Transcriptome Sequencing

Transcriptome Sequencing

Service Description

Transcriptome sequencing is used to reveal the presence, quantity and structure of RNA in a biological sample under specific conditions. Compared to hybridization-based RNA quantification methods such as microarray analysis, sequencing-based transcriptome detection can quantify gene expression with low background, high accuracy and high levels of reproducibility within a large dynamic range. In addition, transcriptome sequencing does not require an existing genome sequence and can detect mutations/SNPs, splice variants and fusion genes that can not be obtained by microarrays.

BGI also provides Whole Transcriptome sequencing, which provides sequencing information for both mRNA and Long non-coding RNA (lncRNA). Whole Transcriptome Sequencing can identify novel lncRNAs besides detection and quantification of known lncRNAs.

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
  • Transcriptome 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 transcriptome sequencing services are executed with the Illumina HiSeq 4000 sequencing system.

  • Sample Preparation and Services

    Sample Preparation and Services

    • Multiple choices for mRNA enrichment and rRNA removal kits
    • Regular and strand-specific transcriptome library
    • 100bp and 150bp paired-end sequencing options available
    • Raw data and bioinformatics analysis are available in standard file formats
    • Advanced and custom bioinformatics data analysis
    • Cloud-based data storage and delivery system
  • Sequencing Quality Standard

    Sequencing Quality Standard

    • ≥30 Million reads per sample recommended
  • 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 Requirements

We can process your total RNA, blood, cell line, FFPE, fresh frozen tissue and single cell samples from a variety of species, with the following general requirements.

OD260/280 ≥1.8
OD260/230 ≥1.8





Total RNA ≥200ng,
Concentration ≥20ng/μl



Total RNA ≥1μg,
Concentration ≥40ng/μl



Total RNA ≥1μg,
Concentration ≥20ng/μl



Total RNA ≥1μg,
Concentration ≥40ng/μl



Total RNA ≥1μg,
Concentration ≥20ng/μl


Data Analysis

In addition to raw data output, BGI offers a range of standard and customized bioinformatics pipelines for your transcriptome sequencing project. Reports and output data files are delivered in industry standard file formats: FASTQ, BAM and Excel.

Standard Analysis (With Reference)

  • Sequencing data filtering

  • Alignment

  • Novel Transript prediction

  • SNP and Indel detection

  • Differentially splicing gene detection

  • Gene fusion analysis(human samples only)

  • Gene expression calculation

  • Detection of DEG

  • Hierarchical clustering analysis of DEG

  • Gene ontology analysis of DEG

  • Pathway function analysis of DEG

  • TF prediction of DEG

  • Protein-Protein Interaction (PPI) analysis for DEGs

Customized Analysis

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