incorporation of nonsynonymous and synonymous base substitutions and short insertion and deletion alterations in the calculation [13]. Synonymous variants, which are variants that do not alter the amino acid sequence of a protein, are not assumed to generate neoantigens. Their presence, however, is indicative of a mutational process also likely to result in nonsynonymous variants, and their inclusion in the TMB algorithm effectively improves assay sensitivity by increasing the number of qualifying variants into the calculation [13].

Example of targeted NGS panel‐based TMB calculation. Adapted from Spigel et al. [30]. aPredicted drivers are mutations thought to be responsible for oncogenesis in a tumor.
Figure 1

Example of targeted NGS panel‐based TMB calculation. Adapted from Spigel et al. [30]. aPredicted drivers are mutations thought to be responsible for oncogenesis in a tumor.

Abbreviations: Mb, megabase; NGS, next‐generation sequencing; TMB, tumor mutational burden.

Although there are multiple platforms that have published data using TMB as a biomarker [31-33], to date only two products have gone through regulatory pathways: the FoundationOne CDx assay (Foundation Medicine, Inc., Cambridge, MA), which has been approved by the U.S. Food and Drug Administration (FDA) for the analytic calculation of TMB, and MSK‐IMPACT (Memorial Sloan Kettering Cancer Center, New York, NY), which has been authorized by the 510K pathway [31,33]. These panels have been optimized to identify all types of molecular alterations (i.e., single nucleotide variants, small and large insertion‐deletion alterations, copy number alterations, and structural variants) in cancer‐related genes, as well as genomic signatures such as microsatellite instability (MSI), loss of heterozygosity, and TMB, in a single test; this approach is collectively referred to as comprehensive genomic profiling (CGP) [34]. As a result of the broad and deep coverage of targeted NGS panels across several hundred tumor genes and nontumor tissue, studies have demonstrated that TMB measurement using a CGP approach has high statistical concordance with TMB measured from WES [13]. The two quality control metrics that should be considered when evaluating samples for TMB are median depth of sequencing coverage and coverage uniformity, as coverage is directly related to the sensitivity of calling both single nucleotide variants and indels, the two components that contribute to the TMB calculation [35]. Foundation Medicine utilizes a minimum sequencing coverage metric of 250× median exon coverage and a uniformity metric of ≥95% of exons with at least 100× coverage [36].

Chalmers and colleagues [13] reported that a key determinant for the accuracy of the targeted NGS‐based TMB measurement is the number of megabases sequenced in the genome and that sequencing approximately 1.1 Mb over 315 genes resulted in a TMB estimate that was similar to the reference standard of WES. In this study, samples with 300× median exon coverage or greater were included. The study also estimated that sampling approximately 0.5 Mb or less resulted in an unacceptable degree of difference from the WES reference standard, suggesting that more limited assays may result in an inaccurate TMB calculation [13]. Additional in silico analyses demonstrated acceptable agreement between targeted NGS‐derived and WES‐derived TMB data [37-39]. In addition to establishing in silico accuracy against WES, additional key performance metrics such as reproducibility and repeatability of the TMB classifier, limit of detection according to the minimum tumor purity, and empirical accuracy against WES should be established to validate any TMB measurement currently being reported as a biomarker upon which therapeutic decisions will be based.

TMB as a Predictive Biomarker

There are several known carcinogenic processes linked to elevated TMB [10,13]. Exposure to environmental carcinogens, such as cigarette smoke and ultraviolet radiation, has been shown to cause cancers with the highest number of somatic mutations [13,40,41]. Alterations in DNA mismatch repair (MMR) pathway–associated genes such as MSH2, MSH6, MLH1, and PMS2, which typically result in MSI, and alterations in DNA polymerase genes (POLE/POLD1) contribute to high TMB in some cancers [13]. Chalmers and colleagues [13] have reported that a proportion of tumors across multiple cancer types have high TMB, showing that TMB has broad clinical validity as a biomarker. Figure 2 [10,11,13,21,22,31,37,42-62] illustrates a timeline of the emergence of TMB as a biomarker.

Timeline of TMB biomarker development.
Figure 2

Timeline of TMB biomarker development.

Abbreviations: 1L, first‐line; 2L, second‐line; CGP, comprehensive genomic profiling; FDA, U.S. Food and Drug Administration; I‐O, immune‐oncology; NCCN, National Comprehensive Cancer Network; NSCLC, non‐small cell lung cancer; PD‐1, programmed cell death protein 1; PD‐L1, programmed death‐ligand 1; SCLC, small cell lung cancer; TMB, tumor mutational burden.

Clinical, pathologic, and molecular features influence the likely course for a given patient with cancer and predict the chance of response to a given therapy. An optimal therapeutic biomarker has analytic validity (accurate, reproducible, and reliable), clinical utility, economic feasibility, and a biologic basis [63]. Retrospective analyses have demonstrated that a greater clinical benefit following treatment with ICPIs has been observed in patients with high TMB compared with those without high TMB; however, these studies used a variety of testing platforms and differing TMB cutoffs to define “high” levels rather than standardized, prospectively defined cutoffs [11,25,46,54,64-66]. Early reporting of TMB included both the quantitative metric as mutations per Mb and qualitative description of high, intermediate, and low. Discrete cutoffs that define the biological subtype of cancer are currently being pursued, and such cutoffs will likely vary based on tumor type and therapeutic intervention [59,60,67,68]. In an analytic validation of FoundationOne CDx in patients with NSCLC, reproducibility and repeatability for TMB were shown to be 97.3% and 95.3% [58]. Although the reproducibility and standardization of TMB calculations via NGS have yet to be thoroughly validated across other tumor types, efforts are currently underway to do so [60,69].

Clinical Validation of TMB as an Independent Predictive Biomarker

Establishing whether any biomarker test, including a test for TMB, accurately and reliably separates patients into groups with distinct clinical or biological outcomes or differences (i.e., clinical validation) is an important factor for defining clinical use of a test [63].

The evidence of ICPI efficacy in MSI‐high disease led to the first tumor‐agnostic FDA approval for pembrolizumab for MSI‐high or MMR‐deficient tumors independent of anatomic origin [27,28,70]. Additionally, the same study also found that high TMB was independently associated with longer progression‐free survival (PFS) [27]. Across cancers, MSI‐high tumors are rare (∼1% as measured retrospectively by NGS, 5% in late stage colorectal cancer [CRC], 15% in endometrial/uterine cancer), and MSI assessment alone will fail to identify all patients who may benefit from ICPIs [13,71,72]. Nearly all MSI‐high samples have high TMB and represent a subset of high TMB tumors across anatomic sites [13]. However, MSI‐high is not sufficient to explain all instances of high TMB, even in tumor types where MSI is a well‐established biomarker such as CRC [73]. For example, a TMB score of 12 mutations per Mb was shown to include 99.7% of all MSI‐high cases in patients with CRC, while also identifying an additional 3% of the much larger microsatellite‐stable population [73]. As such, reclassification of CRC according to TMB effectively increased the number of patients eligible for ICPI therapy by more than 50% compared with MSI status alone [73]. Although PD‐L1 overexpression is associated with improved ICPI response and is common among patients with high TMB levels, several studies have concluded that TMB and PD‐L1 expression are independent predictive biomarkers [12,25,26,74].

The culmination of these clinical validation efforts is the identification of TMB cutoffs that predict ICPI outcome, demonstrating that TMB augments both MSI and PD‐L1 as an independent predictive biomarker for ICPI treatment. This was demonstrated in the NSCLC CheckMate‐227 trial, which found that TMB was clearly predictive of the PFS benefit observed in the combination nivolumab/ipilimumab arm and was not associated with improved PFS among patients receiving only chemotherapy [54]. Elevated TMB was also observed to be predictive of improved survival in patients with any tumor type receiving ICPIs, although the TMB cutoffs varied markedly between cancer types [61,73].

Additional Clinically Relevant Genomic Biomarkers Associated with TMB

TMB is an important treatment selection tool that complements existing molecular testing methodologies, PD‐L1, and other established and emerging oncogenes. Recurrent genomic alterations associated with elevated TMB, which together can be identified using a CGP approach, may provide additional biologic insights and inform therapy in select scenarios. For example, mutations in POLE are an emerging immunotherapy‐related biomarker that have been associated with very high TMB in multiple solid tumor types, including endometrial, CRC, gastric, melanoma, lung, and pediatric cancers [75-78]. POLE‐mutated, MSI‐high, and DNA MMR‐deficient CRC have each been associated with high TMB and favorable outcomes following treatment with ICPIs [27,73,79,80]. Therefore, tumors with pathogenic POLE mutations leading to elevated TMB may be good candidates for ICPI therapy independent of tumor type. Furthermore, as with MSI‐high, POLE‐mutated cancers represent only a subset of high TMB cancers, emphasizing the need to evaluate a broad set of biomarkers in order to capture all mechanisms of hypermutation.

Advanced NSCLC provides a particularly strong case for the use of CGP given that well‐established biomarkers, such as epidermal growth factor receptor (EGFR) mutations, anaplastic lymphoma kinase (ALK) alterations, and PD‐L1 expression, are present at different rates based on TMB levels. Each one of these biomarkers should be considered independently as well as together when making treatment decisions. In a sample of 9,347 NSCLC samples that underwent CGP (FoundationOne and FoundationOne CDx) and concurrent PD‐L1 testing, 18.0% were shown to be positive for ALK or EGFR alterations, 37.4% were TMB‐high (≥10 mutations/Mb), and 6.4% were PD‐L1 positive (data on file). However, there was minimal overlap between these molecular markers (Figs. 3 and 4). Because EGFR and ALK mutations are associated with low TMB and attenuated response rates to ICPIs, patients with tumors that are EGRF or ALK positive are ineligible for ICPI therapy in the first‐line setting according to FDA‐approved labeling. As discussed above, PD‐L1 and TMB are not mutually inclusive; thus both are needed to identify all patients who are likely to respond to ICPIs, whereas EGRF/ALK biomarker status will be needed to rule out those less likely to respond in the first‐line setting [12,81-83].

Interaction of high TMB with other cancer biomarkers. An analysis of Foundation Medicine's FoundationCore database (data on file) was undertaken to understand the relative prevalence of biomarkers that play a predictive role in immunotherapy decisions for patients with non‐small cell lung cancer (NSCLC). Through September 2018, there were 9,347 NSCLC samples with Foundation Medicine testing (FoundationOne and FoundationOne CDx) that also underwent PD‐L1 testing. The relative distribution of EGFR and/or ALK alterations, TMB ≥10 mutations per megabase, and PD‐L1 positive is shown here. Prevalence of each of the biomarkers in all patients with NSCLC (n = 35,370), regardless of PD‐L1 testing, was determined with EGFR alterations found in 14.1% and ALK alterations in 2.9%; this appears similar to the rates observed in the smaller subset of patients with concurrent PD‐L1 assessment. Overall, the overlap is limited, indicating a need to assess each of these biomarkers when making immunotherapy decisions in the NSCLC setting.
Figure 3

Interaction of high TMB with other cancer biomarkers. An analysis of Foundation Medicine's FoundationCore database (data on file) was undertaken to understand the relative prevalence of biomarkers that play a predictive role in immunotherapy decisions for patients with non‐small cell lung cancer (NSCLC). Through September 2018, there were 9,347 NSCLC samples with Foundation Medicine testing (FoundationOne and FoundationOne CDx) that also underwent PD‐L1 testing. The relative distribution of EGFR and/or ALK alterations, TMB ≥10 mutations per megabase, and PD‐L1 positive is shown here. Prevalence of each of the biomarkers in all patients with NSCLC (n = 35,370), regardless of PD‐L1 testing, was determined with EGFR alterations found in 14.1% and ALK alterations in 2.9%; this appears similar to the rates observed in the smaller subset of patients with concurrent PD‐L1 assessment. Overall, the overlap is limited, indicating a need to assess each of these biomarkers when making immunotherapy decisions in the NSCLC setting.

Abbreviations: ALK, anaplastic lymphoma kinase; EGFR, epidermal growth factor receptor; PD‐L1, programmed death‐ligand 1; TMB, tumor mutational burden.

Degree of overlap between high TMB and PD‐L1 varies based on the presence of other alterations among patients with non‐small cell lung cancer (NSCLC). Among NSCLC samples with Foundation Medicine testing that also underwent PD‐L1 testing (n = 9,347; described in Fig. 3), the relative overlap between TMB ≥10 mutations per megabase and PD‐L1 is highest in patients with multiple genomic alterations as well as KRAS, BRAF, and MET alterations and lowest in patients with ALK and RET alterations.
Figure 4

Degree of overlap between high TMB and PD‐L1 varies based on the presence of other alterations among patients with non‐small cell lung cancer (NSCLC). Among NSCLC samples with Foundation Medicine testing that also underwent PD‐L1 testing (n = 9,347; described in Fig. 3), the relative overlap between TMB ≥10 mutations per megabase and PD‐L1 is highest in patients with multiple genomic alterations as well as KRAS, BRAF, and MET alterations and lowest in patients with ALK and RET alterations.

Abbreviations: ALK, anaplastic lymphoma kinase; EGFR, epidermal growth factor receptor; PD‐L1, programmed death‐ligand 1; TMB, tumor mutational burden.

Additionally, KRAS mutations have been associated with improved treatment outcomes in NSCLC [30,82,84,85], and certain classes of alterations in JAK1, MDM2/MDM4, ARID1A, and STK11 have predicted a lack of response to ICPIs in a high TMB setting [12,85-91]. Initial data from studies utilizing targeted NGS panels have also suggested that certain BRAF and MET alterations are associated with longer duration of ICPI treatment, regardless of TMB status [88].

Overall, appropriate treatment selection in the era of genomically targeted therapies and immunotherapies will require insight into PD‐L1, TMB, MSI, as well as alterations in several individual genes. Looking at only a subset of these biomarkers could potentially result in suboptimal treatment among a considerable portion of patients and lead to inefficiencies in our health care ecosystem. Utilizing a CGP approach has the advantage of providing the data to generate composite biomarkers, which can be used collectively to further stratify patient populations most likely to derive maximal clinical benefit from both ICPIs and other genomically matched targeted treatments.

Utilizing a CGP approach has the advantage of providing the data to generate composite biomarkers, which can be used collectively to further stratify patient populations most likely to derive maximal clinical benefit from both ICPIs and other genomically matched targeted treatments.

