Dataset Information

Usefulness of on-site cytology of liver tumor biopsy in specimen sampling for cancer genomic profiling test.

ABSTRACT:

Aim

Appropriate sample selection with a tumor fraction ≥20% without necrosis contamination is required for successful cancer genomic profiling (CGP). Rapid on-site evaluation (ROSE) is performed to assess adequate sampling.

Method

This retrospective study included 54 patients who underwent CGP using liver tumor biopsy specimen with ROSE.

Result

The sampling success rate (98.1%) was higher than the previously reported 77.5%-88.9%. ROSE was performed once in 51 patients and twice in three patients; for those undergoing ROSE twice, the first ROSE was negative for malignancy, or showed few tumor cells with necrotic cell contamination, while the second ROSE obtained from another location showed abundant malignant cells. In these patients, the CGP was successful using the second specimen, though the first sample did not meet the required criteria for CGP test.

Conclusion

Performing ROSE during liver tumor biopsy may be useful for CGP test sampling because ROSE prevents sampling errors and contributes to adequate sampling.

SUBMITTER: Nakabori T

PROVIDER: S-EPMC10134269 | biostudies-literature | 2023 Apr

REPOSITORIES: biostudies-literature

ACCESS DATA

Publications

Usefulness of on-site cytology of liver tumor biopsy in specimen sampling for cancer genomic profiling test.

Nakabori Tasuku T Abe Yutaro Y Higashi Sena S Mukai Kaori K Yoshioka Risa R Morimoto Yuki Y Koyanagi Yuki Y Tanada Satoshi S Nagata Shigenori S Honma Keiichiro K Ohkawa Kazuyoshi K

Cancer medicine 20230111 7

<h4>Aim</h4>Appropriate sample selection with a tumor fraction ≥20% without necrosis contamination is required for successful cancer genomic profiling (CGP). Rapid on-site evaluation (ROSE) is performed to assess adequate sampling.<h4>Method</h4>This retrospective study included 54 patients who underwent CGP using liver tumor biopsy specimen with ROSE.<h4>Result</h4>The sampling success rate (98.1%) was higher than the previously reported 77.5%-88.9%. ROSE was performed once in 51 patients and t ...[more]

PMID: 36629136

Similar Datasets

Project description:BackgroundComprehensive genomic profiling has become standard clinical practice in the management of advanced lung cancer. In addition to tissue and plasma, other body fluids are also being actively explored as alternative sources of tumor DNA. This study investigated the utility of induced sputum obtained from patients with non-small-cell lung cancer (NSCLC) for somatic variation profiling.MethodsOur study included 41 treatment-naïve patients diagnosed with locally advanced to advanced NSCLC between October 2018 and June 2019. Capture-based targeted sequencing was performed on matched tumor, plasma, and induced sputum samples of 41 patients using a 168-gene panel. We analyzed the somatic variations detected from each sample type and the concordance of variations detected between matched samples. The concordance rate was defined as the proportion of the total number of variations detected from one sample type relative to the reference sample type.ResultsComparative analysis on the somatic variation detection using matched tumor samples as a reference revealed detection rates of 76.9% for plasma, 72.4% for sputum-supernatant, and 65.7% for sputum-sediment samples. Plasma, sputum-supernatant, and sputum-sediment achieved positive predictive values of 73.3%, 80.4%, and 55.6% and sensitivities of 50.0%, 36.9%, 31.3%, respectively, relative to tumor samples for 168 genes. Sputum-supernatants had significantly higher concordance rates relative to matched tumor samples (69.2% vs. 37.8%; P=0.031) and maximum allelic fraction (P<0.001) than their matched sputum-sediments. Sputum-supernatants had comparable detection rates (71.4% vs. 67.9%; P=1.00) but with significantly higher maximum allelic fraction than their matched plasma samples (P=0.003). Furthermore, sputum-supernatant from smokers had a significantly higher maximum allelic fraction than sputum-supernatant from non-smokers (P=0.021).ConclusionsOur study demonstrated that supernatant fraction from induced sputum is a better sampling source than its sediment and performs comparably to plasma samples. Induced sputum from NSCLC patients could serve as an alternative media for next-generation sequencing (NGS)-based somatic variation profiling.

Dataset Information

Usefulness of on-site cytology of liver tumor biopsy in specimen sampling for cancer genomic profiling test.

Aim

Method

Result

Conclusion

Publications

Usefulness of on-site cytology of liver tumor biopsy in specimen sampling for cancer genomic profiling test.

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure

Tweets