Next-Generation Sequencing for Cancer Therapeutics

myblueprint

The benefits in the diagnosis and treatment of cancer through NGS technologies are becoming more evident. By examining the constellation of genetic changes in an individual tumor, more appropriate treatment options can be utilized. Metastatic melanoma patients carrying an activated mutant of the BRAF kinase (Val600Glu) respond dramatically well to treatment with vemurafenib, a BRAF-kinase inhibitor. The breast cancer drug trastuzumab, is effective only for those patients whose tumors have what is referred to as a HER-2 positive genetic profile. Lung cancer patients whose tumors carry mutations in EGFR respond well to the drugs gefitinib and erlotinib. Meanwhile the drug imatinib was designed to inhibit an altered enzyme produced by the fusion of c-ABL and BCR, frequently found in chronic myelogenous leukemia, and more drug response markers are continually being discovered. To read more, visit our blog.

Sample requirements

Genomic DNA (1-5 micrograms) / 2ml whole blood in lavender top tube / Tissue / FFPE sections.

Turnaround time: Sample-Data

7-10 business days.

Price

All Cancer Gene Panels on this page are priced equally. Please request a quote specifying the number of samples.

Results

VCF (Variant Call File). BWA mapping, GATK variant call, Filter for Variant Allele Frequency (1000 genome), Filter for known pathogenic variants (dbSNP) or suspect variants (Frameshift, Stop gain, Stop loss), SIFT score, Polyphen score and associated Clinvar disease names and Clinvar accession numbers. Advanced and custom analyses also available.
Additional deliverables: Initial sample QC, Library prep QC, Target enrichment QC, Sequencing reads QC, Coverage and FastQC plots.

myGenomics offers a variety of commercially available cancer genomic capture or library preparation solutions. Briefly described below are cancer gene panels available from Agilent, illumina and Qiagen. Please contact us if you do not see your preferred method below. myGenomics also specialize in custom target sequencing and can quickly customize the panel built to your specifications.

Agilent’s ClearSeq Comprehensive Cancer Panel

Image and the table, courtesy of Agilent.

illumina’s Cancer Panels

illumina provides 4 different Cancer panels with varying number of genes, targets, target size and capture chemistries. To help facilitate making the decision, below is a side by side comparison of 4 illumina’s cancer panels. To take some of the factors out of decision making process, myGenomics has made the price and turnaround time a common factor. We can also take the DNA extraction in our hands to further limit the number of factors. You can now pick any panel of interest depending on the aim of your project. To get started, just send an email (info@myGenomics.com) or click on the request a quote link specifying the number of samples and you will have the results ready within 2 weeks.

illuminacancer

Qiagen’s Cancer Panels

On customer’s request, myGenomics can employ Qiagen’s GeneRead DNAseq Targeted Panels V2 for analyzing the genetic variants of a focused panel of genes via next-generation sequencing. Each panel consists of multiplex PCR primer sets to amplify exonic regions of a thoroughly researched panel of biologically and clinically relevant and disease-focused genes. GeneRead DNAseq Targeted Panels V2 can also be customized to include genes or other genomic regions tailored to your specific NGS project needs. The high-quality primer design and targeted enrichment chemistry provide high design coverage, specificity, and uniformity, which are essential for detecting low-frequency variants in your precious samples. Greater than 95% of exonic regions are covered by the panel primer design, enhancing potential variant discovery. The high specificity of the system maximizes efficient use of sequencing capacity, as more than 95% of sequencing reads align to target regions. Finally, the high coverage uniformity of the system, with more than 90% of targeted bases covered at >20% median sequencing depth, ensures high-quality variant calls.

To take some of the factors out of the decision making process, myGenomics has made the price and turnaround time a common factor. myGenomics provides DNA extraction service for your convenience. You can now pick any panel of interest depending on the aim of your project. To get started, just send an email (info@myGenomics.com) or click on the request a quote link specifying the number of samples and you will have the results ready within 2 weeks.

qiagendisease