Summary of Outcomes Associated with TMB

Clinical studies and observational data have further reinforced the notion of TMB as an independent biomarker that is predictive of ICPI outcomes [92]. Increased nonsynonymous TMB from WES was first demonstrated as a predictor for ICPI treatment outcome by Snyder and colleagues [22] and Rizvi and colleagues [10] for CTLA‐4 and PD‐1/PD‐L1 inhibition, respectively. The relationship between WES‐derived TMB was further explored in the CheckMate‐032 study, wherein patients with tumors in the top tertile of TMB experienced 46.2% objective response rate (ORR) with nivolumab plus ipilimumab compared with 16.0% and 22.2% in the medium and low tertiles, respectively [26]. As mentioned above, PD‐L1 expression and TMB have not been significantly correlated in most ICPI studies (Table 1). Reported and ongoing clinical trials and observational studies that have analyzed or will analyze TMB outcomes are summarized in Table 1 [25,27,37,45,46,54,57,61,64,74,93,94,95], Table 2 [10-12,20,22,24,65,66,96], and Table 3 [97-102].

Table 1

ICPI clinical trials that have evaluated TMB as a biomarker

Trial [reference]/study design/populationIntervention(s)Type of sequencing for TMBTMB cutpoint or highest thresholdTMB‐related results

CheckMate‐227 [54]

 

Open‐label, randomized, phase III trial

 

Advanced NSCLC

 

n = 1,739

1st‐line nivolumab plus ipilimumab vs. platinum‐doublet chemotherapyCGP≥10 mutations per Mb

Nivolumab plus ipilimumab vs. chemotherapy—with TMB ≥10 mutations/Mb:

  • 1‐year PFS: 42.6% vs. 13.2% (p < .001)

  • Median PFS: 7.2 vs. 5.5 months (p < .001)

  • Disease progression or death: HR, 0.58 (97.5% CI: 0.41–0.81; p < .001)

  • ORR: 45.3% vs. 26.9%

 

Nivolumab plus ipilimumab vs. chemotherapy—with TMB <10 mutations/Mb:

  • Median PFS, 3.2 vs. 5.5 months

  • Disease progression or death: HR, 1.07 (95% CI, 0.84–1.35)

 

Treatment difference in TMB ≥10 mutations/Mb was consistent across PD‐L1 expression subgroups (<1% vs. ≥1%)

CheckMate‐012 [25]

 

Prospective study

 

Advanced NSCLC

 

n = 75

1st‐line nivolumab plus ipilimumabWES> median of 158 mutations

TMB > median vs. TMB < median:

  • ORR: 51% vs. 13% (p = .0005)

  • DCB: 65% vs. 34% (p = .011)

  • PFS: HR, 0.41 (p = .0024)

 

TMB was independent of PD‐L1 expression (r = .087; p = .48) and most strongly associated with ORR (p = .001) and PFS (p = .002) (multivariable analysis).

CheckMate‐026 [37,74]

 

Open‐label, randomized, phase III trial

 

Advanced NSCLC with PD‐L1 ≥ 1%

 

n = 541

1st‐line nivolumab vs. doublet platinum chemotherapyCGP≥243 somatic missense mutations per sample

Nivolumab vs. chemotherapy—TMB ≥243 mutations subgroup:

  • ORR: 47% vs. 28%

  • Median PFS: 9.7 vs. 5.8 months (HR, 0.62; 95% CI: 0.38–1.00)

  • OS: no between‐group differences

 

Nivolumab vs. chemotherapy—TMB <243 mutations subgroup:

  • ORR: 23% vs. 33%

  • Median PFS: 4.1 vs. 6.9 months (HR, 1.82; 95% CI: 1.30–2.55)

  • OS: 12.7 vs. 13.2 months (HR, 0.99; 95% CI: 0.71–1.40)

 

There was no association between PD‐L1 and TMB (all patients had PD‐L1 ≥ 1%).

CheckMate‐032 [25]

 

Single‐arm, randomized phase I/II trial

 

Advanced SCLC

 

n = 211

Nivolumab plus ipilimumab, nivolumab aloneWES≥248 mutations (high tertile)

The high vs. low TMB tertile were compared:

  • Nivolumab plus ipilimumab

    • ORR: 46.2% vs. 22.2%

    • 1‐year PFS: 30.0% vs. 6.2%

    • 1‐year OS: 62.4% vs. 23.4%

  • Nivolumab alone

    • ORR: 21.3% vs. 4.8%

    • 1‐year PFS: 21.2% vs. NE

    • 1‐year OS: 62.4% vs. 23.4%

 

PD‐L1 expression ≥1% was rare and evenly distributed among the TMB tertiles.

 

There was no association between PD‐L1 expression and TMB.

CheckMate‐568 [93]

 

Single‐arm, phase II trial

 

Advanced NSCLC

 

n = 288

1st‐line nivolumab plus ipilimumab vs. platinum‐doublet chemotherapyCGP≥10 mutations per Mb

ORR at TMB cutpoints for nivolumab plus ipilimumab:

  • <5 mutations/Mb: 4%

  • <10 mutations/Mb: 10%

  • ≥10 mutations/Mb: 44%

  • ≥15 mutations/Mb: 39%

 

TMB ≥10 mutations/Mb was associated with enhanced response to nivolumab plus ipilimumab regardless of PD‐L1 expression

BIRCH/FIR/POPLAR/OAK, IMvigor 210/211, PCD4989g [94]

 

Retrospective study of tumor tissue samples from 7 monotherapy studies

 

NSCLC (n = 342), advanced UC (n = 400), advanced solid tumors (n = 245)

AtezolizumabCGP≥16 mutations per MbBiomarker‐evaluable population vs. TMB ≥16 mutations/Mb vs. <16 mutations/Mb:
  • ORR: 16.4% vs. 29.7% vs. 13.5%

  • DOR: 16.6 months vs. 29.0 months vs. 13.8 months

PURE‐01 [57]

 

Single‐arm, open‐label, phase II trial

 

Muscle‐invasive urothelial bladder cancer

 

n = 43

Neoadjuvant pembrolizumab before radical cystectomyCGPNAMean TMB in transurethral resection of the bladder resection samples was identical between patients with and without pathologic complete response 11.2 mutations/Mb vs. 11.2 mutations/Mb.

Apache [95]

 

Open‐label, randomized, 3‐stage, phase II trial

 

Advanced germ cell tumors

 

n = 18

Durvalumab alone or with tremelimumabCGPNAMedian TMB was 4 mutations/Mb and was not related to efficacy.

IMvigor210 [46,64]

 

Single‐arm, phase II trial

 

Advanced UC

 

n = 310

1st‐line atezolizumabCGP≥16 mutations per Mba

There was a greater proportion of TMB patients with ≥16 mutations/Mb among responders vs. nonresponders.

  • Consistent across TCGA luminal and basal subtypes

  • Associated with significantly longer OS.

 

TMB ≥16 mutations/Mb was associated with increased expression of

  • APOBEC3A: r = 0.18 (p = .0025)

  • APOBEC3B: r = 0.22 (p = .00046)

 

Responders exhibited higher mean APOBEC3 expression.

Le et al. (2015) [27]

 

Single‐arm, phase II study

 

Advanced pan‐tumor

 

N = 41

PembrolizumabWESNA

Tumors with MSI‐high had high TMB levels vs non‐MSI tumors (p = .007).

 

High TMB was associated with

  • Longer PFS: HR, 0.628 (95% CI: 0.424–0.931; p = .021)

  • Trend toward higher ORR (p = .214).

POPLAR and OAK [56]

 

Randomized, phase II trial

 

Previously treated NSCLC

 

OAK, n = 425; POPLAR, n = 287

2nd + line atezolizumab vs. docetaxelBlood‐based CGP≥10 mutations per MbPFS and OS in patients with bTMB ≥10 mutations/Mb were higher than in the overall population.

BIRCH/FIR, POPLAR [45]

 

Single‐arm (BIRCH/FIR) and randomized (POPLAR) phase II trials

 

NSCLC

 

OAK, n = 425; POPLAR, n = 287; FIR, n = 138

1st/2nd + line atezolizumab (single‐arm) in BIRCH/FIR, 2nd‐line atezolizumab vs. docetaxel in POPLARCGP

BIRCH/FIR: In 1st line, ≥13.5 mutations/Mb; in 2nd line or later, ≥17.1 mutations/Mb

 

POPLAR: ≥15.8 mutations/Mb

RR and OS were higher in patients with both TMB ≥9 mutations/Mb (median) and ≥ 13.5 mutations/Mb (high) vs <9 and <13.5 mutations/Mb, respectively.

Samstein et al. (2019) [61]

 

Retrospective study

 

Multiple tumor types

 

Treated with ICPI, n = 1,662; Non‐ICPI treated, n = 5,371

Atezolizumab, avelumab, durvalumab, ipilimumab, nivolumab, pembrolizumab or tremelimumab (monotherapy or in combination)CGPNA

OS was higher in patients with high TMB (highest 20% in each cancer type), across entire cohort.

 

TMB cutoff associated with the top 20% varied markedly between cancer types.

Trial [reference]/study design/populationIntervention(s)Type of sequencing for TMBTMB cutpoint or highest thresholdTMB‐related results

CheckMate‐227 [54]

 

Open‐label, randomized, phase III trial

 

Advanced NSCLC

 

n = 1,739

1st‐line nivolumab plus ipilimumab vs. platinum‐doublet chemotherapyCGP≥10 mutations per Mb

Nivolumab plus ipilimumab vs. chemotherapy—with TMB ≥10 mutations/Mb:

  • 1‐year PFS: 42.6% vs. 13.2% (p < .001)

  • Median PFS: 7.2 vs. 5.5 months (p < .001)

  • Disease progression or death: HR, 0.58 (97.5% CI: 0.41–0.81; p < .001)

  • ORR: 45.3% vs. 26.9%

 

Nivolumab plus ipilimumab vs. chemotherapy—with TMB <10 mutations/Mb:

  • Median PFS, 3.2 vs. 5.5 months

  • Disease progression or death: HR, 1.07 (95% CI, 0.84–1.35)

 

Treatment difference in TMB ≥10 mutations/Mb was consistent across PD‐L1 expression subgroups (<1% vs. ≥1%)

CheckMate‐012 [25]

 

Prospective study

 

Advanced NSCLC

 

n = 75

1st‐line nivolumab plus ipilimumabWES> median of 158 mutations

TMB > median vs. TMB < median:

  • ORR: 51% vs. 13% (p = .0005)

  • DCB: 65% vs. 34% (p = .011)

  • PFS: HR, 0.41 (p = .0024)

 

TMB was independent of PD‐L1 expression (r = .087; p = .48) and most strongly associated with ORR (p = .001) and PFS (p = .002) (multivariable analysis).

CheckMate‐026 [37,74]

 

Open‐label, randomized, phase III trial

 

Advanced NSCLC with PD‐L1 ≥ 1%

 

n = 541

1st‐line nivolumab vs. doublet platinum chemotherapyCGP≥243 somatic missense mutations per sample

Nivolumab vs. chemotherapy—TMB ≥243 mutations subgroup:

  • ORR: 47% vs. 28%

  • Median PFS: 9.7 vs. 5.8 months (HR, 0.62; 95% CI: 0.38–1.00)

  • OS: no between‐group differences

 

Nivolumab vs. chemotherapy—TMB <243 mutations subgroup:

  • ORR: 23% vs. 33%

  • Median PFS: 4.1 vs. 6.9 months (HR, 1.82; 95% CI: 1.30–2.55)

  • OS: 12.7 vs. 13.2 months (HR, 0.99; 95% CI: 0.71–1.40)

 

There was no association between PD‐L1 and TMB (all patients had PD‐L1 ≥ 1%).

CheckMate‐032 [25]

 

Single‐arm, randomized phase I/II trial

 

Advanced SCLC

 

n = 211

Nivolumab plus ipilimumab, nivolumab aloneWES≥248 mutations (high tertile)

The high vs. low TMB tertile were compared:

  • Nivolumab plus ipilimumab

    • ORR: 46.2% vs. 22.2%

    • 1‐year PFS: 30.0% vs. 6.2%

    • 1‐year OS: 62.4% vs. 23.4%

  • Nivolumab alone

    • ORR: 21.3% vs. 4.8%

    • 1‐year PFS: 21.2% vs. NE

    • 1‐year OS: 62.4% vs. 23.4%

 

PD‐L1 expression ≥1% was rare and evenly distributed among the TMB tertiles.

 

There was no association between PD‐L1 expression and TMB.

CheckMate‐568 [93]

 

Single‐arm, phase II trial

 

Advanced NSCLC

 

n = 288

1st‐line nivolumab plus ipilimumab vs. platinum‐doublet chemotherapyCGP≥10 mutations per Mb

ORR at TMB cutpoints for nivolumab plus ipilimumab:

  • <5 mutations/Mb: 4%

  • <10 mutations/Mb: 10%

  • ≥10 mutations/Mb: 44%

  • ≥15 mutations/Mb: 39%

 

TMB ≥10 mutations/Mb was associated with enhanced response to nivolumab plus ipilimumab regardless of PD‐L1 expression

BIRCH/FIR/POPLAR/OAK, IMvigor 210/211, PCD4989g [94]

 

Retrospective study of tumor tissue samples from 7 monotherapy studies

 

NSCLC (n = 342), advanced UC (n = 400), advanced solid tumors (n = 245)

AtezolizumabCGP≥16 mutations per MbBiomarker‐evaluable population vs. TMB ≥16 mutations/Mb vs. <16 mutations/Mb:
  • ORR: 16.4% vs. 29.7% vs. 13.5%

  • DOR: 16.6 months vs. 29.0 months vs. 13.8 months

PURE‐01 [57]

 

Single‐arm, open‐label, phase II trial

 

Muscle‐invasive urothelial bladder cancer

 

n = 43

Neoadjuvant pembrolizumab before radical cystectomyCGPNAMean TMB in transurethral resection of the bladder resection samples was identical between patients with and without pathologic complete response 11.2 mutations/Mb vs. 11.2 mutations/Mb.

Apache [95]

 

Open‐label, randomized, 3‐stage, phase II trial

 

Advanced germ cell tumors

 

n = 18

Durvalumab alone or with tremelimumabCGPNAMedian TMB was 4 mutations/Mb and was not related to efficacy.

IMvigor210 [46,64]

 

Single‐arm, phase II trial

 

Advanced UC

 

n = 310

1st‐line atezolizumabCGP≥16 mutations per Mba

There was a greater proportion of TMB patients with ≥16 mutations/Mb among responders vs. nonresponders.

