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Abstract
<p class="first" id="P1">The increased use of genomic sequencing in clinical diagnostics
and therapeutics makes
imperative the development of guidelines and policies about how to handle secondary
findings. For reasons both practical and ethical, the creation of these guidelines
must take into consideration the informed opinions of the lay public. As part of a
larger Clinical Sequencing Exploratory Research (CSER) consortium project, we organized
a deliberative democracy (DD) session that engaged 66 participants in dialogue about
the benefits and risks associated with the return of secondary findings from clinical
genomic sequencing. Participants were educated about the scientific and ethical aspects
of the disclosure of secondary findings by experts in medical genetics and bioethics,
and then engaged in facilitated discussion of policy options for the disclosure of
three types of secondary findings: 1) medically actionable results; 2) adult onset
disorders found in children; and 3) carrier status. Participants’ opinions were collected
via surveys administered one month before, immediately following, and one month after
the DD session. Post DD session, participants were significantly more willing to support
policies that do not allow access to secondary findings related to adult onset conditions
in children (Χ
<sup>2</sup> (2, N = 62) = 13.300, p = 0.001) or carrier status (Χ
<sup>2</sup> (2, N = 60) = 11.375, p = 0.003). After one month, the level of support
for the policy
denying access to secondary findings regarding adult-onset conditions remained significantly
higher than the pre-DD level, although less than immediately post-DD (Χ
<sup>2</sup> (1, N = 60) = 2.465, p = 0.041). Our findings suggest that education
and deliberation
enhance public appreciation of the scientific and ethical complexities of genome sequencing.
</p>
Individual cancers harbor a set of genetic aberrations that can be informative for identifying rational therapies currently available or in clinical trials. We implemented a pilot study to explore the practical challenges of applying high-throughput sequencing in clinical oncology. We enrolled patients with advanced or refractory cancer who were eligible for clinical trials. For each patient, we performed whole-genome sequencing of the tumor, targeted whole-exome sequencing of tumor and normal DNA, and transcriptome sequencing (RNA-Seq) of the tumor to identify potentially informative mutations in a clinically relevant time frame of 3 to 4 weeks. With this approach, we detected several classes of cancer mutations including structural rearrangements, copy number alterations, point mutations, and gene expression alterations. A multidisciplinary Sequencing Tumor Board (STB) deliberated on the clinical interpretation of the sequencing results obtained. We tested our sequencing strategy on human prostate cancer xenografts. Next, we enrolled two patients into the clinical protocol and were able to review the results at our STB within 24 days of biopsy. The first patient had metastatic colorectal cancer in which we identified somatic point mutations in NRAS, TP53, AURKA, FAS, and MYH11, plus amplification and overexpression of cyclin-dependent kinase 8 (CDK8). The second patient had malignant melanoma, in which we identified a somatic point mutation in HRAS and a structural rearrangement affecting CDKN2C. The STB identified the CDK8 amplification and Ras mutation as providing a rationale for clinical trials with CDK inhibitors or MEK (mitogen-activated or extracellular signal-regulated protein kinase kinase) and PI3K (phosphatidylinositol 3-kinase) inhibitors, respectively. Integrative high-throughput sequencing of patients with advanced cancer generates a comprehensive, individual mutational landscape to facilitate biomarker-driven clinical trials in oncology.
These recommendations are designed primarily as an educational resource for medical geneticists and other health-care providers to help them provide quality medical genetics services. Adherence to these recommendations does not necessarily ensure a successful medical outcome. These recommendations should not be considered inclusive of all proper procedures and tests or exclusive of other procedures and tests that are reasonably directed to obtaining the same results. In determining the propriety of any specific procedure or test, geneticists and other clinicians should apply their own professional judgment to the specific clinical circumstances presented by the individual patient or specimen. It may be prudent, however, to document in the patient's record the rationale for any significant deviation from these recommendations.
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