Low-Pass Whole Genome Sequencing

Low-Pass Whole Genome Sequencing

Service Description

Low-pass Whole Genome Sequencing (WGS) provides an accurate and cost-effective solution to measuring genome-wide genetic variation. Low-pass WGS is an increasingly-popular high-throughput tool for large-scale genomics projects that traditionally have used legacy technology like genotyping arrays. NGS technology outperforms genotyping arrays by providing an order of magnitude more data, greater statistical power, and enhanced variant discovery capabilities.

Applications include genome-wide association studies, biobank profiling, and pharmacogenomics. In addition, low-pass WGS can be used to build custom reference panels to improve imputation of future samples from a specific population or disease group.

DNBSEQ™ Sequencing and Gencove Imputation 

The unique combination of BGI DNBSEQ™ sequencing and Gencove’s ImputeSeq low-pass imputation pipeline enables researchers to efficiently obtain fully-imputed, analysis-ready VCF files from DNA in a single service.


Sequencing Platform

BGI Low-Pass Whole Genome Sequencing services are executed with the DNBSEQ™ sequencing technology, for great sequencing data at the lowest cost in the industry.

DNBSEQ™ is BGI’s proprietary sequencing technology, developed by our Complete Genomics subsidiary in Silicon Valley.


Project Workflow

We care for your samples from the start through to the result reporting. Highly experienced laboratory professionals follow strict quality procedures to ensure the integrity of your results.

  • Sample QC
  • Library QC
  • Sequencing QC
  • Data QC
  • Sample Preparation
  • WGS Library Preparation
  • Sequencing
  • Raw Data Output
  • Bioinformatics Analysis

How to order

We care for your samples from the start through to the result reporting. Highly experienced laboratory professionals follow strict quality procedures to ensure the integrity of your results.

Request a Quote

Send us a no obligation request for quote and our dedicated sales team will reply to you within 24 hours.

Create an Online myBGI Account

Create a myBGI account to view all our sample and shipping documentation and to manage your project moving forwards. It's quick, free and easy!

Sequencing Service Specification

BGI Human Genome Sequencing Services are performed with BGI’s DNBSEQ™ sequencing technology, featuring DNA Nanoballs, linear Rolling Circle Replication and cPAS technology for superior data quality.

  • Sample Preparation and Services

    Sample Preparation and Services

    • PCR and PCR-free library methods are available
    • 100bp or 150bp Paired end sequencing
    • Choice of sequencing depth: low pass WGS (1x, 4x, or custom)
    • CAP/CLIA laboratory services available
  • Sequencing Quality Standard

    Sequencing Quality Standard

    • Guaranteed ≥80% of bases with quality score of ≥Q30
  • Turn Around Time

    Turn Around Time

    • Typical 18 working days from sample QC acceptance to data delivery
    • Expedited services are available, contact your local BGI specialist for details

Sample Requirements

We can process your gDNA, saliva, blood, fresh frozen tissue, cell pellets and FFPE samples, with the following general requirements:

DNA Amount and Concentration

Minimum Sample Volume

Regular Samples

Intact genomic DNA ≥ 1μg, Concentration ≥ 12.5ng/ μl

15 μl

PCR-free Samples

Intact genomic DNA ≥ 2μg, Concentration ≥ 12.5ng/ μl

15 μl

Low Input Samples

Intact genomic DNA ≥ 200ng, Concentration ≥ 2.5 ng/ μl

15 μl

Data Analysis

In addition to raw data output, BGI offers a range of standard and customized bioinformatics pipelines for your Low-Pass whole genome sequencing project.


  • Read alignment

  • Variant calling by imputation (reference panel: 1000 Genomes Phase 3)

  • Ancestry inference

  • Microbiome profiling


Further customization of Bioinformatics analysis to suit your unique project is available:
Please contact your BGI technical representative.

Low-Pass WGS Resources

Read or download Low-Pass Whole Genome Sequencing documentation and data. Don't find what you need right away? Please contact your local BGI representative.

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