  • Consistent across TCGA luminal and basal subtypes

  • Associated with significantly longer OS.

 

TMB ≥16 mutations/Mb was associated with increased expression of

  • APOBEC3A: r = 0.18 (p = .0025)

  • APOBEC3B: r = 0.22 (p = .00046)

 

Responders exhibited higher mean APOBEC3 expression.

Le et al. (2015) [27]

 

Single‐arm, phase II study

 

Advanced pan‐tumor

 

N = 41

PembrolizumabWESNA

Tumors with MSI‐high had high TMB levels vs non‐MSI tumors (p = .007).

 

High TMB was associated with

  • Longer PFS: HR, 0.628 (95% CI: 0.424–0.931; p = .021)

  • Trend toward higher ORR (p = .214).

POPLAR and OAK [56]

 

Randomized, phase II trial

 

Previously treated NSCLC

 

OAK, n = 425; POPLAR, n = 287

2nd + line atezolizumab vs. docetaxelBlood‐based CGP≥10 mutations per MbPFS and OS in patients with bTMB ≥10 mutations/Mb were higher than in the overall population.

BIRCH/FIR, POPLAR [45]

 

Single‐arm (BIRCH/FIR) and randomized (POPLAR) phase II trials

 

NSCLC

 

OAK, n = 425; POPLAR, n = 287; FIR, n = 138

1st/2nd + line atezolizumab (single‐arm) in BIRCH/FIR, 2nd‐line atezolizumab vs. docetaxel in POPLARCGP

BIRCH/FIR: In 1st line, ≥13.5 mutations/Mb; in 2nd line or later, ≥17.1 mutations/Mb

 

POPLAR: ≥15.8 mutations/Mb

RR and OS were higher in patients with both TMB ≥9 mutations/Mb (median) and ≥ 13.5 mutations/Mb (high) vs <9 and <13.5 mutations/Mb, respectively.

Samstein et al. (2019) [61]

 

Retrospective study

 

Multiple tumor types

 

Treated with ICPI, n = 1,662; Non‐ICPI treated, n = 5,371

Atezolizumab, avelumab, durvalumab, ipilimumab, nivolumab, pembrolizumab or tremelimumab (monotherapy or in combination)CGPNA

OS was higher in patients with high TMB (highest 20% in each cancer type), across entire cohort.

 

TMB cutoff associated with the top 20% varied markedly between cancer types.

aCutpoint only given in Balar et al. [46].

Abbreviations: bTMB, blood‐based TMB; CGP, comprehensive genomic profiling; CI, confidence interval; DCB, durable clinical benefit; HR, hazard ratio; ICPI, immune checkpoint inhibitor; Mb, megabase; MSI, microsatellite instability; NA, not applicable; NSCLC, non‐small cell lung cancer; ORR, objective response rate; OS, overall survival; PD‐L1, programmed death ligand 1; PFS, progression‐free survival; RR, response rate; TCGA, The Cancer Genome Atlas; TMB, tumor mutational burden; UC, urothelial cancer; WES, whole‐exon sequencing.

Table 1

ICPI clinical trials that have evaluated TMB as a biomarker

Trial [reference]/study design/populationIntervention(s)Type of sequencing for TMBTMB cutpoint or highest thresholdTMB‐related results

CheckMate‐227 [54]

 

Open‐label, randomized, phase III trial

 

Advanced NSCLC

 

n = 1,739

1st‐line nivolumab plus ipilimumab vs. platinum‐doublet chemotherapyCGP≥10 mutations per Mb

Nivolumab plus ipilimumab vs. chemotherapy—with TMB ≥10 mutations/Mb:

  • 1‐year PFS: 42.6% vs. 13.2% (p < .001)

  • Median PFS: 7.2 vs. 5.5 months (p < .001)

  • Disease progression or death: HR, 0.58 (97.5% CI: 0.41–0.81; p < .001)

  • ORR: 45.3% vs. 26.9%

 

Nivolumab plus ipilimumab vs. chemotherapy—with TMB <10 mutations/Mb:

  • Median PFS, 3.2 vs. 5.5 months

  • Disease progression or death: HR, 1.07 (95% CI, 0.84–1.35)

 

Treatment difference in TMB ≥10 mutations/Mb was consistent across PD‐L1 expression subgroups (<1% vs. ≥1%)

CheckMate‐012 [25]

 

Prospective study

 

Advanced NSCLC

 

n = 75

1st‐line nivolumab plus ipilimumabWES> median of 158 mutations

TMB > median vs. TMB < median:

  • ORR: 51% vs. 13% (p = .0005)

  • DCB: 65% vs. 34% (p = .011)

  • PFS: HR, 0.41 (p = .0024)

 

TMB was independent of PD‐L1 expression (r = .087; p = .48) and most strongly associated with ORR (p = .001) and PFS (p = .002) (multivariable analysis).

CheckMate‐026 [37,74]

 

Open‐label, randomized, phase III trial

 

Advanced NSCLC with PD‐L1 ≥ 1%

 

n = 541

1st‐line nivolumab vs. doublet platinum chemotherapyCGP≥243 somatic missense mutations per sample

Nivolumab vs. chemotherapy—TMB ≥243 mutations subgroup:

  • ORR: 47% vs. 28%

  • Median PFS: 9.7 vs. 5.8 months (HR, 0.62; 95% CI: 0.38–1.00)

  • OS: no between‐group differences

 

Nivolumab vs. chemotherapy—TMB <243 mutations subgroup:

  • ORR: 23% vs. 33%

  • Median PFS: 4.1 vs. 6.9 months (HR, 1.82; 95% CI: 1.30–2.55)

  • OS: 12.7 vs. 13.2 months (HR, 0.99; 95% CI: 0.71–1.40)

 

There was no association between PD‐L1 and TMB (all patients had PD‐L1 ≥ 1%).

CheckMate‐032 [25]

 

Single‐arm, randomized phase I/II trial

 

Advanced SCLC

 

n = 211

Nivolumab plus ipilimumab, nivolumab aloneWES≥248 mutations (high tertile)

The high vs. low TMB tertile were compared:

  • Nivolumab plus ipilimumab

    • ORR: 46.2% vs. 22.2%

    • 1‐year PFS: 30.0% vs. 6.2%

    • 1‐year OS: 62.4% vs. 23.4%

  • Nivolumab alone

    • ORR: 21.3% vs. 4.8%

    • 1‐year PFS: 21.2% vs. NE

    • 1‐year OS: 62.4% vs. 23.4%

 

PD‐L1 expression ≥1% was rare and evenly distributed among the TMB tertiles.

 

There was no association between PD‐L1 expression and TMB.

CheckMate‐568 [93]

 

Single‐arm, phase II trial

 

Advanced NSCLC

 

n = 288

1st‐line nivolumab plus ipilimumab vs. platinum‐doublet chemotherapyCGP≥10 mutations per Mb

ORR at TMB cutpoints for nivolumab plus ipilimumab:

  • <5 mutations/Mb: 4%

  • <10 mutations/Mb: 10%

  • ≥10 mutations/Mb: 44%

  • ≥15 mutations/Mb: 39%

 

TMB ≥10 mutations/Mb was associated with enhanced response to nivolumab plus ipilimumab regardless of PD‐L1 expression

BIRCH/FIR/POPLAR/OAK, IMvigor 210/211, PCD4989g [94]

 

Retrospective study of tumor tissue samples from 7 monotherapy studies

 

NSCLC (n = 342), advanced UC (n = 400), advanced solid tumors (n = 245)

AtezolizumabCGP≥16 mutations per MbBiomarker‐evaluable population vs. TMB ≥16 mutations/Mb vs. <16 mutations/Mb:
  • ORR: 16.4% vs. 29.7% vs. 13.5%

  • DOR: 16.6 months vs. 29.0 months vs. 13.8 months

PURE‐01 [57]

 

Single‐arm, open‐label, phase II trial

 

Muscle‐invasive urothelial bladder cancer

 

n = 43

Neoadjuvant pembrolizumab before radical cystectomyCGPNAMean TMB in transurethral resection of the bladder resection samples was identical between patients with and without pathologic complete response 11.2 mutations/Mb vs. 11.2 mutations/Mb.

Apache [95]

 

Open‐label, randomized, 3‐stage, phase II trial

 

Advanced germ cell tumors

 

n = 18

Durvalumab alone or with tremelimumabCGPNAMedian TMB was 4 mutations/Mb and was not related to efficacy.

IMvigor210 [46,64]

 

Single‐arm, phase II trial

 

Advanced UC

 

n = 310

1st‐line atezolizumabCGP≥16 mutations per Mba

There was a greater proportion of TMB patients with ≥16 mutations/Mb among responders vs. nonresponders.

  • Consistent across TCGA luminal and basal subtypes

  • Associated with significantly longer OS.

 

TMB ≥16 mutations/Mb was associated with increased expression of

  • APOBEC3A: r = 0.18 (p = .0025)

  • APOBEC3B: r = 0.22 (p = .00046)

 

Responders exhibited higher mean APOBEC3 expression.

Le et al. (2015) [27]

 

Single‐arm, phase II study

 

Advanced pan‐tumor

 

N = 41

PembrolizumabWESNA

Tumors with MSI‐high had high TMB levels vs non‐MSI tumors (p = .007).

 

High TMB was associated with

  • Longer PFS: HR, 0.628 (95% CI: 0.424–0.931; p = .021)

  • Trend toward higher ORR (p = .214).

POPLAR and OAK [56]

 

Randomized, phase II trial

 

Previously treated NSCLC

 

OAK, n = 425; POPLAR, n = 287

2nd + line atezolizumab vs. docetaxelBlood‐based CGP≥10 mutations per MbPFS and OS in patients with bTMB ≥10 mutations/Mb were higher than in the overall population.

BIRCH/FIR, POPLAR [45]

 

Single‐arm (BIRCH/FIR) and randomized (POPLAR) phase II trials

 

NSCLC

 

OAK, n = 425; POPLAR, n = 287; FIR, n = 138

1st/2nd + line atezolizumab (single‐arm) in BIRCH/FIR, 2nd‐line atezolizumab vs. docetaxel in POPLARCGP

BIRCH/FIR: In 1st line, ≥13.5 mutations/Mb; in 2nd line or later, ≥17.1 mutations/Mb

 

POPLAR: ≥15.8 mutations/Mb

RR and OS were higher in patients with both TMB ≥9 mutations/Mb (median) and ≥ 13.5 mutations/Mb (high) vs <9 and <13.5 mutations/Mb, respectively.

Samstein et al. (2019) [61]

 

Retrospective study

 

Multiple tumor types

 

Treated with ICPI, n = 1,662; Non‐ICPI treated, n = 5,371

Atezolizumab, avelumab, durvalumab, ipilimumab, nivolumab, pembrolizumab or tremelimumab (monotherapy or in combination)CGPNA

OS was higher in patients with high TMB (highest 20% in each cancer type), across entire cohort.

 

TMB cutoff associated with the top 20% varied markedly between cancer types.

Trial [reference]/study design/populationIntervention(s)Type of sequencing for TMBTMB cutpoint or highest thresholdTMB‐related results

CheckMate‐227 [54]

 

Open‐label, randomized, phase III trial

 

Advanced NSCLC

 

n = 1,739

1st‐line nivolumab plus ipilimumab vs. platinum‐doublet chemotherapyCGP≥10 mutations per Mb

Nivolumab plus ipilimumab vs. chemotherapy—with TMB ≥10 mutations/Mb:

  • 1‐year PFS: 42.6% vs. 13.2% (p < .001)

  • Median PFS: 7.2 vs. 5.5 months (p < .001)

  • Disease progression or death: HR, 0.58 (97.5% CI: 0.41–0.81; p < .001)

  • ORR: 45.3% vs. 26.9%

 

Nivolumab plus ipilimumab vs. chemotherapy—with TMB <10 mutations/Mb:

  • Median PFS, 3.2 vs. 5.5 months

  • Disease progression or death: HR, 1.07 (95% CI, 0.84–1.35)

 

Treatment difference in TMB ≥10 mutations/Mb was consistent across PD‐L1 expression subgroups (<1% vs. ≥1%)

CheckMate‐012 [25]

 

Prospective study

 

Advanced NSCLC

 

n = 75

1st‐line nivolumab plus ipilimumabWES> median of 158 mutations

TMB > median vs. TMB < median:

  • ORR: 51% vs. 13% (p = .0005)

  • DCB: 65% vs. 34% (p = .011)

  • PFS: HR, 0.41 (p = .0024)

 

TMB was independent of PD‐L1 expression (r = .087; p = .48) and most strongly associated with ORR (p = .001) and PFS (p = .002) (multivariable analysis).

CheckMate‐026 [37,74]

 

Open‐label, randomized, phase III trial

 

Advanced NSCLC with PD‐L1 ≥ 1%

 

n = 541

1st‐line nivolumab vs. doublet platinum chemotherapyCGP≥243 somatic missense mutations per sample

Nivolumab vs. chemotherapy—TMB ≥243 mutations subgroup:

  • ORR: 47% vs. 28%

  • Median PFS: 9.7 vs. 5.8 months (HR, 0.62; 95% CI: 0.38–1.00)

  • OS: no between‐group differences

 

Nivolumab vs. chemotherapy—TMB <243 mutations subgroup:

  • ORR: 23% vs. 33%

  • Median PFS: 4.1 vs. 6.9 months (HR, 1.82; 95% CI: 1.30–2.55)

  • OS: 12.7 vs. 13.2 months (HR, 0.99; 95% CI: 0.71–1.40)

 

There was no association between PD‐L1 and TMB (all patients had PD‐L1 ≥ 1%).

CheckMate‐032 [25]

 

Single‐arm, randomized phase I/II trial

 

Advanced SCLC

 

n = 211

Nivolumab plus ipilimumab, nivolumab aloneWES≥248 mutations (high tertile)

The high vs. low TMB tertile were compared:

  • Nivolumab plus ipilimumab

    • ORR: 46.2% vs. 22.2%

    • 1‐year PFS: 30.0% vs. 6.2%

    • 1‐year OS: 62.4% vs. 23.4%

  • Nivolumab alone

    • ORR: 21.3% vs. 4.8%

    • 1‐year PFS: 21.2% vs. NE

    • 1‐year OS: 62.4% vs. 23.4%

 

PD‐L1 expression ≥1% was rare and evenly distributed among the TMB tertiles.

 

There was no association between PD‐L1 expression and TMB.

