Single Cell Sequencing

Single Cell Sequencing

Service Description

Single cell sequencing is used for solving problems associated with the study of heterogeneous samples, rare cell types, cell lineage relationships, and disease evolution. By using deep sequencing of DNA and RNA from single cell, cellular functions of individual cells can be investigated. BGI applies the superior method of Multiple Displacement Amplification (MDA) for single cell genomic DNA amplification (WGS/WES), and Switching Mechanism at 5′ End of RNA Template (SMART-seq2) for single cell RNA amplification (transcriptome/RNA quantification).


DNBSEQ™ NGS technology platform

BGI’s Single Cell Sequencing service is typically executed with our proprietary DNBSEQ™ NGS technology platform, 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. This system is powered by combinatorial Probe-Anchor Synthesis (cPAS), linear isothermal Rolling-Circle Replication and DNA Nanoballs (DNBTM) technology, followed by high-resolution digital imaging.

DNBseq BGI sequencing technology

The major applications of single cell sequencing include:

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
  • Library Preparation
  • Sequencing
  • Raw Data Output
  • Bioinformatics

How to order

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's Single Cell Sequencing services are performed on our DNBSEQ technology platform:

  • Sequencing


    • Guaranteed ≥90% of bases with quality score of ≥Q20
    • Cell sorting by mouth-controlled microcapillary pipetting system
    • PE100 sequencing option, depending on your application
    • Raw data and bioinformatics analysis are available in standard file formats
  • Turnaround Time

    Turnaround Time

    • Typical 40 working days from sample QC acceptance to filtered raw data availability
    • Expedited services are available, contact your local BGI specialist for details

Sample Type



Single Cell

1-2 cells in 4μl PBS buffer

1-2 cells in 4μl lysis buffer

A Few Cells

2-1000 cells in 4μl PBS buffer

2-1000 cells in 4μl lysis buffer

Amplified single cell gDNA/cDNA

Concentration >20ng/ μl, Quantity >3μg

Concentration >0.2ng/μl, Quantity >1ng

Total RNA for low input library construction


Concentration >50pg/μl, Quantity >2ng;
RNA 28S/18S ≥1,RIN ≥7

Data Analysis

In addition to raw data output, BGI offers a range of standard and customized bioinformatics pipelines for your single cell sequencing project.

Standard Analysis for Single Cell DNA Sequencing

  • Data filtering (removing adaptors, contamination, and low-quality reads from raw reads)

  • Alignment and summary of data production

  • SNP calling, annotation, and statistics

  • InDel calling, annotation, and statistics

  • CNV calling, annotation, and statistics (only for whole genome resequencing)

  • SV calling, annotation, and statistics (only for whole genome resequencing)

Standard Analysis for Single Cell RNA Sequencing

  • Data filtering includes removing adaptors contamination – low quality reads from raw reads.

  • Assessment of sequencing

  • Gene expression and annotation (Gene coverage and coverage depth)

  • Differential expressed genes analysis

  • Expression pattern analysis of DEGs

  • Gene ontology analysis of DEGs

  • Pathway enrichment analysis of DEGs

  • Refinement of gene structures

  • Identification of alternative spliced transcripts

Customized analysis

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

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