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The Benefits Of Knowing Your Genotype

Knowing your genetic makeup could help personalize future treatments

By Sarah Aldridge | 04.20.2010
Originally Published May 2010
Genotyping

“Missense” and “nonsense” make sense at the molecular level. These are genetic mutations that cause hemophilia. Knowing your genotype, or genetic mutation, could help determine your eligibility for clinical trials, which drugs to avoid because of inhibitor development, or your carrier status.

Routinely performed in Australia, Iceland and the UK, genotyping for people with hemophilia has not yet become a standard test in the US. The information it can provide can be extremely beneficial to researchers and patients, but safeguards must be in place before genotyping becomes routine. Patient concerns about cost and confidentiality must also be addressed. With the proper measures in place, genotyping could become the catalyst for the National Hemophilia Foundation (NHF) to fulfill its mission to find better treatments and cures for people with bleeding disorders. But the NHF initiative to genotype people in the community is still in its initial stages.

Decoding the Genetic Code

The sequencing of the human genome made it possible to locate the genetic mutations responsible for causing such diseases as breast cancer and hemophilia. In 1999, NHF’s Medical and Scientific Advisory Council (MASAC) endorsed genotyping as part of comprehensive care. (See “Learn More” section.)

Genes, composed of DNA (deoxyribonucleic acid), convey information to structures in the cell about which proteins to make, when and in what quantities. If something goes awry in the instructions, a change, or mutation, results. In hemophilia, a single mutation causes clotting factor protein to be deficient or defective.

Researchers have identified many mutations that cause hemophilia and von Willebrand disease (VWD). Two inversion mutations, in which sections of DNA are reversed, cause nearly half the mutations in the factor VIII gene. In addition, changes in segments of the genetic code, or missense mutations, affect factor VIII and IX proteins. A premature stop signal, caused by a nonsense mutation, means that clotting factor protein production is halted prematurely. Nonsense mutations account for approximately 10-15% of hemophilia A and hemophilia B cases, which are typically severe. Other mutations include duplications, in which DNA segments are repeated, and insertions, in which extra pieces of DNA are added. Further, deletions, in which part of the DNA is missing, have been found in some patients with types 1 and 3 VWD.

Targeted Medicine

One of the advantages of being genotyped is the precision with which drug treatments can be targeted to individual patients. The study of how a person’s genetic makeup influences his or her response to drugs is called pharmaco-genomics. Drug manufacturers are using a person’s genetic information to create drugs that are more effective and have fewer side effects.

“Relying on protein levels in carriers can be equivocal, but molecular diagnosis, if done properly, is always correct,” says Katherine A. High, MD, William H. Bennett Professor of Pediatrics at the University of Pennsylvania School of Medicine and hematology researcher at The Children’s Hospital of Philadelphia. She is the principal investigator for a study on Ataluren (PTC124®), a drug being tested on people with hemophilia A and B who have nonsense mutations. (See sidebar, “The Allure of Ataluren.”) “With the advent of drugs like Ataluren, genotyping helps distinguish who can benefit from the drug and who cannot,” High says. That means candidates for clinical trials can be more effectively screened.

Genotyping could also play a role in predicting and preventing inhibitors. The US Centers for Disease Control and Prevention (CDC) is conducting a study on inhibitors. “Inhibitors are, no doubt, related to the gene mutations,” says J. Michael Soucie, PhD, epidemiologist and associate director for science, Division of Blood Disorders, CDC. “Those with large deletions and certain other kinds of mutations are much more likely to have an inhibitor.”

Research in Europe based on genotyping has already yielded valuable information about factor XI (FXI) mutations and inhibitors. Although a rare bleeding disorder—incidence rates are as low as one in 1 million—FXI deficiency is found in 8% of Ashkenazi Jews. (See “Uncommon Disorder,” HemAware September/October 2008.) In this population, two mutations are common—one nonsense and one missense. “One of the mutations, which results in the absence of FXI, is also a risk factor for the development of antibodies if FXI is administered as plasma or FXI concentrate,” says Paula Bolton-Maggs, DM, consultant hematologist, Department of Clinical Haematology, Manchester Royal Infirmary, UK.