CheckMate‐568 [93]

 

Single‐arm, phase II trial

 

Advanced NSCLC

 

n = 288

1st‐line nivolumab plus ipilimumab vs. platinum‐doublet chemotherapyCGP≥10 mutations per Mb

ORR at TMB cutpoints for nivolumab plus ipilimumab:

  • <5 mutations/Mb: 4%

  • <10 mutations/Mb: 10%

  • ≥10 mutations/Mb: 44%

  • ≥15 mutations/Mb: 39%

 

TMB ≥10 mutations/Mb was associated with enhanced response to nivolumab plus ipilimumab regardless of PD‐L1 expression

BIRCH/FIR/POPLAR/OAK, IMvigor 210/211, PCD4989g [94]

 

Retrospective study of tumor tissue samples from 7 monotherapy studies

 

NSCLC (n = 342), advanced UC (n = 400), advanced solid tumors (n = 245)

AtezolizumabCGP≥16 mutations per MbBiomarker‐evaluable population vs. TMB ≥16 mutations/Mb vs. <16 mutations/Mb:
  • ORR: 16.4% vs. 29.7% vs. 13.5%

  • DOR: 16.6 months vs. 29.0 months vs. 13.8 months

PURE‐01 [57]

 

Single‐arm, open‐label, phase II trial

 

Muscle‐invasive urothelial bladder cancer

 

n = 43

Neoadjuvant pembrolizumab before radical cystectomyCGPNAMean TMB in transurethral resection of the bladder resection samples was identical between patients with and without pathologic complete response 11.2 mutations/Mb vs. 11.2 mutations/Mb.

Apache [95]

 

Open‐label, randomized, 3‐stage, phase II trial

 

Advanced germ cell tumors

 

n = 18

Durvalumab alone or with tremelimumabCGPNAMedian TMB was 4 mutations/Mb and was not related to efficacy.

IMvigor210 [46,64]

 

Single‐arm, phase II trial

 

Advanced UC

 

n = 310

1st‐line atezolizumabCGP≥16 mutations per Mba

There was a greater proportion of TMB patients with ≥16 mutations/Mb among responders vs. nonresponders.

  • Consistent across TCGA luminal and basal subtypes

  • Associated with significantly longer OS.

 

TMB ≥16 mutations/Mb was associated with increased expression of

  • APOBEC3A: r = 0.18 (p = .0025)

  • APOBEC3B: r = 0.22 (p = .00046)

 

Responders exhibited higher mean APOBEC3 expression.

Le et al. (2015) [27]

 

Single‐arm, phase II study

 

Advanced pan‐tumor

 

N = 41

PembrolizumabWESNA

Tumors with MSI‐high had high TMB levels vs non‐MSI tumors (p = .007).

 

High TMB was associated with

  • Longer PFS: HR, 0.628 (95% CI: 0.424–0.931; p = .021)

  • Trend toward higher ORR (p = .214).

POPLAR and OAK [56]

 

Randomized, phase II trial

 

Previously treated NSCLC

 

OAK, n = 425; POPLAR, n = 287

2nd + line atezolizumab vs. docetaxelBlood‐based CGP≥10 mutations per MbPFS and OS in patients with bTMB ≥10 mutations/Mb were higher than in the overall population.

BIRCH/FIR, POPLAR [45]

 

Single‐arm (BIRCH/FIR) and randomized (POPLAR) phase II trials

 

NSCLC

 

OAK, n = 425; POPLAR, n = 287; FIR, n = 138

1st/2nd + line atezolizumab (single‐arm) in BIRCH/FIR, 2nd‐line atezolizumab vs. docetaxel in POPLARCGP

BIRCH/FIR: In 1st line, ≥13.5 mutations/Mb; in 2nd line or later, ≥17.1 mutations/Mb

 

POPLAR: ≥15.8 mutations/Mb

RR and OS were higher in patients with both TMB ≥9 mutations/Mb (median) and ≥ 13.5 mutations/Mb (high) vs <9 and <13.5 mutations/Mb, respectively.

Samstein et al. (2019) [61]

 

Retrospective study

 

Multiple tumor types

 

Treated with ICPI, n = 1,662; Non‐ICPI treated, n = 5,371

Atezolizumab, avelumab, durvalumab, ipilimumab, nivolumab, pembrolizumab or tremelimumab (monotherapy or in combination)CGPNA

OS was higher in patients with high TMB (highest 20% in each cancer type), across entire cohort.

 

TMB cutoff associated with the top 20% varied markedly between cancer types.

aCutpoint only given in Balar et al. [46].

Abbreviations: bTMB, blood‐based TMB; CGP, comprehensive genomic profiling; CI, confidence interval; DCB, durable clinical benefit; HR, hazard ratio; ICPI, immune checkpoint inhibitor; Mb, megabase; MSI, microsatellite instability; NA, not applicable; NSCLC, non‐small cell lung cancer; ORR, objective response rate; OS, overall survival; PD‐L1, programmed death ligand 1; PFS, progression‐free survival; RR, response rate; TCGA, The Cancer Genome Atlas; TMB, tumor mutational burden; UC, urothelial cancer; WES, whole‐exon sequencing.

Table 2

Studies demonstrating the relationship between TMB and treatment outcome in patients with cancer

Trial [reference]/study design/populationIntervention(s)Type of sequencing for TMBTMB cutpoint or highest thresholdTMB‐related results

Eroglu et al. (2018) [20]

 

Retrospective review of pathology reports

 

Advanced desmoplastic melanoma

 

n = 60

PD‐1 or PD‐L1 blockade therapyWESNAPatients with desmoplastic melanoma had substantial clinical benefit from PD‐1 or PD‐L1 immune checkpoint blockade therapy likely resulting from high TMB, increased CD8 density, and high expression of PD‐L1 in tumor invasive margin (median follow‐up of 22 months).
  • ORR: 70% (95% CI: 57–81)

  • CR: 32%

  • PR: 38%

  • OS: 74% (95% CI: 60–84)

Rizvi et al. (2018) [12]

 

Prospective and retrospective study

 

Advanced NSCLC

 

n = 240

1st/2nd/3rd + line immunotherapy: Anti–PD‐1 or anti–PD‐L1CGP and WESNA

Median TMB:

  • DCB vs. NDB: 8.5 vs. 6.6 SNVs/Mb (p = .006)

  • CR/PR vs. SD vs. PD: 8.5 vs. 6.6 vs. 66 SNVs/Mb (p = .015)

 

TMB was stratified into increasing thresholds above vs. below the 50th percentile in patients treated with immunotherapy:

  • DCB: 38.6% vs. 25.1% (p = .009)

  • PFS: HR, 1.38 (p = .024)

 

TMB was independent of PD‐L1 expression (r = .1915; p = .08).

Greally et al. (2018) [65]

 

Retrospective study of tumor tissue samples

 

Esophagogastric cancer

 

n = 120

Various immune checkpoint inhibitorsCGP≥7.4 mutations per MbHigh TMB vs. low TMB, OS: 27.1 months vs. 8.4 months (p = .063)

Goodman et al. (2017) [11]

 

Retrospective study of clinical records

 

Locally advanced or metastatic pan‐tumor

 

n = 151

Various immune checkpoint inhibitorsCGP≥20 mutations per Mb

TMB ≥20 mutations/Mb vs. <20 mutations/Mb:

  • RR: 58% vs. 20% (p = .0001)

  • Median PFS: 12.8 vs. 3.3 months (p ≤ .0001)

  • Median OS: not reached vs. 16.3 months (p = .0036)

 

High TMB was independently associated with better outcome parameters (multivariable analysis).

Rozenblum et al. (2017) [96]

 

Retrospective cohort study

 

Advanced lung cancer

 

n = 33

Nivolumab or pembrolizumabCGPNA

Response rate in patients treated with immunotherapy:

  • PR: 11%

  • SD: 11%

  • PD: 78%

 

Patients who were not carrying any treatment‐associated driver (n = 17) had the highest mean TMB (11.8 ± 5 mutations/Mb) and the highest ORR to immunotherapy (33%).

Johnson et al. (2016) [66]

 

Retrospective study of tumor tissue samples

 

Metastatic melanoma

 

Initial cohort: n = 32; validation cohort: n = 33

2nd‐line immune checkpoint inhibitorsCGP>23.1 mutations per Mb (high)High TMB vs. intermediate vs. low:
  • ORR: 85% vs. 29% vs. 14% (p < .001)

  • Median PFS: not reached vs. 89 days vs. 86 days (p < .001)

  • Median OS: not reached vs. 300 days vs. 375 days (p < .001)

Rizvi et al. (2015) [10]

 

Prospective study

 

NSCLC

 

Discovery cohort: n = 16; validation cohort: n = 18

PembrolizumabCGP>median mutations per sample within cohort

TMB > median vs. others, both cohorts:

  • PFS: HR, 0.19 (95% CI: 0.08–0.47; p = .0004)

 

TMB > median vs. others, discovery cohort:

  • DCB: 73% vs. 13% (p = .04)

  • ORR: 63% vs. 0% (p = .03)

Van Allen et al. (2015) [24]

 

Retrospective study of tumor tissue samples

 

Metastatic melanoma

 

n = 110

IpilimumabWESNATMB was significantly associated with CB from ipilimumab (p = .0076).

Snyder et al. (2014) [22]

 

Retrospective study of tumor tissue samples

 

Malignant melanoma

 

Discovery cohort: n = 25; validation cohort: n = 39

Ipilimumab or tremelimumabWESNA

Higher TMB in long‐term benefit subgroup vs. minimal benefit subgroup (p = .009)

 

OS correlated with higher TMB, discovery cohort (p = .04)

Trial [reference]/study design/populationIntervention(s)Type of sequencing for TMBTMB cutpoint or highest thresholdTMB‐related results

Eroglu et al. (2018) [20]

 

Retrospective review of pathology reports

 

Advanced desmoplastic melanoma

 

n = 60

PD‐1 or PD‐L1 blockade therapyWESNAPatients with desmoplastic melanoma had substantial clinical benefit from PD‐1 or PD‐L1 immune checkpoint blockade therapy likely resulting from high TMB, increased CD8 density, and high expression of PD‐L1 in tumor invasive margin (median follow‐up of 22 months).
  • ORR: 70% (95% CI: 57–81)

  • CR: 32%

  • PR: 38%

  • OS: 74% (95% CI: 60–84)

Rizvi et al. (2018) [12]

 

Prospective and retrospective study

 

Advanced NSCLC

 

n = 240

1st/2nd/3rd + line immunotherapy: Anti–PD‐1 or anti–PD‐L1CGP and WESNA

Median TMB:

  • DCB vs. NDB: 8.5 vs. 6.6 SNVs/Mb (p = .006)

  • CR/PR vs. SD vs. PD: 8.5 vs. 6.6 vs. 66 SNVs/Mb (p = .015)

 

TMB was stratified into increasing thresholds above vs. below the 50th percentile in patients treated with immunotherapy:

  • DCB: 38.6% vs. 25.1% (p = .009)

  • PFS: HR, 1.38 (p = .024)

 

TMB was independent of PD‐L1 expression (r = .1915; p = .08).

Greally et al. (2018) [65]

 

Retrospective study of tumor tissue samples

 

Esophagogastric cancer

 

n = 120

Various immune checkpoint inhibitorsCGP≥7.4 mutations per MbHigh TMB vs. low TMB, OS: 27.1 months vs. 8.4 months (p = .063)

Goodman et al. (2017) [11]

 

Retrospective study of clinical records

 

Locally advanced or metastatic pan‐tumor

 

n = 151

Various immune checkpoint inhibitorsCGP≥20 mutations per Mb

TMB ≥20 mutations/Mb vs. <20 mutations/Mb:

  • RR: 58% vs. 20% (p = .0001)

  • Median PFS: 12.8 vs. 3.3 months (p ≤ .0001)

  • Median OS: not reached vs. 16.3 months (p = .0036)

 

High TMB was independently associated with better outcome parameters (multivariable analysis).

Rozenblum et al. (2017) [96]

 

Retrospective cohort study

 

Advanced lung cancer

 

n = 33

Nivolumab or pembrolizumabCGPNA

Response rate in patients treated with immunotherapy:

  • PR: 11%

  • SD: 11%

  • PD: 78%

 

Patients who were not carrying any treatment‐associated driver (n = 17) had the highest mean TMB (11.8 ± 5 mutations/Mb) and the highest ORR to immunotherapy (33%).

Johnson et al. (2016) [66]

 

Retrospective study of tumor tissue samples

 

Metastatic melanoma

 

Initial cohort: n = 32; validation cohort: n = 33

2nd‐line immune checkpoint inhibitorsCGP>23.1 mutations per Mb (high)High TMB vs. intermediate vs. low:
  • ORR: 85% vs. 29% vs. 14% (p < .001)

  • Median PFS: not reached vs. 89 days vs. 86 days (p < .001)

  • Median OS: not reached vs. 300 days vs. 375 days (p < .001)

Rizvi et al. (2015) [10]

 

Prospective study

 

NSCLC

 

Discovery cohort: n = 16; validation cohort: n = 18

PembrolizumabCGP>median mutations per sample within cohort

TMB > median vs. others, both cohorts:

  • PFS: HR, 0.19 (95% CI: 0.08–0.47; p = .0004)

 

TMB > median vs. others, discovery cohort:

  • DCB: 73% vs. 13% (p = .04)

  • ORR: 63% vs. 0% (p = .03)

Van Allen et al. (2015) [24]

 

Retrospective study of tumor tissue samples

 

Metastatic melanoma

 

n = 110

IpilimumabWESNATMB was significantly associated with CB from ipilimumab (p = .0076).

Snyder et al. (2014) [22]

 

Retrospective study of tumor tissue samples

 

Malignant melanoma

 

Discovery cohort: n = 25; validation cohort: n = 39

Ipilimumab or tremelimumabWESNA

Higher TMB in long‐term benefit subgroup vs. minimal benefit subgroup (p = .009)

 

OS correlated with higher TMB, discovery cohort (p = .04)

Abbreviations: CB, clinical benefit; CGP, comprehensive genomic profiling; CI, confidence interval; CR, complete response; DCB, durable clinical benefit; DOR, duration of response; HR, hazard ratio; Mb, megabase; NA, not applicable; NDB, no durable benefit; NE, not estimable; NGS, next‐generation sequencing; NSCLC, non‐small cell lung cancer; ORR, objective response rate; OS, overall survival; PD, partial disease; PD‐1, programmed cell death 1; PD‐L1, programmed cell death ligand 1; PFS, progression‐free survival; PR, partial response; RR, response rate; SD, stable disease; SNV, single‐nucleotide variant; TMB, tumor mutational burden; WES, whole‐exome sequencing.

