NextSeq 1000 and NextSeq 2000 Sequencing Systems

Advance your research

Proven technology to empower your discovery

NextSeq 1000 and NextSeq 2000 Sequencing Systems

NextSeq 1000 and NextSeq 2000 in laboratory setting

Innovative sequencing for more biological discoveries

The NextSeq 1000 and NextSeq 2000 Systems are enabling biological insights with breakthrough innovative features thoughtfully designed in a compact, yet versatile platform. With up to 14 configurations and read lengths from 1 × 50bp to 2 × 300bp, these systems efficiently handle benchtop workflows with flexibility and scalability.

Efficient design combined with intuitive workflows deliver ease of use while driving down costs and minimizing waste. Confidently expand your research with single-cell and spatial sequencing and other emerging applications with the NextSeq 1000 and NextSeq 2000 Systems.

Robust performance powered by an intuitive workflow

These systems offer operational ease and onboard informatics, simplifying workflows for both new and advanced users. Advanced XLEAP-SBS chemistry, built on the proven foundation of standard Illumina SBS chemistry, enables faster and higher quality sequencing than ever before. Coupled with high-efficiency and low-cost workflows, the NextSeq 1000 and NextSeq 2000 Sequencing Systems deliver technological advancements for diverse sequencing applications.

scientist starting sequencing run on NextSeq 1k/2k

Delivering sequencing success through community

The NextSeq 1000 and NextSeq 2000 Systems offer the certainty of a field-tested solution and a reliable sequencing partner. Joining this community gives access to a large ecosystem of applications, protocols, and informatics that have been built in collaboration with thousands of researchers and industry thought leaders across the globe.

Experience the new P4 flow cell on NextSeq 2000

Expand your capabilities. Achieve up to 1.8 billion single-end reads per run to power the most data intensive applications on your benchtop sequencer.

NextSeq 2000 System specifications

System specifications

Output range^a

10–540 Gb
Single-end reads per run

100M–1.8B
Max read length

2 × 300 bp
Run time

8–44 hr
Weight

141 kg

a. Specifications based on Illumina PhiX control library at supported cluster densities.

View all NextSeq 1000 & 2000 specifications

Intuitive workflows from start to finish

The NextSeq 1000 and NextSeq 2000 Systems provide a comprehensive workflow that includes user-friendly run setup, a wide ecosystem of compatible library prep kits, load-and-go operation, and integrated, onboard secondary analysis.

Manage workflow

Track samples and manage runs easily and efficiently with cloud-based and on-premises options.

Prepare libraries

Prepare libraries with a wide range of compatible library preparation kits.

Sequence

Generate sequences with scalable output, efficient run times, and high data quality.

Analyze data

Analyze using onboard DRAGEN secondary analysis or stream to the cloud for additional analysis flexibility.

Interpret results

Access BaseSpace apps, instrument performance data, license management, and long-term storage solutions.

See why researchers choose Illumina

When you partner with Illumina, you’ll get more than just leading-edge technology–you become part of a community with like-minded goals.

Learn more

scientist adding solution to P4 flow cell

Expand your access to more data and applications

Epigenetic breakthroughs with the Illumina NextSeq 1000/2000

Learn about innovations of the NextSeq 1000/2000 workflow, including the use of 3D genomics to study the functional context of GWAS variants in this webinar.

Multiomics

Perform transformative science with access to multiple emerging omics applications.

Compare with other Illumina systems

	MiSeq System	NextSeq 550 System	NextSeq 1000 and NextSeq 2000 Systems	NovaSeq X Series^b
Maximum output per run^a,b	15 Gb	120 Gb	540 Gb	8 Tb
Maximum single reads per run^b	25M	400M	1.8B	26B
Maximum read length	2 × 300 bp	2 × 150 bp	2 × 300 bp	2 × 150 bp
Informatics options^c	On-premises All DRAGEN Pipelines Cloud DRAGEN Pipelines available on BSSH and ICA	On-premises All DRAGEN Pipelines Cloud DRAGEN Pipelines available on BSSH and ICA	On-instrument Popular DRAGEN Pipelines available onboard On-premises All DRAGEN Pipelines Cloud DRAGEN Pipelines available on BSSH and ICA	On-instrument Popular DRAGEN Pipelines available onboard On-premises All DRAGEN Pipelines Cloud DRAGEN Pipelines available on BSSH and ICA

a. Based on Illumina PhiX control library at supported cluster densities.
b. Data is based on single flow cell output. The NovaSeq X Plus System is capable of single flow cell runs or dual flow cell runs. The NovaSeq X System is capable of single flow cell runs.
c. View key DRAGEN applications for more details.

See all Illumina sequencing platforms

Speak with a specialist

Interested in learning more about the flexibility of NextSeq 1000 and NextSeq 2000 Systems? Contact us today to answer your questions.