Family Planning

Women who are carriers of hemophilia A or B can also benefit from genotyping. In the past, a variety of carrier testing methods were used with varying degrees of accuracy, says Bolton-Maggs. “DNA analysis is now the gold standard, as in the majority of cases it can give a definite answer,” she says.

“Since the same mutation runs in the family, the genotyping for the index patient can help with other family members in terms of family planning,” says Soucie. (See “Family Planning for Carriers,” HemAware November/December 2007, p. 50.) Only one region of the gene then needs to be evaluated, he says, making the testing simpler, less expensive and more targeted.

Val D. Bias, NHF’s CEO, is an index patient. “As an individual with a bleeding disorder and having had my own genotyping done, when carriers in my family have become pregnant they have been able to test against my genotype and figure out whether they’re carrying a child with a bleeding disorder.” Knowing whether a pregnant woman is carrying a baby boy with hemophilia helps the labor and delivery team modify its plan. (See “Pregnant Pause,” HemAware Winter 2010.)

National Initiative

All that’s needed for genotyping is a blood sample, which is sent to a lab that can analyze mutations using gene sequencing or sequence analysis. The first test determines the presence of the most common types of mutations—insertions, missense or nonsense. If these types of mutations are absent, a second test is performed to locate deletions or duplications. Results are obtained within three to eight weeks and sent to the patient’s physician or hematologist.

In the near future NHF expects to offer free genotyping for all people with bleeding disorders in the US. Some of the donations given to its new fundraising campaign, “Research Is Our Future,” will be earmarked for genotyping. “As the funds come in, we will make the testing available to patients through a network of labs nationally,” Bias says. He estimates it will take three to five years to complete the project. NHF is consulting with the Division of Blood Disorders at the CDC as it develops this project.

Before genotyping gets under way, though, NHF and the CDC will take time to troubleshoot. “We are working with the CDC to address some of the ethical and informational issues,” Bias says. Other nonprofits that have genotyped their populations, such as people with cystic fibrosis, will be consulted, as will the Genetic Alliance, a nonprofit health advocacy organization.

One of the challenges is to protect patient information, Bias says. For patients who develop an inhibitor during a clinical trial, the US Food and Drug Administration (FDA) can penalize the product line or take if offline. “It will be up to us and our advocacy discussions with the FDA to ensure that people with big deletions, who develop inhibitors more readily, will not be penalized by that kind of information.”

The CDC oversees the Universal Data Collection (UDC) system, which gathers and analyzes information on people with bleeding disorders. A pilot study of inhibitors has been underway for the past three years in 12 treatment centers as part of the UDC, and genotyping for this study is performed at CDC as a research activity. To ensure anonymity, the hemophilia treatment center (HTC) assigns the patient a random number.

Gathering genotype data on a large scale will enhance the CDC’s ability to spot trends. “If we can have the community fully genotyped, we can get some idea of the number of patients with specific mutations,” Soucie says.

As president of the World Federation of Hemophilia (WFH), Mark Skinner has traveled extensively, noting firsthand the benefits of genotyping in developed countries. “I’ve had the opportunity to see and learn how testing, when coupled with emerging scientific knowledge, is being used in a clinical setting and how treatment plans for the individual patient are optimized. Governments, funders, the Obama administration—all are asking for evidence-based medicine.”

Genotyping will provide essential data upon which better treatment protocols will be developed. “As science advances, we’ll have a greater understanding of why one drug may
be more appropriate for one patient than another drug,” Skinner says.

“Having everyone in the United States genotyped will put us on par with many of our European and worldwide partners at the WFH level,” Bias says. “It will move the science forward for cures, not only for hemophilia A and B, but for rare disorders as well.”