Table 2

Studies demonstrating the relationship between TMB and treatment outcome in patients with cancer

Trial [reference]/study design/populationIntervention(s)Type of sequencing for TMBTMB cutpoint or highest thresholdTMB‐related results

Eroglu et al. (2018) [20]

 

Retrospective review of pathology reports

 

Advanced desmoplastic melanoma

 

n = 60

PD‐1 or PD‐L1 blockade therapyWESNAPatients with desmoplastic melanoma had substantial clinical benefit from PD‐1 or PD‐L1 immune checkpoint blockade therapy likely resulting from high TMB, increased CD8 density, and high expression of PD‐L1 in tumor invasive margin (median follow‐up of 22 months).
  • ORR: 70% (95% CI: 57–81)

  • CR: 32%

  • PR: 38%

  • OS: 74% (95% CI: 60–84)

Rizvi et al. (2018) [12]

 

Prospective and retrospective study

 

Advanced NSCLC

 

n = 240

1st/2nd/3rd + line immunotherapy: Anti–PD‐1 or anti–PD‐L1CGP and WESNA

Median TMB:

  • DCB vs. NDB: 8.5 vs. 6.6 SNVs/Mb (p = .006)

  • CR/PR vs. SD vs. PD: 8.5 vs. 6.6 vs. 66 SNVs/Mb (p = .015)

 

TMB was stratified into increasing thresholds above vs. below the 50th percentile in patients treated with immunotherapy:

  • DCB: 38.6% vs. 25.1% (p = .009)

  • PFS: HR, 1.38 (p = .024)

 

TMB was independent of PD‐L1 expression (r = .1915; p = .08).

Greally et al. (2018) [65]

 

Retrospective study of tumor tissue samples

 

Esophagogastric cancer

 

n = 120

Various immune checkpoint inhibitorsCGP≥7.4 mutations per MbHigh TMB vs. low TMB, OS: 27.1 months vs. 8.4 months (p = .063)

Goodman et al. (2017) [11]

 

Retrospective study of clinical records

 

Locally advanced or metastatic pan‐tumor

 

n = 151

Various immune checkpoint inhibitorsCGP≥20 mutations per Mb

TMB ≥20 mutations/Mb vs. <20 mutations/Mb:

  • RR: 58% vs. 20% (p = .0001)

  • Median PFS: 12.8 vs. 3.3 months (p ≤ .0001)

  • Median OS: not reached vs. 16.3 months (p = .0036)

 

High TMB was independently associated with better outcome parameters (multivariable analysis).

Rozenblum et al. (2017) [96]

 

Retrospective cohort study

 

Advanced lung cancer

 

n = 33

Nivolumab or pembrolizumabCGPNA

Response rate in patients treated with immunotherapy:

  • PR: 11%

  • SD: 11%

  • PD: 78%

 

Patients who were not carrying any treatment‐associated driver (n = 17) had the highest mean TMB (11.8 ± 5 mutations/Mb) and the highest ORR to immunotherapy (33%).

Johnson et al. (2016) [66]

 

Retrospective study of tumor tissue samples

 

Metastatic melanoma

 

Initial cohort: n = 32; validation cohort: n = 33

2nd‐line immune checkpoint inhibitorsCGP>23.1 mutations per Mb (high)High TMB vs. intermediate vs. low:
  • ORR: 85% vs. 29% vs. 14% (p < .001)

  • Median PFS: not reached vs. 89 days vs. 86 days (p < .001)

  • Median OS: not reached vs. 300 days vs. 375 days (p < .001)

Rizvi et al. (2015) [10]

 

Prospective study

 

NSCLC

 

Discovery cohort: n = 16; validation cohort: n = 18

PembrolizumabCGP>median mutations per sample within cohort

TMB > median vs. others, both cohorts:

  • PFS: HR, 0.19 (95% CI: 0.08–0.47; p = .0004)

 

TMB > median vs. others, discovery cohort:

  • DCB: 73% vs. 13% (p = .04)

  • ORR: 63% vs. 0% (p = .03)

Van Allen et al. (2015) [24]

 

Retrospective study of tumor tissue samples

 

Metastatic melanoma

 

n = 110

IpilimumabWESNATMB was significantly associated with CB from ipilimumab (p = .0076).

Snyder et al. (2014) [22]

 

Retrospective study of tumor tissue samples

 

Malignant melanoma

 

Discovery cohort: n = 25; validation cohort: n = 39

Ipilimumab or tremelimumabWESNA

Higher TMB in long‐term benefit subgroup vs. minimal benefit subgroup (p = .009)

 

OS correlated with higher TMB, discovery cohort (p = .04)

Trial [reference]/study design/populationIntervention(s)Type of sequencing for TMBTMB cutpoint or highest thresholdTMB‐related results

Eroglu et al. (2018) [20]

 

Retrospective review of pathology reports

 

Advanced desmoplastic melanoma

 

n = 60

PD‐1 or PD‐L1 blockade therapyWESNAPatients with desmoplastic melanoma had substantial clinical benefit from PD‐1 or PD‐L1 immune checkpoint blockade therapy likely resulting from high TMB, increased CD8 density, and high expression of PD‐L1 in tumor invasive margin (median follow‐up of 22 months).
  • ORR: 70% (95% CI: 57–81)

  • CR: 32%

  • PR: 38%

  • OS: 74% (95% CI: 60–84)

Rizvi et al. (2018) [12]

 

Prospective and retrospective study

 

Advanced NSCLC

 

n = 240

1st/2nd/3rd + line immunotherapy: Anti–PD‐1 or anti–PD‐L1CGP and WESNA

Median TMB:

  • DCB vs. NDB: 8.5 vs. 6.6 SNVs/Mb (p = .006)

  • CR/PR vs. SD vs. PD: 8.5 vs. 6.6 vs. 66 SNVs/Mb (p = .015)

 

TMB was stratified into increasing thresholds above vs. below the 50th percentile in patients treated with immunotherapy:

  • DCB: 38.6% vs. 25.1% (p = .009)

  • PFS: HR, 1.38 (p = .024)

 

TMB was independent of PD‐L1 expression (r = .1915; p = .08).

Greally et al. (2018) [65]

 

Retrospective study of tumor tissue samples

 

Esophagogastric cancer

 

n = 120

Various immune checkpoint inhibitorsCGP≥7.4 mutations per MbHigh TMB vs. low TMB, OS: 27.1 months vs. 8.4 months (p = .063)

Goodman et al. (2017) [11]

 

Retrospective study of clinical records

 

Locally advanced or metastatic pan‐tumor

 

n = 151

Various immune checkpoint inhibitorsCGP≥20 mutations per Mb

TMB ≥20 mutations/Mb vs. <20 mutations/Mb:

  • RR: 58% vs. 20% (p = .0001)

  • Median PFS: 12.8 vs. 3.3 months (p ≤ .0001)

  • Median OS: not reached vs. 16.3 months (p = .0036)

 

High TMB was independently associated with better outcome parameters (multivariable analysis).

Rozenblum et al. (2017) [96]

 

Retrospective cohort study

 

Advanced lung cancer

 

n = 33

Nivolumab or pembrolizumabCGPNA

Response rate in patients treated with immunotherapy:

  • PR: 11%

  • SD: 11%

  • PD: 78%

 

Patients who were not carrying any treatment‐associated driver (n = 17) had the highest mean TMB (11.8 ± 5 mutations/Mb) and the highest ORR to immunotherapy (33%).

Johnson et al. (2016) [66]

 

Retrospective study of tumor tissue samples

 

Metastatic melanoma

 

Initial cohort: n = 32; validation cohort: n = 33

2nd‐line immune checkpoint inhibitorsCGP>23.1 mutations per Mb (high)High TMB vs. intermediate vs. low:
  • ORR: 85% vs. 29% vs. 14% (p < .001)

  • Median PFS: not reached vs. 89 days vs. 86 days (p < .001)

  • Median OS: not reached vs. 300 days vs. 375 days (p < .001)

Rizvi et al. (2015) [10]

 

Prospective study

 

NSCLC

 

Discovery cohort: n = 16; validation cohort: n = 18

PembrolizumabCGP>median mutations per sample within cohort

TMB > median vs. others, both cohorts:

  • PFS: HR, 0.19 (95% CI: 0.08–0.47; p = .0004)

 

TMB > median vs. others, discovery cohort:

  • DCB: 73% vs. 13% (p = .04)

  • ORR: 63% vs. 0% (p = .03)

Van Allen et al. (2015) [24]

 

Retrospective study of tumor tissue samples

 

Metastatic melanoma

 

n = 110

IpilimumabWESNATMB was significantly associated with CB from ipilimumab (p = .0076).

Snyder et al. (2014) [22]

 

Retrospective study of tumor tissue samples

 

Malignant melanoma

 

Discovery cohort: n = 25; validation cohort: n = 39

Ipilimumab or tremelimumabWESNA

Higher TMB in long‐term benefit subgroup vs. minimal benefit subgroup (p = .009)

 

OS correlated with higher TMB, discovery cohort (p = .04)

Abbreviations: CB, clinical benefit; CGP, comprehensive genomic profiling; CI, confidence interval; CR, complete response; DCB, durable clinical benefit; DOR, duration of response; HR, hazard ratio; Mb, megabase; NA, not applicable; NDB, no durable benefit; NE, not estimable; NGS, next‐generation sequencing; NSCLC, non‐small cell lung cancer; ORR, objective response rate; OS, overall survival; PD, partial disease; PD‐1, programmed cell death 1; PD‐L1, programmed cell death ligand 1; PFS, progression‐free survival; PR, partial response; RR, response rate; SD, stable disease; SNV, single‐nucleotide variant; TMB, tumor mutational burden; WES, whole‐exome sequencing.

Table 3

Examples of planned or ongoing clinical trials evaluating TMB as a biomarker

TrialStudy designTMB‐related design elementsCompletion date, estimated

B‐F1RST [97]

 

NCT02848651

Phase II, single‐arm trial of atezolizumab in advanced NSCLCPrimary biomarker endpoint is bTMB; clinical outcomes (OS, PFS, OR) will be evaluated according to bTMB2018

B‐FAST [98]

 

NCT03178552

Phase II/III nonrandomized multiple cohort trial of atezolizumab, alectinib, pemetrexed, or gemcitabine in advanced NSCLCEnrollment by actionable genomic alterations or positive bTMB

2020 (primary)

 

2022 (study)

CAPTUR [99]

 

NCT03297606

Phase II basket trial of various targeted therapies in advanced cancer (pan‐tumor)Study group: Nivolumab ± ipilimumab in patients with high TMB and/or alterations in POLE/POLD12021

Javelin Parp Medley [100]

 

NCT03330405

Phase Ib/II dose‐finding trial of avelumab plus talazoparib in advanced cancer (pan‐tumor)Secondary endpoint: TMB at baseline2020

My Pathway [101]

 

NCT02091141

Phase II basket trial of various targeted therapies in advanced cancer (pan‐tumor)Study group: Atezolizumab in patients with high TMB/MSI‐high and/or alterations in PD‐L1, POLE, or POLD12019
PECULIAR [102]Phase II, single‐arm trial of neoadjuvant pembrolizumab and epacadostat in muscle‐invasive urothelial bladder cancerEndpoint: TMB among biomarkers to be assessedUnknown

TAPUR [109]

 

NCT02693535

Phase II basket trial of various targeted therapies in advanced cancer (pan‐tumor)Study group: Pembrolizumab or nivolumab + ipilimumab in patients with high TMB and/or alterations in POLE/POLD12019 (primary)
TrialStudy designTMB‐related design elementsCompletion date, estimated

B‐F1RST [97]

 

NCT02848651

Phase II, single‐arm trial of atezolizumab in advanced NSCLCPrimary biomarker endpoint is bTMB; clinical outcomes (OS, PFS, OR) will be evaluated according to bTMB2018

B‐FAST [98]

 

NCT03178552

Phase II/III nonrandomized multiple cohort trial of atezolizumab, alectinib, pemetrexed, or gemcitabine in advanced NSCLCEnrollment by actionable genomic alterations or positive bTMB

2020 (primary)

 

2022 (study)

CAPTUR [99]

 

NCT03297606

Phase II basket trial of various targeted therapies in advanced cancer (pan‐tumor)Study group: Nivolumab ± ipilimumab in patients with high TMB and/or alterations in POLE/POLD12021

Javelin Parp Medley [100]

 

NCT03330405

Phase Ib/II dose‐finding trial of avelumab plus talazoparib in advanced cancer (pan‐tumor)Secondary endpoint: TMB at baseline2020

My Pathway [101]

 

NCT02091141

Phase II basket trial of various targeted therapies in advanced cancer (pan‐tumor)Study group: Atezolizumab in patients with high TMB/MSI‐high and/or alterations in PD‐L1, POLE, or POLD12019
PECULIAR [102]Phase II, single‐arm trial of neoadjuvant pembrolizumab and epacadostat in muscle‐invasive urothelial bladder cancerEndpoint: TMB among biomarkers to be assessedUnknown

TAPUR [109]

 

NCT02693535

Phase II basket trial of various targeted therapies in advanced cancer (pan‐tumor)Study group: Pembrolizumab or nivolumab + ipilimumab in patients with high TMB and/or alterations in POLE/POLD12019 (primary)

Abbreviations: bTMB, blood‐based TMB; MSI, microsatellite instability; NSCLC, non‐small cell lung cancer; PD‐L1, programmed death ligand 1; TMB, tumor mutational burden.

