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Sabir SH, Krishnamurthy S, Gupta S, et al. Characteristics of percutaneous core biopsies adequate for next generation genomic sequencing. PLoS One. 2017;12(12):e0189651doi: 10.1371/journal.pone.0189651.
Sabir, S. H., Krishnamurthy, S., Gupta, S., Mills, G. B., Wei, W., Cortes, A. C., Mills Shaw, K. R., Luthra, R., & Wallace, M. J. (2017). Characteristics of percutaneous core biopsies adequate for next generation genomic sequencing. PloS one, 12(12), e0189651. https://doi.org/10.1371/journal.pone.0189651
Sabir, Sharjeel H, et al. "Characteristics of percutaneous core biopsies adequate for next generation genomic sequencing." PloS one vol. 12,12 (2017): e0189651. doi: https://doi.org/10.1371/journal.pone.0189651
Sabir SH, Krishnamurthy S, Gupta S, Mills GB, Wei W, Cortes AC, Mills Shaw KR, Luthra R, Wallace MJ. Characteristics of percutaneous core biopsies adequate for next generation genomic sequencing. PLoS One. 2017 Dec 27;12(12):e0189651. doi: 10.1371/journal.pone.0189651. eCollection 2017. PMID: 29281680; PMCID: PMC5744968.
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PLoS One. 2017 Dec 27;12(12):e0189651. doi: 10.1371/journal.pone.0189651. eCollection 2017.

Characteristics of percutaneous core biopsies adequate for next generation genomic sequencing.

PloS one

Sharjeel H Sabir, Savitri Krishnamurthy, Sanjay Gupta, Gordon B Mills, Wei Wei, Andrea C Cortes, Kenna R Mills Shaw, Rajyalakshmi Luthra, Michael J Wallace

Affiliations

  1. Department of Interventional Radiology, The University of Texas MD Anderson Cancer Center, Houston, Texas, United States of America.
  2. Department of Pathology, The University of Texas MD Anderson Cancer Center, Houston, Texas, United States of America.
  3. Department of System Biology, The University of Texas MD Anderson Cancer Center, Houston, Texas, United States of America.
  4. Sheikh Khalifa Bin Zayed Al Nahyan Institute for Personalized Cancer Therapy, The University of Texas MD Anderson Cancer Center, Houston, Texas, United States of America.
  5. Department of Biostatistics, The University of Texas MD Anderson Cancer Center, Houston, Texas, United States of America.
  6. Department of Hematopathology, The University of Texas MD Anderson Cancer Center, Houston, Texas, United States of America.

PMID: 29281680 PMCID: PMC5744968 DOI: 10.1371/journal.pone.0189651

Abstract

PURPOSE: Determine the characteristics of percutaneous core biopsies that are adequate for a next generation sequencing (NGS) genomic panel.

MATERIALS AND METHODS: All patients undergoing percutaneous core biopsies in interventional radiology (IR) with samples evaluated for a 46-gene NGS panel during 1-year were included in this retrospective study. Patient and procedure variables were collected. An imaging-based likelihood of adequacy score incorporating targeting and sampling factors was assigned to each biopsied lesion. Univariate and multivariate logistic regression was performed.

RESULTS: 153 patients were included (58.2% female, average age 59.5 years). The most common malignancy was lung cancer (40.5%), most common biopsied site was lung (36%), and average size of biopsied lesions was 3.8 cm (+/- 2.7). Adequacy for NGS was 69.9%. Univariate analysis showed higher likelihood of adequacy score (p = 0.004), primary malignancy type (p = 0.03), and absence of prior systemic therapy (p = 0.018) were associated with adequacy for NGS. Multivariate analysis showed higher adequacy for lesions with likelihood of adequacy scored 3 (high) versus lesions scored 1 (low) (OR, 7.82; p = 0.002). Melanoma lesions had higher adequacy for NGS versus breast cancer lesions (OR 9.5; p = 0.01). Absence of prior systemic therapy (OR, 6.1; p = 0.02) and systemic therapy 3 months before biopsy yielded greater adequacy for NGS. Lesions <3 cm had greater adequacy for NGS than larger lesions (OR 2.72, p = 0.02).

CONCLUSION: As targeted therapy becomes standard for more cancers, percutaneous biopsy specimens adequate for NGS genomic testing will be needed. An imaging-based likelihood of adequacy score assigned by IR physicians and other pre-procedure variables can help predict the likelihood of biopsy adequacy for NGS.

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