Next Generation Sequencing
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Advantages of high quality, probe-based gene capture panels

Although high-throughput sequencing methods make it possible to sequence the whole genome of an organism in a single instrument run, whole genome sequencing is often neither required nor desired. Factors such as coverage depth needs, experimental focus, sample number, and cost make target enrichment more suitable.

There are two basic approaches to target enrichment, PCR-based amplification and hybrid capture. Either method allows researchers to focus their analysis to specific regions of interest, increasing depth of coverage of targeted sequences and improving the detection of rare genomic events.

IDT offers target capture by in-solution hybridization using xGen® Lockdown® Probes, individually synthesized biotinylated probes that are individually analyzed for quality control before being pooled (if pooling is requested).  Being individually synthesized, xGen Lockdown Probes offer great flexibility for target capture. Researchers can order a panel comprising a base number of probes, and then add additional probes based on the outcome of sequencing. If you prefer to test different combinations of probes to achieve the desired sequencing depth for specific genomic regions, you can have your probes delivered individually in plate wells.

A recent, cost-effective addition to our target capture products are xGen Predesigned Gene Capture Pools. These are preconfigured pools of probes targeting the coding sequences (CDS) of human protein-coding genes. Offered at a minimum of 10 genes per order, xGen Predesigned Gene Capture Pools provide you the ability to create custom human gene capture panels for fast delivery. All you need to do is select your genes of interest and choose how you want the probe pools delivered, combined in a single tube or separated in a plate.

xGen Lockdown Panels are the perfect choice for studying specific diseases. Currently, researchers can choose from our xGen Acute Myeloid Leukemia (AML)Pan-Cancer, Inherited Diseases, Human ID Research, and Human mtDNA Research Panels. These panels offer the most cost-effective solution for sequencing studies of these diseases. For broader discovery applications, IDT offers the xGen® Exome Research Panel. This large panel consists of 429,826 individually synthesized and quality controlled xGen Lockdown Probes—covering 19,396 genes and spanning 39 Mb of the human genome. Again, you can add probes for new targets as you make new discoveries or to improve coverage of specific sites.  Alternatively, if none of the preconfigured panels meets your research needs, you can create entirely custom panels using xGen Lockdown Probes.

In the following webinar we discuss the benefits of hybrid capture for targeted sequencing and highlight the ease and flexibility offered by xGen Lockdown Probes and Panels. You can access a recording of the webinar through the video link:

Learn more about the advantages of target enrichment by reading Target Enrichment Facilitates Focused Next Generation Sequencing in our online DECODED newsletter.

Product focus: Target capture reagents

xGen® Lockdown® Probes—target capture probe pools for NGS

xGen Lockdown Probes are pools of individually synthesized, quality controlled, and normalized hybridization probes. Use them to generate custom capture panels for targeted sequencing to enhance the performance of existing panels. xGen Predesigned Gene Capture Probe Pools are available for any human RefSeq coding gene. Select from predesigned and custom probes that offer:

  • Sensitive detection of SNPs, indels, CNV, LOH, and translocations
  • GMP compliance for clinical and diagnostics research
  • Flexibility to augment existing panels or create completely custom panels
  • Quick delivery

Discover more about xGen Lockdown Probes.

xGen Lockdown Panels

xGen Lockdown Panels are preconfigured, validated, and stocked pools of xGen Lockdown Probes for targeted next generation sequencing of defined gene families:

  • xGen Exome Research Panel
  • xGen Acute Myeloid Leukemia Panel
  • xGen Pan-Cancer Panel
  • xGen Inherited Diseases Panel
  • xGen Human ID Research Panel
  • xGen Human mtDNA Research Panel

Discover more about xGen Lockdown Panels.

xGen Lockdown Reagents—hybridization and wash kit

xGen Lockdown Reagents have been optimized to deliver deep, even coverage of targets captured using xGen Lockdown Probes and Panels. Achieve uniform coverage with hybridization and wash buffers that are optimized for target enrichment using xGen Lockdown Probes and Panels. A short, 4-hour hybridization protocol generates results quickly.

Discover more about xGen Lockdown Reagents.

xGen Blocking Oligos

xGen Universal Blocking Oligos for single- or dual-index adapters used with common sequencing platforms improve on-target performance for multiplexed samples by reducing adapter participation in hybridization enrichment. Custom adapters can be manufactured for other barcodes or to meet the needs of customers who require specific modifications or services to improve performance in unique applications.

Discover more about xGen Blocking Oligos.

Additional reading

Read an overview article about target enrichment:

Target enrichment facilitates focused next generation sequencing—Understand the rationale and benefits of enriching subsets of the genome (target enrichment by hybrid capture) prior to sequencing. Use this strategy for genotyping, identifying splice variants and indels, and profiling genomic recombination events as well as viral and transposon integration sites.

Read other articles demonstrating use of target capture for focused NGS:

NGS target capture recommendations for FFPE samples—Webinar review: Learn about NGS library preparation and target capture from formalin-fixed, paraffin-embedded samples.

Advantages of high quality, probe-based gene capture panels—Target enrichment by hybrid capture lets you focus your genomic analysis on specific regions of interest, increasing depth of coverage of targeted sequences and improving the detection of rare genomic events. You can create custom human gene capture panels quickly and cost-effectively using IDT preconfigured pools of probes targeting the coding sequences (CDS) of human protein-coding genes, or with predesigned disease or exome panels.

Target Enrichment Identifies Mutations that Confer Fitness Effects—Researchers at the University of Texas use target enrichment with xGen® Lockdown® Probes and NGS to track frequency of mutations in evolving bacterial populations over a given time course and to gauge their importance based on their fitness effect.

Next Generation Sequencing in the Clinic: A Perspective from Dr Elaine Mardis, and Current Research at The Genome Institute—A discussion about the future of NGS in the clinic, and how the Genome Institute is using xGen® Lockdown® Probes for Targeted Sequencing.

Review other DECODED Online newsletter articles on NGS applications.

You can also browse our DECODED Online newsletter for additional application reviews, lab tips, and citation summaries to facilitate your research.

Author: Hans Packer, PhD, is a scientific writer at IDT.

© 2015, 2017 Integrated DNA Technologies. All rights reserved. Trademarks contained herein are the property of Integrated DNA Technologies, Inc. or their respective owners. For specific trademark and licensing information, see

xGen® Blocking Oligos

Adapter blocking oligos increase the number of on-target reads by preventing non-specific binding during hybridization.

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