Table 3

Examples of planned or ongoing clinical trials evaluating TMB as a biomarker

TrialStudy designTMB‐related design elementsCompletion date, estimated

B‐F1RST [97]

 

NCT02848651

Phase II, single‐arm trial of atezolizumab in advanced NSCLCPrimary biomarker endpoint is bTMB; clinical outcomes (OS, PFS, OR) will be evaluated according to bTMB2018

B‐FAST [98]

 

NCT03178552

Phase II/III nonrandomized multiple cohort trial of atezolizumab, alectinib, pemetrexed, or gemcitabine in advanced NSCLCEnrollment by actionable genomic alterations or positive bTMB

2020 (primary)

 

2022 (study)

CAPTUR [99]

 

NCT03297606

Phase II basket trial of various targeted therapies in advanced cancer (pan‐tumor)Study group: Nivolumab ± ipilimumab in patients with high TMB and/or alterations in POLE/POLD12021

Javelin Parp Medley [100]

 

NCT03330405

Phase Ib/II dose‐finding trial of avelumab plus talazoparib in advanced cancer (pan‐tumor)Secondary endpoint: TMB at baseline2020

My Pathway [101]

 

NCT02091141

Phase II basket trial of various targeted therapies in advanced cancer (pan‐tumor)Study group: Atezolizumab in patients with high TMB/MSI‐high and/or alterations in PD‐L1, POLE, or POLD12019
PECULIAR [102]Phase II, single‐arm trial of neoadjuvant pembrolizumab and epacadostat in muscle‐invasive urothelial bladder cancerEndpoint: TMB among biomarkers to be assessedUnknown

TAPUR [109]

 

NCT02693535

Phase II basket trial of various targeted therapies in advanced cancer (pan‐tumor)Study group: Pembrolizumab or nivolumab + ipilimumab in patients with high TMB and/or alterations in POLE/POLD12019 (primary)
TrialStudy designTMB‐related design elementsCompletion date, estimated

B‐F1RST [97]

 

NCT02848651

Phase II, single‐arm trial of atezolizumab in advanced NSCLCPrimary biomarker endpoint is bTMB; clinical outcomes (OS, PFS, OR) will be evaluated according to bTMB2018

B‐FAST [98]

 

NCT03178552

Phase II/III nonrandomized multiple cohort trial of atezolizumab, alectinib, pemetrexed, or gemcitabine in advanced NSCLCEnrollment by actionable genomic alterations or positive bTMB

2020 (primary)

 

2022 (study)

CAPTUR [99]

 

NCT03297606

Phase II basket trial of various targeted therapies in advanced cancer (pan‐tumor)Study group: Nivolumab ± ipilimumab in patients with high TMB and/or alterations in POLE/POLD12021

Javelin Parp Medley [100]

 

NCT03330405

Phase Ib/II dose‐finding trial of avelumab plus talazoparib in advanced cancer (pan‐tumor)Secondary endpoint: TMB at baseline2020

My Pathway [101]

 

NCT02091141

Phase II basket trial of various targeted therapies in advanced cancer (pan‐tumor)Study group: Atezolizumab in patients with high TMB/MSI‐high and/or alterations in PD‐L1, POLE, or POLD12019
PECULIAR [102]Phase II, single‐arm trial of neoadjuvant pembrolizumab and epacadostat in muscle‐invasive urothelial bladder cancerEndpoint: TMB among biomarkers to be assessedUnknown

TAPUR [109]

 

NCT02693535

Phase II basket trial of various targeted therapies in advanced cancer (pan‐tumor)Study group: Pembrolizumab or nivolumab + ipilimumab in patients with high TMB and/or alterations in POLE/POLD12019 (primary)

Abbreviations: bTMB, blood‐based TMB; MSI, microsatellite instability; NSCLC, non‐small cell lung cancer; PD‐L1, programmed death ligand 1; TMB, tumor mutational burden.

It should be noted that TMB cutoffs have been defined differently across studies, testing platforms, and in various patient populations, and it is also important to acknowledge that cutoffs might differ by tumor type and ICPI agent (e.g., >16 mutations/Mb for atezolizumab in urothelial carcinoma; >23.1 mutations/Mb for pembrolizumab in NSCLC; and ≥13.5, ≥15.8, or ≥17.1 mutations/Mb for atezolizumab in NSCLC; Tables 12) [45,46,61,66]. Goodman and colleagues [11] suggested a pan‐tumor cutoff of 20 mutations per Mb, and Yarchoan and colleagues [103] have reported a nearly linear relationship between TMB and ORR. A TMB cutoff of 10 mutations per Mb for treatment outcome among patients with advanced NSCLC treated with nivolumab plus ipilimumab was recently validated in the CheckMate‐568 trial [93], which demonstrated ORRs of 4% and 10% at cutoffs of <5 and <10 mutations per Mb, respectively, compared with 44% at ≥10 mutations per Mb. These findings informed the cutoff for the phase III, randomized, placebo‐controlled CheckMate‐227 study, in which the treatment group with TMB ≥10 mutations per Mb experienced 1‐year PFS of 42.6% compared with 13.2% in the chemotherapy group [54]. It remains to be seen how TMB cutoffs will be applied broadly across tumor types in a clinical setting, but the possibility exists for TMB to redefine therapeutic approaches agnostic of tumor type, similar to MSI.

Current Value of TMB to the Oncology Community

The value of TMB is intrinsically tied to the value of identifying patients who are likely to have a clinical benefit from ICPIs given that the magnitude of such benefit is often considerable. As discussed above, immuno‐oncology biomarkers are not mutually inclusive. Comprehensive assays capable of measuring TMB are likely to identify information about other biomarkers and alterations associated with targeted therapies, allowing care providers to make fully informed therapeutic decisions. By developing and refining this stratification, certain patients with low TMB or other alterations predictive of lack of response or hyper‐progression may avoid costly ineffective treatment, whereas others who are strong candidates for ICPIs may become eligible to receive these agents at earlier lines of therapy.

There is a recognized need for standardization of clinically valid TMB assays across testing platforms. Lessons can be learned from the challenges of validation for PD‐L1 testing [7], which led to an acknowledgment of the need for improved harmonization for biomarker testing. International studies and a coalition of organizations are currently working on methods to ensure the standardization of TMB across assays in order to confirm that accurate clinical decisions are being made for patients with cancer [60]. At the time of this writing, the TMB Harmonization Working Group is reviewing the current methods of TMB calculation and reporting as well as developing a consensus on how best to standardize these measurements (phase I has been completed; phase II is underway; Fig. 2) [56,60,69].

Improved patient selection for immunotherapy is also likely to enhance the economic value of ICPIs. In particular, health‐related quality of life outcomes among patients with NSCLC and urothelial cancer who were treated with pembrolizumab have demonstrated a substantial improvement compared with chemotherapy, thus showing the potential of TMB to increase incremental quality‐adjusted life‐years in economic analyses [104,105]. Although there is limited direct evidence evaluating the economic value of using TMB as a biomarker for treatment stratification, the potential impact of incorporating TMB testing into routine clinical practice might lead to improved outcomes and greater stratification of patients who undergo effective immunotherapy for a longer duration. In this scenario, testing costs are likely to remain stable when TMB is provided in the context of an existing CGP panel, while clinical value improves.

Although there is limited direct evidence evaluating the economic value of using TMB as a biomarker for treatment stratification, the potential impact of incorporating TMB testing into routine clinical practice might lead to improved outcomes and greater stratification of patients who undergo effective immunotherapy for a longer duration.

Future Directions

Collectively, the current data suggest that measuring TMB for all patients with cancer has the potential to increase access to life‐extending therapies while improving the overall clinical and economic value of ICPIs. Several ongoing or planned ICPI studies are using TMB to enroll patients and thereby increase the proportion of patients who are likely to benefit (Table 3). Additionally, TMB measurement from circulating tumor DNA, derived from blood specimens (bTMB), was recently shown to be predictive of survival in patients with NSCLC who were treated with atezolizumab, and several ongoing trials are evaluating the prospective efficacy of bTMB in a first‐line NSCLC setting [56,97,98,106] (Table 3).

There are many more avenues of research to be explored in order to better understand the relationship between TMB and ICPI outcomes. For example, recent findings have suggested that TMB could be useful for patient stratification in trials assessing ICPI use at earlier stages of cancer [55,107]. Important questions regarding the role of concurrent genomic alterations in high TMB tumors that may negatively predict the impact ICPI responsiveness, such as pre‐existing STK11, JAK1/2, MDM2 or B2M alterations, remain unclear. In addition, the potential for treatment to affect a patient's TMB status, and whether such a change in TMB over time has any clinical significance, is not yet known.

Finally, the role of TMB should be considered in combination therapy trials, including combinations of ICPIs as well as ICPIs with conventional therapies. As noted above, the first prospective clinical validation of a TMB cutoff was with nivolumab plus ipilimumab, which are PD‐1 and CTLA‐4 inhibitors, respectively [54]. Furthermore, a benefit from chemotherapy‐based approaches was seen in patients with TMB >8 in the phase III SWOG 80405 trial [108]. Although there is limited research evaluating TMB as a predictive biomarker for response to non‐ICI treatment such as chemotherapy, this represents an area of future investigation [54,61]. Utilizing TMB and other biomarkers to select patients for specific ICPI‐based combinations could be critical in subsets of patients, and the effect of such combinations on the TMB threshold for clinical benefit should be examined.

Conclusion

Here we provide an overview of the current evidence for TMB as a clinically relevant predictive biomarker of ICPI outcomes in several tumor types. Targeted NGS assays have been validated against WES for accurate TMB measurement. Current research to establish appropriate TMB cutoffs is ongoing, and these cutoffs are likely to be ICPI‐ and tumor type–specific. The standardization of TMB and clinical studies of its use in varying disease states and drug regimens are expected to result in the approval of TMB as a companion diagnostic for ICPIs.

Collectively, current and future trials utilizing CGP to inform enrollment will further elucidate the value of TMB as a biomarker alone and in context with other biomarkers and genomic data. With ongoing study, TMB alongside other genomic biomarkers can direct appropriate patients to ICPI or other targeted therapies at earlier lines of treatment and potentially identify those likely to continue to have durable responses after short‐term treatment, while simultaneously sparing those unlikely to benefit. Overall, the measurement of and appropriate use of TMB has the potential to add substantially to both the clinical and economic value of ICPI agents in oncology.

Acknowledgments

The authors take full responsibility for this work and thank Bethany Sawchyn of Foundation Medicine, Inc., for providing a critical review of the manuscript. This study was funded by Foundation Medicine, Inc.

Author Contributions

Conception/design: Samuel J. Klempner, David Fabrizio, Shalmali Bane, Marcia Reinhart, Tim Peoples, Siraj M. Ali, Ethan S. Sokol, Garrett Frampton, Alexa B. Schrock, Rachel Anhorn, Prasanth Reddy

Data analysis and interpretation: Samuel J. Klempner, David Fabrizio, Shalmali Bane, Marcia Reinhart, Tim Peoples, Siraj M. Ali, Ethan S. Sokol, Garrett Frampton, Alexa B. Schrock, Rachel Anhorn, Prasanth Reddy

Manuscript writing: Samuel J. Klempner, David Fabrizio, Shalmali Bane, Marcia Reinhart, Tim Peoples

Final approval of manuscript: Samuel J. Klempner, David Fabrizio, Shalmali Bane, Marcia Reinhart, Tim Peoples, Siraj M. Ali, Ethan S. Sokol, Garrett Frampton, Alexa B. Schrock, Rachel Anhorn, Prasanth Reddy

Disclosures

Samuel J. Klempner: Foundation Medicine, Inc., Astellas, Lilly Oncology, Boston Biomedical (C/A), Leap Therapeutics (RF), Foundation Medicine, Inc. (H), TP Therapeutics (SAB); David Fabrizio: Foundation Medicine, Inc. (E, OI); Shalmali Bane: Analysis Group, Inc. (E), Foundation Medicine, Inc. (C/A—employer); Marcia Reinhart: Analysis Group, Inc. (E), Foundation Medicine, Inc. (C/A—employer); Tim Peoples: Amgen (E), Analysis Group, Inc. (E—former); Siraj M. Ali: Foundation Medicine, Inc. (E, OI); Ethan Sokol: Foundation Medicine, Inc. (E, OI); Garrett Frampton: Foundation Medicine, Inc. (E, OI); Alexa B. Schrock: Foundation Medicine, Inc. (E, OI); Rachel Anhorn: Foundation Medicine, Inc. (E, OI); Prasanth Reddy: Foundation Medicine, Inc. (E, OI).

(C/A) Consulting/advisory relationship; (RF) Research funding; (E) Employment; (ET) Expert testimony; (H) Honoraria received; (OI) Ownership interests; (IP) Intellectual property rights/inventor/patent holder; (SAB) Scientific advisory board

References

1

Wang
 
C
,
Yu
 
X
,
Wang
 
W
.
A meta‐analysis of efficacy and safety of antibodies targeting PD‐1/PD‐L1 in treatment of advanced nonsmall cell lung cancer
.
Medicine (Baltimore)
 
2016
;
95
:e5539.

2

Lin
 
Z
,
Chen
 
X
,
Li
 
Z
et al.
PD‐1 antibody monotherapy for malignant melanoma: A systematic review and meta‐analysis
.
PLoS One
 
2016
;
11
:e0160485.

3

Garon
 
EB
,
Rizvi
 
NA
,
Hui
 
R
et al.
Pembrolizumab for the treatment of non‐small‐cell lung cancer
.
N Engl J Med
 
2015
;
372
:
2018
2028
.

4

Herbst
 
RS
,
Soria
 
J‐C
,
Kowanetz
 
M
et al.
Predictive correlates of response to the anti‐PD‐L1 antibody MPDL3280A in cancer patients
.
Nature
 
2014
;
515
:
563
.

5

Fehrenbacher
 
L
,
Spira
 
A
,
Ballinger
 
M
et al.
Atezolizumab versus docetaxel for patients with previously treated non‐small‐cell lung cancer (POPLAR): A multicentre, open‐label, phase 2 randomised controlled trial
.
Lancet
 
2016
;
387
:
1837
1846
.

6

Taube
 
JM
,
Klein
 
A
,
Brahmer
 
JR
et al.
Association of PD‐1, PD‐1 ligands, and other features of the tumor immune microenvironment with response to anti–PD‐1 therapy
.
Clin Cancer Res
 
2014
;
20
:
5064
5074
.

7

Hirsch
 
FR
,
McElhinny
 
A
,
Stanforth
 
D
et al.
PD‐L1 immunohistochemistry assays for lung cancer: Results from phase 1 of the blueprint PD‐L1 IHC assay comparison project
.
J Thorac Oncol
 
2017
;
12
:
208
222
.

8

Patel
 
SP
,
Kurzrock
 
R.
 
PD‐L1 expression as a predictive biomarker in cancer immunotherapy
.
Mol Cancer Ther
 
2015
;
14
:
847
856
.

9

Topalian
 
SL
,
Taube
 
JM
,
Anders
 
RA
et al.
Mechanism‐driven biomarkers to guide immune checkpoint blockade in cancer therapy
.
Nat Rev Cancer
 
2016
;
16
:
275
.

