Whole genome sequencing for cancer research

Overview

Whole genome sequencing (WGS) is a method of next generation sequencing that can provide comprehensive genomic data. Sequencing a cancer patient’s whole genome can help researchers and clinicians better assess patients’ prognoses and tailor treatment plans based on their molecular profile, an approach called precision medicine. 

Benefits of WGS for cancer research

Targeted next generation sequencing can be a cost-effective, faster alternative to whole genome sequencing if researchers or clinicians already know what regions of the genome will provide helpful data. Many cancers have unknown genetic background, so sequencing the whole genome gives researchers the opportunity to link cancer phenotypes to genotypes. Whole genome sequencing is the best approach for discovery science or data mining.

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Discovery
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Speed
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Quality
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Next generation sequencing in the clinic

Dr Elaine Mardis' lab focuses on NGS in relation to cancer care. She shares her views on the current uses of NGS, the challenges that NGS technologies face, and what can be expected in the future.

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Tumor-normal sequencing

Whole genome sequencing can be used to compare the whole genomes of tumor tissues to normal tissues to find point mutations and other aberrations. Identifying differences gives clinicians information about how to treat the tumor without damaging healthy tissue. Tumor-normal sequencing compares the sequence of tumor tissues to healthy tissues using next generation sequencing data. The comparison can identify

  • Oncogenes: genes that cause cancer
  • Somatic mutations: mutations that are accumulated due to environmental exposure and are passed down to cells of the same type
  • Driver mutations: mutations that cause tumor growth

 

Whole genome sequencing workflow

Whole genome sequencing is a type of next generation sequencing. After genomic material is extracted from the sample, libraries must be prepared. Library prep includes the addition of adapters to identify the samples or molecules in the sample and to help the DNA adhere to the sequencing apparatus.

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Extraction

  • Beckman Coulter Life Sciences Genomics Reagents
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Sequencing

  • Illumina
  • Pacific Biosciences
  • Oxford Nanopore Technologies
Icons_Ocean_85x85_Blogs and Articles

Tips for designing spike-in controls for next generation sequencing analysis

Every experiment needs controls to guarantee results. The performance of your next generation sequencing experiments can be tracked using synthetic DNA fragments. Read about the applications of gBlocks Gene Fragments as sequencing controls.

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Get started with WGS solutions for cancer research

Working in an area that would benefit from sequencing? Just starting? See how you can easily improve your workflows and results.

Lotus DNA Library Prep Kit

The Lotus DNA Library Prep Kit enables streamlined preparation of high-quality next generation sequencing (NGS) libraries from double-stranded DNA (dsDNA)—generate libraries suitable for PCR-free, PCR-amplified, and targeted sequencing applications on Illumina platforms.

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xGen Stubby Adapter and Unique Dual Index Primer Pairs

Ensure maximum accuracy in your NGS reads with xGen Stubby Adapter and Unique Dual Indexing (UDI) Primer Pairs. A convenient indexing option for a variety of applications from whole-genome to targeted sequencing, the kit provides adapters and unique i5 and i7 primer pairs that can be used with TruSeq™-compatible library prep for sequencing on Illumina instruments.

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NGS Discovery Pools

NGS Discovery Pools allow you to build custom panels quickly at a fraction of the cost of conventional custom panels.

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gBlock Gene Fragments

Design and order your own genetic part with the highest sequence fidelity and a fastest turn-around-time.

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