November 2013, Vol 2, No 7
Biomarker Development and Validation Crucial to Use of Emerging Treatments in Solid Tumors and Hematologic Malignancies
Biomarker development and validation are essential for the rational use of emerging cancer treatments, said presenters at the second annual Global Biomarkers Consortium conference.
“If we don’t identify biomarkers, we’re likely to miss a therapeutic effect,” said Rob Coleman, MD, MBBS. “We want to separate our patients into those that express the biomarker and those that do not, with the expectation that those that do will be enriched and it will be easier to show benefit.”
The 3 phases in the development of a clinically useful biomarker are discovery, validation, and application. Clinical and biological validity of a potential biomarker is common, analytic validity is less common, while proving clinical utility, whether prognostic or predictive, is rare, said Coleman, director, Sheffield Cancer Research Centre, United Kingdom.
“To be accepted as clinically useful, a biomarker needs to have gone through prospective clinical trial testing or at least have been subjected to a meta-analysis,” he said. “Relatively few achieve that.”
Showing value to a new biomarker requires complete publication of the methodology used in its evaluation, according to the Reporting Recommendations for Tumor Marker Prognostic Studies (REMARK) criteria. These include patient characteristics; the type of biologic material used and its collection, preservation, and storage; study design and case selection; a list of candidate variables examined or considered; and the handling of marker values and cut point determination. REMARK is one of several guidelines established for reporting and evaluating biomarker studies.
Biomarker trial design relies on the availability of adequate archived specimens for analysis to have adequate statistical power, said Coleman. The marker-based test should be analytically and preanalytically validated for use with the archived specimens. Results from archived specimens should be validated using specimens from 1 or more similar but separate studies.
Searching for Bone Metastasis Markers in Breast Cancer
The use of adjuvant bisphosphonates in early breast cancer is being studied in over 3000 patients in the AZURE study, with the rationale that such treatment may enhance endocrine therapy and prevent metastasis. Although invasive disease-free survival was similar between the groups randomized to zoledronic acid and controls, there was a 23% reduction (P<.05) in such events in postmenopausal women treated with the bisphosphonate. The agent may be working to prevent bone metastases, but to use the agent in the most appropriate and cost-effective manner “you need to pull out a group of patients who are more likely to develop bone metastases,” Coleman said, “and there’s no tool for doing that. We don’t have any biomarkers that do this.”
As an example of biomarker discovery and validation, his group has used a proteomic discovery platform to identify 2 candidate proteins for prediction of bone metastases that are being evaluated using tissue microarray samples from the AZURE study population. When both proteins are expressed (15% of the study cases), the risk for bone metastases plus metastases at other sites was increased more than 3-fold in the control group, and the risk of bone metastases only was increased more than 4-fold in controls. No such increase was found in the groups randomized to the bisphosphonate.
Markers in Hematologic Malignancies
In the case of biomarkers for hematologic malignancies, chronic myelogenous leukemia (CML) is characterized by the presence of the Philadelphia (Ph) chromosome, creating the fusion gene BCR-ABL. The Ph chromosome is not only pathogenic for CML but is also a tumor marker. A tyrosine kinase inhibitor (TKI) is a specific therapy to block excess tyrosine kinase activity caused by BCR-ABL, changing the natural history of the disease.
“As good as the treatment is, the testing for the presence of molecular abnormalities at the BCR level is poorly homogenized,” said Jorge Cortes, MD, chair, CML and AML sections, MD Anderson Cancer Center, Houston, Texas. Standardization of the test is lacking, resulting in large differences between laboratories in the measurement of the number of leukemic cells.
An undetectable molecular abnormality achieved with therapy has been associated with excellent long-term survival. Not every BCR-ABL rearrangement is the same, and the response to therapy is different between those with a typical and an atypical rearrangement, said Cortes. The e1a2 transcript is rare in CML, and patients with this transcript have inferior outcomes compared with those with more common transcripts.
Another marker of response in CML is the human organic cation transporter (hOCT1). Patients with an active hOCT1 experience cytogenetic and molecular responses to a standard dose of a TKI, whereas those with a less active transporter require higher doses.
In CML, BCR-ABL can mutate to confer resistance to a TKI. “There are more than 100 mutations that can occur, and they create different levels of resistance to imatinib,” he said. Second- and third-generation TKIs have been developed to overcome resistance caused by specific mutations, “and they overcome some mutations better than others,” Cortes said. “Knowing which mutation is more likely to respond to which drug helps you individualize treatment for that patient.”
CML patients with the T315I mutation currently have no treatment options. Ponatinib is a potent pan–BCR-ABL inhibitor that is active against all tested resistant mutants, including the T315I mutation. In a phase 1 study of 403 patients resistant to or intolerant of dasatinib or nilotinib or who had the T315I mutation, early complete cytogenetic responses were achieved in 58% of patients treated with ponatinib, Cortes said.
In acute myelogenous leukemia (AML), a mutation in FLT3 is associated with frequent and rapid relapse and worse overall survival. In a retrospective study of patients with myelodysplastic syndrome or AML, 23 were treated with an FLT3 inhibitor as part of their induction, and 9 achieved either a complete remission or a complete remission with incomplete platelet recovery. A secondary tyrosine kinase domain mutation can arise after the use of FLT3 inhibitors in patients with single FLT3 internal tandem duplication mutated AML, conferring resistance and a poor prognosis.
A molecular mechanism of AML is the process of farnesylation, which is required for the activation of renin-angiotensin system proteins. The farnesyltransferase inhibitor tipifarnib has been evaluated in untreated elderly patients with AML, producing a complete remission in 18% to 20%. A genetic predictor of response to tipifarnib is the ratio of RASGRP1/APTX gene expression. The utility of this classifier for predicting response to tipifarnib was validated in a set of 58 samples from relapsed or refractory AML and was found to predict for improved survival in newly diagnosed and refractory/relapsed AML.
The “new taxonomy” of breast cancer and molecular subtyping of tumors are “making clinical sense” to oncologists, but molecular tools that describe these cancers are still not ready for routine use, according to Joyce O’Shaughnessy, MD, of Texas Oncology-Baylor Charles A. Sammons Cancer Center, Dallas, Texas. At the 2013 Breast [ Read More ]
Gene Expression Tests Using Bronchial, Nasal Epithelium Under Development for Early Detection of Lung Cancer
Diagnosing lung cancer by swabbing a patient’s nose may be possible in the not too distant future. Changes in nasal gene expression in patients with lung cancer have been found to correlate with changes in gene expression in the bronchus, opening the door to the possibility of nasal gene expression [ Read More ]