10

Rizvi
 
NA
,
Hellmann
 
MD
,
Snyder
 
A
et al.
Cancer immunology. Mutational landscape determines sensitivity to PD‐1 blockade in non‐small cell lung cancer
.
Science
 
2015
;
348
:
124
128
.

11

Goodman
 
AM
,
Kato
 
S
,
Bazhenova
 
L
et al.
Tumor mutational burden as an independent predictor of response to immunotherapy in diverse cancers
.
Mol Cancer Ther
 
2017
;
16
:
2598
2608
.

12

Rizvi
 
H
,
Sanchez‐Vega
 
F
,
La
 
K
et al.
Molecular determinants of response to anti‐programmed cell death (PD)‐1 and anti‐programmed death‐ligand 1 (PD‐L1) blockade in patients with non‐small‐cell lung cancer profiled with targeted next‐generation sequencing
.
J Clin Oncol
 
2018
;
36
:
633
641
.

13

Chalmers
 
ZR
,
Connelly
 
CF
,
Fabrizio
 
D
et al.
Analysis of 100,000 human cancer genomes reveals the landscape of tumor mutational burden
.
Genome Med
 
2017
;
9
:
34
.

14

Martin‐Liberal
 
J
,
Ochoa de Olza
 
M
,
Hierro
 
C
et al.
The expanding role of immunotherapy
.
Cancer Treat Rev
 
2017
;
54
:
74
86
.

15

Hanahan
 
D
,
Weinberg
 
RA
.
Hallmarks of cancer: The next generation
.
Cell
 
2011
;
144
:
646
674
.

16

McFarland
 
CD
,
Yaglom
 
JA
,
Wojtkowiak
 
JW
et al.
The damaging effect of passenger mutations on cancer progression
.
Cancer Res
 
2017
;
77
:
4763
4772
.

17

Yi
 
M
,
Qin
 
S
,
Zhao
 
W
et al.
The role of neoantigen in immune checkpoint blockade therapy
.
Exp Hematol Oncol
 
2018
;
7
:
28
.

18

Ott
 
PA
,
Hu
 
Z
,
Keskin
 
DB
et al.
An immunogenic personal neoantigen vaccine for patients with melanoma
.
Nature
 
2017
;
547
:
217
.

19

Keskin
 
DB
,
Anandappa
 
AJ
,
Sun
 
J
et al.
Neoantigen vaccine generates intratumoral T cell responses in phase Ib glioblastoma trial
.
Nature
 
2019
;
565
:
234
.

20

Eroglu
 
Z
,
Zaretsky
 
JM
,
Hu‐Lieskovan
 
S
et al.
High response rate to PD‐1 blockade in desmoplastic melanomas
.
Nature
 
2018
;
553
:
347
350
.

21

Riaz
 
N
,
Havel
 
JJ
,
Makarov
 
V
et al.
Tumor and microenvironment evolution during immunotherapy with nivolumab
.
Cell
 
2017
;
171
:
934
949.e16
.

22

Snyder
 
A
,
Makarov
 
V
,
Merghoub
 
T
et al.
Genetic basis for clinical response to CTLA‐4 blockade in melanoma
.
N Engl J Med
 
2014
;
371
:
2189
2199
.

23

Snyder
 
A
,
Nathanson
 
T
,
Funt
 
SA
et al.
Contribution of systemic and somatic factors to clinical response and resistance to PD‐L1 blockade in urothelial cancer: an exploratory multi‐omic analysis
.
PLoS Med
 
2017
;
14
:e1002309.

24

Van Allen
 
EM
,
Miao
 
D
,
Schilling
 
B
et al.
Genomic correlates of response to CTLA‐4 blockade in metastatic melanoma
.
Science
 
2015
;
350
:
207
211
.

25

Hellmann
 
MD
,
Nathanson
 
T
,
Rizvi
 
H
et al.
Genomic features of response to combination immunotherapy in patients with advanced non‐small‐cell lung cancer
.
Cancer Cell
 
2018
;
33
:
843
852
.

26

Hellmann
 
MD
,
Callahan
 
MK
,
Awad
 
MM
et al.
Tumor mutational burden and efficacy of nivolumab monotherapy and in combination with ipilimumab in small‐cell lung cancer
.
Cancer Cell
 
2018
;
33
:
853
861.e4
.

27

Le
 
DT
,
Uram
 
JN
,
Wang
 
H
et al.
PD‐1 blockade in tumors with mismatch‐repair deficiency
.
N Engl J Med
 
2015
;
372
:
2509
2520
.

28

Le
 
DT
,
Durham
 
JN
,
Smith
 
KN
et al.
Mismatch repair deficiency predicts response of solid tumors to PD‐1 blockade
.
Science
 
2017
;
357
:
409
413
.

29

Endris
 
V
,
Buchhalter
 
I
,
Allgäuer
 
M
et al.
Measurement of tumor mutational burden (TMB) in routine molecular diagnostics: In‐silico and real‐life analysis of three larger gene panels
.
Int J Cancer
 
2019
;
144
:
2303
2312
.

30

Spigel
 
DR
,
Schrock
 
AB
,
Fabrizio
 
D
et al.
Tumor mutation burden (TMB) in lung cancer (LC) and relationship with response to PD‐1/PD‐L1 targeted therapies
.
J Clin Oncol
 
2016
;
34
(
suppl 15
):
9017A
.

31

U.S. Food and Drug Administration
. FDA unveils a streamlined path for the authorization of tumor profiling tests alongside its latest product action [press release]. November 15, 2017. Available at https://www.fda.gov/newsevents/newsroom/pressannouncements/ucm585347.htm. Accessed September 19, 2018.

32

Rothschild
 
S
,
Jermann
 
P
,
Savic
 
S
et al.
Tumor mutational burden assessed by a targeted NGS assay to predict benefit from immune checkpoint inhibitors in non‐small cell lung cancer
.
J Clin Oncol
 
2019
;
37
(
suppl 15
):e14266A.

33

U.S. Food and Drug Administration
. FDA announces approval, CMS proposes coverage of first breakthrough‐designated test to detect extensive number of cancer biomarkers [press release]. November 30,
2017
. Available at https://www.fda.gov/newsevents/newsroom/pressannouncements/ucm587273.htm. Accessed September 21, 2018.

34

Palmetto
 
GBA.
Next Generation Sequencing Coding and Billing Guidelines (M00127, V3). 2017. Available at https://palmettogba.com/palmetto/MolDX.nsf/DocsCat/MolDx%20Website∼MolDx∼Browse%20By%20Topic∼Technical%20Assessment∼9NKP9T2602?open. Accessed September 21, 2018.

35

Frampton
 
GM
,
Fichtenholtz
 
A
,
Otto
 
GA
et al.
Development and validation of a clinical cancer genomic profiling test based on massively parallel DNA sequencing
.
Nat Biotechnol
 
2013
;
31
:
1023
1031
.

36

Foundation Medicine, Inc. FoundationOne CDx technical information. 2017. Available at https://www.foundationmedicine.com/genomic‐testing/foundation‐one‐cdx. Accessed December 18, 2017.

37

Carbone
 
DP
,
Reck
 
M
,
Paz‐Ares
 
L
et al.
First‐line nivolumab in stage IV or recurrent non‐small‐cell lung cancer
.
N Engl J Med
 
2017
;
376
:
2415
2426
.

38

Szustakowski
 
JD
,
Green
 
G
,
Geese
 
WJ
et al.
Evaluation of tumor mutation burden as a biomarker for immune checkpoint inhibitor efficacy: A calibration study of whole exome sequencing with FoundationOne
.
Cancer Res
 
2018
;
78
(
suppl 13
):
5528A
.

39

Buchhalter
 
I
,
Rempel
 
E
,
Endris
 
V
et al.
Size matters: Dissecting key parameters for panel‐based tumor mutational burden analysis
.
Int J Cancer
 
2019
;
144
:
848
858
.

40

Alexandrov
 
LB
,
Ju
 
YS
,
Haase
 
K
et al.
Mutational signatures associated with tobacco smoking in human cancer
.
Science
 
2016
;
354
:
618
622
.

41

Cancer Genome Atlas Network.

Genomic classification of cutaneous melanoma
.
Cell
 
2015
;
161
:
1681
1696
.

42

Campesato
 
LF
,
Barroso‐Sousa
 
R
,
Jimenez
 
L
et al.
Comprehensive cancer‐gene panels can be used to estimate mutational load and predict clinical benefit to PD‐1 blockade in clinical practice
.
Oncotarget
 
2015
;
6
:
34221
34227
.

43

Rosenberg
 
JE
,
Hoffman‐Censits
 
J
,
Powles
 
T
et al.
Atezolizumab in patients with locally advanced and metastatic urothelial carcinoma who have progressed following treatment with platinum‐based chemotherapy: A single‐arm, multicentre, phase 2 trial
.
Lancet
 
2016
;
387
:
1909
1920
.

44

Kowanetz
 
M
,
Zou
 
W
,
Shames
 
DS
et al.
Tumor mutation load assessed by FoundationOne (FM1) is associated with improved efficacy of atezolizumab (atezo) in patients with advanced NSCLC
.
Ann Oncol
 
2016
;
27
(
suppl 6
):
77PA
.

45

Kowanetz
 
M
,
Zou
 
W
,
Shames
 
D
et al.
Tumor mutation burden (TMB) is associated with improved efficacy of atezolizumab in 1L and 2L+ NSCLC patients
.
J Thorac Oncol
 
2017
;
12
(
suppl 1
):
OA20.01A
.

46

Balar
 
AV
,
Galsky
 
MD
,
Rosenberg
 
JE
et al.
Atezolizumab as first‐line treatment in cisplatin‐ineligible patients with locally advanced and metastatic urothelial carcinoma: a single‐arm, multicentre, phase 2 trial
.
Lancet
 
2017
;
389
:
67
76
.

47

Seiwert
 
TY
,
Cristescu
 
R
,
Mogg
 
R
et al.
Genomic biomarkers in relation to PD‐1 checkpoint blockade response
.
J Clin Oncol
 
2018
;
36
(
suppl 25
):
25A
.

48

Zehir
 
A
,
Benayed
 
R
,
Shah
 
RH
et al.
Mutational landscape of metastatic cancer revealed from prospective clinical sequencing of 10,000 patients
.
Nature Med
 
2017
;
23
:
703
.

49

Galsky
 
MD
,
Saci
 
A
,
Szabo
 
PM
et al.
Impact of tumor mutation burden on nivolumab efficacy in second‐line urothelial carcinoma patients: Exploratory analysis of the phase II CheckMate 275 study
.
Ann Oncol
 
2017
;
28
(
suppl 5
):
848PDA
.

50

Fabrizio
 
DA
,
Malboeuf
 
C
,
Lieber
 
D
et al.
Analytic validation of a next generation sequencing assay to identify tumor mutational burden from blood (bTMB) to support investigation of an anti‐PD‐L1 agent, atezolizumab, in a first line non‐small cell lung cancer trial (BFAST)
.
Ann Oncol
 
2017
;
28
(
suppl 5
):
102PA
.

51

Mok
 
TSK
,
Gadgeel
 
S
,
Kim
 
ES
et al.
Blood first line ready screening trial (B‐F1RST) and blood first assay screening trial (BFAST) enable clinical development of novel blood‐based biomarker assays for tumor mutational burden (TMB) and somatic mutations in 1L advanced or metastatic NSCLC
.
Ann Oncol
 
2017
;
28
(
suppl 5
):
1383TiPA
.

52

Antonia
 
S
,
Callahan
 
MK
,
Awad
 
MM
,
Calvo
 
E
et al. OA 07.03a ‐ Impact of tumor mutation burden on the efficacy of nivolumab or nivolumab + ipilimumab in small cell lung cancer: An exploratory analysis of CheckMate 032 (ID 659). Presented at IASLC 18th World Conference on Lung Cancer, Yokohama, Japan,
2017
.

53

Foundation Medicine, Inc. FDA approves Foundation Medicine's FoundationOne CDx, the first and only comprehensive genomic profiling test for all solid tumors incorporating multiple companion diagnostics [press release]. November 30, 2017. Available at http://investors.foundationmedicine.com/news‐releases/news‐release‐details/fda‐approves‐foundation‐medicines‐foundationone‐cdxtm‐first‐and. Accessed September 19, 2018.

54

Hellmann
 
MD
,
Ciuleanu
 
TE
,
Pluzanski
 
A
et al.
Nivolumab plus ipilimumab in lung cancer with a high tumor mutational burden
.
N Engl J Med
 
2018
;
378
:
2093
2104
.

55

Forde
 
PM
,
Chaft
 
JE
,
Smith
 
KN
et al.
Neoadjuvant PD‐1 blockade in resectable lung cancer
.
N Engl J Med
 
2018
;
378
:
1976
1986
.

56

Gandara
 
DR
,
Paul
 
SM
,
Kowanetz
 
M
et al.
Blood‐based tumor mutational burden as a predictor of clinical benefit in non‐small‐cell lung cancer patients treated with atezolizumab
.
Nature Med
 
2018
;
24
:
1441
1448
.

57

Necchi
 
A
,
Briganti
 
A
,
Bianchi
 
M
et al.
Preoperative pembrolizumab (pembro) before radical cystectomy (RC) for muscle‐invasive urothelial bladder carcinoma (MIUC): Interim clinical and biomarker findings from the phase 2 PURE‐01 study
.
J Clin Oncol
 
2018
;
36
(
suppl 15
):
4507A
.

58

Fabrizio
 
DA
,
Milbury
 
C
,
Yip
 
WK
et al.
Analytic validation of tumor mutational burden as a companion diagnostic for combination immunotherapy in non‐small cell lung cancer
.
Ann Oncol
 
2018
;
29
(
suppl 8
):
56PDA
.

59

Fabrizio
 
DA
,
Chen
 
SJ
,
Xie
 
M
et al.
In silico assessment of variation in TMB quantification across diagnostic platforms: Phase 1 of the Friends of Cancer Research Harmonization Project
.
J Immunother Cancer
 
2018
;
6
(
suppl 2
):
O48A
.

60

Friends of Cancer Research
. Tumor mutational burden (TMB). Available at https://www.focr.org/tmb. Updated 2018. Accessed June 13, 2018.

61

Samstein
 
R
,
Lee
 
C
,
Shoushtari
 
A
et al.
Tumor mutational load predicts survival after immunotherapy across multiple cancer types
.
Nature Genet
 
2019
;
51
:
202
206
.

