Technical Survey

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* 1. What is your occupation/role?

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* 2. What kinds of clinical NGS testing does your lab offer? Please check all that apply.

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* 3. What enrichment method does your lab use?

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* 4. If you perform panel testing, check the number of genes contained within each panel and list the corresponding panel(s) type e.g. 50-100; solid tumor. Please check all that apply and list all corresponding types of panels that you perform.

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* 5. What type of gene sequencing panel is used by your laboratory?

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* 6. What kinds of alterations are you detecting and reporting using NGS data?

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* 7. NGS technology used in your lab:

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* 8. What is your minimal tumor burden (or neoplastic cellularity) for accepting a specimen for NGS testing?

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* 9. Do you request submission of a normal specimen along with the tumor specimen?

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* 10. What is your sample failure rate for clinical NGS specimens?

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* 11. What is your detection limit (variant allele frequency)?

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* 12. What is your minimum sequencing depth?

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* 13. What is your average sequencing depth?

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* 14. What kind of pipeline do you use to perform data processing from a FASTQ file to VCF file? Select all that are appropriate.

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* 15. What kind of long term storage do you use for clinical data?

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* 16. What kind of clinical NGS data do you store? Check all that apply.

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* 17. If you report CNVs based on NGS data, what software do you use?

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* 18. What informatics solution(s) is/are used for somatic variant annotation? Select ALL that apply.

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* 19. What database(s) is/are used for filtering polymorphic variants based on minor allele frequency (MAF)? Select ALL that apply.

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* 20. If MAF is used to filter, what numerical cutoff for MAF has been established by your laboratory for polymorphic variants?

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* 21. Is ethnicity specific MAF taken into consideration when filtering polymorphic variants?

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* 22. What in-silico analysis tool(s) are used for predicting the effect of a sequence variant(s)?

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* 23. What variant database(s) is/are used for variant annotation (check more than one if applicable)?

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* 24. If you have an in-house variant database, how do you manage the database?

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* 25. Do you perform confirmatory testing for identified variants?

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* 26. If you perform confirmatory testing, what method(s) do you use? Select ALL that apply.

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* 27. Please add any information you feel would be beneficial to provide in this survey.

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* 28. (Optional) Please provide your name and email address to enable us to contact you in the future. The information will strictly be used only for the purpose of this survey.

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