Protocol detail

Custom Capture Panel for Deafness Genes

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A custom capture panel (MiamiOtoGenes), with a target size of approximately 1.158 MB encompassing 3494 regions, was designed to include all exons, 5' UTRs and 3' UTRs of 180 known and candidate deafness causing genes using the Agilent SureDesign online tool (SureDesign/">https://earray.chem.agilent.com/SureDesign/). The Agilent's SureSelect Target Enrichment (Agilent, Santa Clara, CA) of coding exons and flanking intronic sequences in-solution hybridization capture system was used following the manufacturer's standard protocol. Adapter sequences for the Illumina HiSeq2000 were ligated and the enriched DNA samples were prepared using the standard methods for the HiSeq2000 instrument (Illumina) (Yan et al. 2016 (link)).

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Wang L., Feng Y., Yan D., Qin L., Grati M., Mittal R., Li T., Sundhari A.K., Liu Y., Chapagain P., Blanton S.H., Liao S, & Liu X. (2018). A dominant variant in the PDE1C gene is associated with nonsyndromic hearing loss. Human genetics, 137(6-7), 437-446.

Publication 2018

custom capture panel SureDesign SureSelect Target Enrichment HiSeq2000 HiSeq2000 instrument

3 utrs 5 utrs Exons Genes Hybridization Intronic

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Variable analysis

independent variables

Design of the custom capture panel (MiamiOtoGenes) using the Agilent SureDesign online tool

dependent variables

Enriched DNA samples prepared using the standard methods for the HiSeq2000 instrument (Illumina)

control variables

Agilent's SureSelect Target Enrichment (Agilent, Santa Clara, CA) of coding exons and flanking intronic sequences in-solution hybridization capture system used following the manufacturer's standard protocol
Adapter sequences for the Illumina HiSeq2000 were ligated

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