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Service Description
10X Genomics Single Cell 3’ RNA-seq
Cell populations are heterogeneous and unsynchronized in their characteris-
tics. Traditional bulk RNA sequencing generates comprehensive information
but does not provide insight into variable expression between cells. 10X
Genomics Chromium Single Cell 3′RNA-seq provides a scalable solution for
cell characterization and gene expression profiling of hundreds to millions of
cells. This technology is able to handle a large quantity of single cells fast and
accurately, providing research solutions across a wide variety of applications
including cancer, neurology, and immunology.
Sequencing Service Specification
BGI’s Single cell sequencing services are executed with our DNBseq technol-
ogy platform or Illumina platform:
• Sample preparation including tissue dissociation and dead
cell removal
• Single cell partition and amplification
• DNBseq PE100 or Illumina PE150 options
• Raw data and bioinformatics analysis are available in
standard file formats
Sample Preparation and Services
DNBseqTM 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-resolu-
tion digital imaging.
• Guaranteed ≥90% of bases with quality score of ≥Q20
Sequencing
• Typical 35 working days from sample QC acceptance to
filtered raw data availability
• Expedited services are available, contact your local BGI
specialist for details.
Turnaround Time
Project Workflow
SERVICE OVERVIEW
Sample QC
Library QC
LIBRARY
SINGLE CELL
PREPATION
LIBRARY
CIRCUCLARIZATION
SEQUENCING
BIOINFORMATICS
Sequencing QC
We care for your samples from the start through
to the result reporting. Highly experienced labora-
tory professionals follow strict quality procedures
to ensure the integrity of your results.
Request for Information or Quotation
info@bgi.comwww.bgi.com
BGI Americas
One Broadway, 14th Floor
Cambridge, MA 02142,
USA
Tel: +1 617 500-2741
BGI Europe
Ole Maaløes Vej 3,
DK-2200 Copenhagen N,
Denmark
Tel: +45 7026 0806
BGI Asia-Pacific
16 Dai Fu Street,
Tai Po Industrial Estate,
New Territories, Hong Kong
Tel: +852 36103510
Copyright ©2019 BGI. The BGI logo is a trademark of BGI. All rights reserved. All brand and product names are trademarks
or registered trademarks of their respective holders. DNBseq is a trademark of MGI Co. Ltd. Information, descriptions and
specifications in this publication are subject to change without notice.Published Aug 2019.We Sequence, You Discover
• Cell line/tissue/PBMC: After sample processing, freeze cells at a final concentration of 1x106 cells/ml in cryopreserved tubes
(Cell freezing medium: 90% FBS+10% DMSO).
[1] Zhao Y., Li X., Zhao W., Wang J., Yu J.,, Wan Z. & Gao K et al. 2019. Single-cell transcriptomic landscape of nucleated cells in umbilical cord blood.
Gigascience. 5: giz047
BGI 10X Genomics Single Cell Publications
Contact your BGI account representative for the most a�ordable rates in the industry and to discuss how we can meet your
specific project requirements or for expert advice on experiment design, from sample to bioinformatics.
10X GENOMICS S INGLE CELL 3 ’ RNA-SEQ
Data Analysis
Sample Requirements
In addition to raw data output, BGI o�ers a range of standard and customized bioinformatics pipeline for your 10X genomics
single cell sequencing project.
BGI Genomics BGI_Genomics
All Services and Solutions are for research use only.
• Reads extraction: Extract cell-barcodes and UMIs from reads
• Reads alignment: Align short reads to reference genome and transcriptome
• UMI counting: Form a raw-gene-barcode matrix according to UMI number
• Barcoding filtering: Filter those barcodes not from cellular GEM
• Matrix formation: Form filtered gene-barcode matrix
• PCA dimension reduction: Main component analysis (keep most highly variable components)
• Clustering: Graph-based clustering on PCA analysis
• Clustering: Kmeans clustering on PCA analysis
• T-SNE de-dimension: Visualize PAC result in 2D dimension by t-SNE dimension reduction
• DEG analysis: Identify the most significant di�erential expression gene in each cluster
• Generate report: Generate a report in CSV and HTML format
STANDARD ANALYSIS FOR 10X GENOMICS SINGLE CELL 3’ RNA-SEQ
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