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Determining the Likelihood of Variant Pathogenicity Using Amino Acid-level Signal-to-Noise Analysis of Genetic Variation
Published on: January 16, 2019
Ten tips for ordering, interpreting, and communicating genetic test results in nephrology
Nithiakishna Selvathesan1,2, Caoimhe Suzanne Costigan1,3, Atessa Bahadori1,4
1Nephrology Division, The Hospital for Sick Children,, Toronto, ON, Canada.
None:
Genetic testing is becoming a routine-and increasingly time-sensitive-tool in nephrology, with implications for diagnosis, prognosis, targeted therapy, transplant planning, and family counselling. However, many nephrologists remain uncomfortable with genetic concepts in general, and variant interpretation specifically. This gap will increasingly limit their ability to fully leverage genetic testing in routine nephrology care-and to translate results into management decisions that improve patient outcomes. In this review, we provide 10 practical tips to help nephrologists integrate genetic testing safely and confidently into everyday practice. We emphasize early testing when a molecular diagnosis could plausibly change management, and the primacy of careful phenotyping (including extra-renal features) to guide efficient test selection (single-gene testing, targeted panels, exome, or genome). We outline a pragmatic approach to informed consent that addresses the family impact, secondary findings, and the possibility of misattributed parentage. We then walk through how to read genetic reports, recognize common technical 'blind spots' (e.g. copy number variants), and classify results in a clinically meaningful way (diagnostic, suggestive, or uninformative). We highlight how to handle variants of uncertain significance as hypotheses rather than diagnoses, and why periodic reanalysis is essential as gene-disease assertions and variant classifications evolve. Finally, we encourage clinicians to work within multidisciplinary pathways and to contribute to data-sharing efforts that advance nephrogenetics. Each tip concludes with a brief 'nephrogenetics nugget'-a practical takeaway, a useful metaphor, or a simple script-to help clinicians translate core concepts into real-world conversations and decisions at the point of care. Overall, these tips provide a practical framework for ordering, interpreting, and disclosing genetic test results in routine nephrology care.
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