Focus panel

Manufactured by Illumina

The Focus Panel is a targeted sequencing panel designed for comprehensive coverage of key regions of the genome. It provides high-quality, cost-effective sequencing data for specific genomic targets of interest.

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Lab products found in correlation

Tapestation 4200, by Agilent Technologies (1 mentions) Ampure xp beads, by Agilent Technologies (1 mentions) Miseq platform, by Illumina (1 mentions) Oncomine focus assay, by Thermo Fisher Scientific (1 mentions)

Spelling variants of this product

AmpliSeq for Illumina Focus Panel (3 citations)

2 protocols using focus panel

Targeted Amplicon Sequencing of Solid Tumors

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Library preparation: Libraries were prepared using an AmpliSeq Illumina Focus Panel. It is an amplicon-based targeted panel with DNA and RNA pool-investigating mutations across 52 genes with known relevance to solid tumors. Libraries were prepared as per the protocol described in AmpliSeq for the Illumina Focus Panel Reference Guide. The recommended input for DNA and RNA for the library was 1–100 ng. Because of the disparity in nucleic acid concentration from each sample, based on optimization, samples were normalized with nuclease-free water to attain the final concentration of 90 ng DNA. Low-quantity DNA was taken neat.
PCR amplification of DNA and cDNA was performed. Amplicons were then partially digested and ligated to uniquely brocaded index-adaptor sequences provided by Illumina. Libraries purified with Agencort AMPure XP beads were further analyzed for quality on an Agilent 4200 TapeStation using high-sensitivity D1000 screen tape and a high-sensitivity D1000 reagent
During the library preparation, two more QC check of DNA libraries was performed by using a TapeStation to measure the presence of desired amplicons.

Chougule A., Jagtap V., Nikam A., Kale S., Nambiar K., Bagayatkar P., Chandrani P., Kaushal R., Noronha V., Patil V., Banavali S, & Prabhash K. (2022). Comprehensive Development and Implementation of Good Laboratory Practice for NGS Based Targeted Panel on Solid Tumor FFPE Tissues in Diagnostics. Diagnostics, 12(5), 1291.

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Targeted RNA Sequencing to Detect NTRK Fusions

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The pan-TRK-positive samples of three laboratories (CHU Liège, OLV, UZA) were subjected to targeted RNAseq with the Oncomine Focus Assay (Thermo Fisher Scientific, San Francisco, CA, USA) on an S5 instrument, according to the manufacturer's instructions [30] . One laboratory (UZG) used the Archer Fusion-Plex Expanded Sarcoma Assay (ArcherDx, Boulder, CO, USA) for targeted RNAseq on the Illumina MiSeq platform, with subsequent data analysis using the Archer Analysis Software. Three laboratories (Institut Jules Bordet, CUSL, UZL) used the Archer Fu-sionPlex comprehensive thyroid and lung panel (ArcherDX) for targeted RNAseq to investigate the presence of NTRK fusions, as was previously described [31] . One laboratory (AZ Delta) used an in-house developed gene panel for the identification of somatic mutations in 56 target genes, in combination with amplicon-based RNAseq (Illumina Focus panel). Two laboratories (IPG, UZL) performed FISH analysis on 3-4-µm-thick FFPE tissue slides of pan-TRK-positive tumor samples. Details on these procedures can be found in the online supplementary Materials and Methods.

Van Bockstal M.R., Beniuga G., Craciun L., Creytens D., Dedeurwaerdere F., Delvenne P., Demetter P., De Wiest B., Dewinne K., Habran L., Pauwels P., Theate I., Vander Borght S., Van Der Steen K, & Weynand B. (2022). The Use of Pan-Tropomyosin Receptor Kinase Immunohistochemistry as a Screening Tool for the Detection of Neurotrophic Tropomyosin-Related Kinase Fusions: Real-World Data from a National Multicentric Retrospective Study. Pathobiology : journal of immunopathology, molecular and cellular biology, 89(6).

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