62

National Comprehensive Cancer Network
.
NCCN Clinical Practice Guidelines in Oncology (NCCN Guidelines) for Non‐Small Cell Lung Cancer
. Version 3.2019.
Plymouth Meeting, PA
:
National Comprehensive Cancer Network, Inc.
;
2019
. Accessed February 19, 2019. To view the most recent and complete version of the guideline, go online to NCCN.org.

63

Hayes
 
DF
.
Biomarker validation and testing
.
Mol Oncol
 
2015
;
9
:
960
966
.

64

Mariathasan
 
S
,
Turley
 
SJ
,
Nickles
 
D
et al.
TGFbeta attenuates tumour response to PD‐L1 blockade by contributing to exclusion of T cells
.
Nature
 
2018
;
554
:
544
548
.

65

Greally
 
M
,
Chatila
 
WK
,
Margolis
 
M
et al.
Tumor mutation burden (TMB) and immune‐related adverse events (irAEs) compared to antibiotic (abx) use to predict for response to immune checkpoint inhibitors in esophagogastric cancer (EGC)
.
J Clin Oncol
 
2018
;
36
(
suppl 15
):
4056A
.

66

Johnson
 
DB
,
Frampton
 
GM
,
Rioth
 
MJ
et al.
Targeted next generation sequencing identifies markers of response to PD‐1 blockade
.
Cancer Immunol Res
 
2016
;
4
:
959
967
.

67

Chae
 
YK
,
Davis
 
AA
,
Agte
 
S
et al.
Clinical implications of circulating tumor DNA tumor mutational burden (ctDNA TMB) in non‐small cell lung cancer
.
The Oncologist
 
2019
;
24
:
820
828
.

68

Stenzinger
 
A
,
Allen
 
J
,
Maas
 
J
et al.
Tumor mutational burden standardization initiatives: Recommendations for consistent tumor mutational burden assessment in clinical samples to guide immunotherapy treatment decisions
.
Genes Chromosomes Cancer
 
2019
;
58
:
578
588
.

69

Miao
 
D
,
Margolis
 
CA
,
Vokes
 
NI
et al.
Genomic correlates of response to immune checkpoint blockade in microsatellite‐stable solid tumors
.
Nat Genetics
 
2018
;
50
:
1271
1281
.

70

U.S. Food and Drug Administration
. FDA grants accelerated approval to pembrolizumab for first tissue/site agnostic indication [press release]. May 30, 2017. Available at https://www.fda.gov/Drugs/InformationOnDrugs/ApprovedDrugs/ucm560040.htm. Accessed April 22, 2018.

71

Hall
 
MJ
,
Gowen
 
K
,
Sanford
 
EM
et al.
Evaluation of microsatellite instability (MSI) status in 11,573 diverse solid tumors using comprehensive genomic profiling (CGP)
.
J Clin Oncol
 
2016
;
34
(
suppl 15
):
1523A
.

72

Frampton
 
GM
,
Fabrizio
 
DA
,
Chalmers
 
ZR
et al.
Assessment and comparison of tumor mutational burden and microsatellite instability status in >40,000 cancer genomes
.
Ann Oncol
 
2016
;
27
(
suppl 6
):
52OA
.

73

Fabrizio
 
DA
,
George
 
TJ
,
Dunne
 
RF
et al.
Beyond microsatellite testing: Assessment of tumor mutational burden identifies subsets of colorectal cancer who may respond to immune checkpoint inhibition
.
J Gastrointestin Oncol
 
2018
;
9
:
610
617
.

74

Peters
 
S
,
Creelan
 
B
,
Hellmann
 
MD
et al.
Impact of tumor mutation burden on the efficacy of first‐line nivolumab in stage IV or recurrent non‐small cell lung cancer: An exploratory analysis of CheckMate 026
.
Cancer Res
 
2017
;
77
(
suppl 13
):
CT082A
.

75

Voutsadakis
 
IA
.
Polymerase epsilon mutations and concomitant beta2‐microglobulin mutations in cancer
.
Gene
 
2018
;
647
:
31
38
.

76

Chae
 
YK
,
Anker
 
JF
,
Bais
 
P
et al.
Mutations in DNA repair genes are associated with increased neo‐antigen load and activated T cell infiltration in lung adenocarcinoma
.
Oncotarget
 
2018
;
9
:
7949
7960
.

77

Schrock
 
AB
,
Fabrizio
 
D
,
He
 
Y
et al.
Analysis of POLE mutation and tumor mutational burden (TMB) across 80,853 tumors: Implications for immune checkpoint inhibitors (ICPIs)
.
Ann Oncol
 
2017
;
28
(
suppl 5
):
1170PA
.

78

Campbell
 
BB
,
Light
 
N
,
Fabrizio
 
D
et al.
Comprehensive analysis of hypermutation in human cancer
.
Cell
 
2017
;
171
:
1042
1056.e10
.

79

Gargiulo
 
P
,
Della Pepa
 
C
,
Berardi
 
S
et al.
Tumor genotype and immune microenvironment in POLE‐ultramutated and MSI‐hypermutated endometrial cancers: New candidates for checkpoint blockade immunotherapy?
 
Cancer Treat Rev
 
2016
;
48
:
61
68
.

80

Gong
 
J
,
Wang
 
C
,
Lee
 
P
et al.
Response to PD‐1 blockade in microsatellite stable metastatic colorectal cancer harboring a POLE mutation
.
J Natl Compr Canc Netw
 
2017
;
15
:
142
147
.

81

Gainor
 
JF
,
Shaw
 
AT
,
Sequist
 
LV
et al.
EGFR mutations and ALK rearrangements are associated with low response rates to PD‐1 pathway blockade in non‐small cell lung cancer (NSCLC): A retrospective analysis
.
Clin Cancer Res
 
2016
;
22
:
4585
4593
.

82

Davis
 
AA
,
Chae
 
YK
,
Agte
 
S
et al.
Association of tumor mutational burden with smoking and mutation status in non‐small cell lung cancer (NSCLC)
.
J Clin Oncol
 
2017
;
35
(
suppl 7
):
24A
.

83

Chae
 
Y
,
Davis
 
A
,
Raparia
 
K
et al.
Association of tumor mutational burden with dna repair mutations and response to Anti–PD‐1/PD‐L1 therapy in non–small‐cell lung cancer
.
Clin Lung Cancer
 
2019
;
20
:
88
96
.

84

Kim
 
JH
,
Kim
 
HS
,
Kim
 
BJ
.
Prognostic value of KRAS mutation in advanced non‐small‐cell lung cancer treated with immune checkpoint inhibitors: A meta‐analysis and review
.
Oncotarget
 
2017
;
8
:
48248
.

85

Skoulidis
 
F
,
Goldberg
 
ME
,
Greenawalt
 
DM
et al.
STK11/LKB1 mutations and PD‐1 inhibitor resistance in KRAS‐mutant lung adenocarcinoma
.
Cancer Discov
 
2018
;
8
:
822
835
.

86

Flex
 
E
,
Petrangeli
 
V
,
Stella
 
L
et al.
Somatically acquired JAK1 mutations in adult acute lymphoblastic leukemia
.
J Exp Med
 
2008
;
205
:
751
758
.

87

Albacker
 
LA
,
Wu
 
J
,
Smith
 
P
et al.
Loss of function JAK1 mutations occur at high frequency in cancers with microsatellite instability and are suggestive of immune evasion
.
PLoS One
 
2017
;
12
:e0176181.

88

Ross
 
JS
,
Goldberg
 
ME
,
Albacker
 
LA
et al.
Immune checkpoint inhibitor (ICPI) efficacy and resistance detected by comprehensive genomic profiling (CGP) in non‐small cell lung cancer (NSCLC)
.
Ann Oncol
 
2017
;
28
(
suppl 5
):
1138PDA
.

89

Kato
 
S
,
Goodman
 
A
,
Walavalkar
 
V
et al.
Hyperprogressors after immunotherapy: Analysis of genomic alterations associated with accelerated growth rate
.
Clin Cancer Res
 
2017
;
23
:
4242
4250
.

90

Shen
 
J
,
Ju
 
Z
,
Zhao
 
W
et al.
ARID1A deficiency promotes mutability and potentiates therapeutic antitumor immunity unleashed by immune checkpoint blockade
.
Nat Med
 
2018
;
24
:
556
562
.

91

Zaretsky
 
JM
,
Garcia‐Diaz
 
A
,
Shin
 
DS
et al.
Mutations associated with acquired resistance to PD‐1 blockade in melanoma
.
N Engl J Med
 
2016
;
375
:
819
829
.

92

Teng
 
F
,
Meng
 
X
,
Kong
 
L
et al.
Progress and challenges of predictive biomarkers of anti PD‐1/PD‐L1 immunotherapy: A systematic review
.
Cancer Lett
 
2018
;
414
:
166
173
.

93

Ramalingam
 
SS
,
Hellmann
 
MD
,
Awad
 
MM
et al.
Tumor mutation burden (TMB) as a biomarker for clinical benefit from dual immune checkpoint blockade with nivolumab (nivo) + ipilimumab (ipi) in first‐line (1L) non‐small cell lung cancer (NSCLC): Identification of TMB cutoff from CheckMate 568
.
Cancer Res
 
2018
;
78
(
suppl 13
):
CT078A
.

94

Legrand
 
FA
,
Gandara
 
DR
,
Mariathasan
 
S
et al.
Association of high tissue TMB and atezolizumab efficacy across multiple tumor types
.
J Clin Oncol
 
2018
;
36
(
suppl 15
):
12000A
.

95

Raggi
 
D
,
Giannatempo
 
P
,
Mariani
 
L
et al.
Apache: An open label, randomized, phase 2 study of durvalumab (Durva), alone or in combination with tremelimumab (Treme), in patients (pts) with advanced germ cell tumors (GCT): Results at the end of first stage
.
J Clin Oncol
 
2018
;
36
(
suppl 15
):
4547A
.

96

Rozenblum
 
AB
,
Ilouze
 
M
,
Dudnik
 
E
et al.
Clinical impact of hybrid capture‐based next‐generation sequencing on changes in treatment decisions in lung cancer
.
J Thorac Oncol
 
2017
;
12
:
258
268
.

97

ClinicalTrials.gov. A study of atezolizumab as first‐line monotherapy for advanced or metastatic non‐small cell lung cancer (B‐F1RST). ClinicialTrials.gov identifier: NCT02848651. Available at https://clinicaltrials.gov/ct2/show/NCT02848651. Updated 2018. Accessed April 25, 2018.

98

ClinicalTrials.gov. A study to evaluate efficacy and safety of multiple targeted therapies as treatments for participants with non‐small cell lung cancer (NSCLC) (B‐FAST). ClinicalTrials.gov identifier: NCT03178552. Available at https://clinicaltrials.gov/ct2/show/NCT03178552. Updated 2018. Accessed April 25, 2018.

99

ClinicalTrials.gov. Canadian profiling and targeted agent utilization trial (CAPTUR). ClinicalTrials.gov identifier: NCT03297606. Available at https://clinicaltrials.gov/ct2/show/NCT03297606. Updated 2018. Accessed April 25, 2018.

100

ClinicalTrials.gov. Javelin Parp Medley: Avelumab plus talazoparib in locally advanced or metastatic solid tumors. ClinicalTrials.gov identifier: NCT03330405. Available at https://clinicaltrials.gov/ct2/show/NCT03330405. Updated 2018. Accessed April 25, 2018.

101

ClinicalTrials.gov. My Pathway: A study evaluating Herceptin/Perjeta, Tarceva, Zelboraf/Cotellic, Erivedge, Alecensa, and Tecentriq treatment targeted against certain molecular alterations in participants with advanced solid tumors. ClinicalTrials.gov identifier: NCT02091141. Available at https://clinicaltrials.gov/ct2/show/NCT02091141. Updated 2018. Accessed April 25, 2018.

102

Necchi
 
A
,
Briganti
 
A
,
Bianchi
 
M
et al.
PECULIAR: An open label, multicenter, single‐arm, phase 2 study of neoadjuvant pembrolizumab (PEM) and epacadostat (EPA), preceding radical cystectomy (Cy), for patients (pts) with muscle‐invasive urothelial bladder cancer (MIUBC)
.
J Clin Oncol
 
2018
;
36
(
suppl 6
):
TPS534A
.

103

Yarchoan
 
M
,
Hopkins
 
A
,
Jaffee
 
EM
.
Tumor mutational burden and response rate to PD‐1 inhibition
.
N Engl J Med
 
2017
;
377
:
2500
2501
.

104

Brahmer
 
JR
,
Rodriguez‐Abreu
 
D
,
Robinson
 
AG
et al.
Health‐related quality‐of‐life results for pembrolizumab versus chemotherapy in advanced, PD‐L1‐positive NSCLC (KEYNOTE‐024): A multicentre, international, randomised, open‐label phase 3 trial
.
Lancet Oncol
 
2017
;
18
:
1600
1609
.

105

Vaughn
 
DJ
,
Bellmunt
 
J
,
Fradet
 
Y
et al.
Health‐related quality‐of‐life analysis from KEYNOTE‐045: A phase III study of pembrolizumab versus chemotherapy for previously treated advanced urothelial cancer
.
J Clin Oncol
 
2018
;
36
:
1579
1587
.

106

Wang
 
Z
,
Duan
 
J
,
Cai
 
S
et al.
Assessment of blood tumor mutational burden as a potential biomarker for immunotherapy in patients with non–small cell lung cancer with use of a next‐generation sequencing cancer gene panel
.
JAMA Oncol
 
2019
;
5
:
696
702
.

107

Owada‐Ozaki
 
Y
,
Muto
 
S
,
Takagi
 
H
et al.
Prognostic impact of tumor mutation burden in patients with completely resected non‐small cell lung cancer: Brief report
.
J Thorac Oncol
 
2018
;
13
:
1217
1221
.

108

Innocenti
 
F
,
Ou
 
FS
,
Qu
 
X
et al.
Mutational analysis of patients with colorectal cancer in CALGB/SWOG 80405 identifies new roles of microsatellite instability and tumor mutational burden for patient outcome
.
J Clin Oncol
 
2019
;
10
:
1217
1227
.

Author notes

Disclosures of potential conflicts of interest may be found at the end of this article.

This article is published and distributed under the terms of the Oxford University Press, Standard Journals Publication Model (https://dbpia.nl.go.kr/journals/pages/open_access/funder_policies/chorus/standard_publication_model)