Skip to content

NextSeq 1000 & NextSeq 2000 Systems

75 breakthrough innovations in one powerful instrument.

Science moves fast, and so do you. Access applications like single-cell, whole exome, and RNA sequencing, preparing for the future today.

Easier than ever. Accelerated decision making.

Experience our simplest workflow yet with dry instrumentation, easier run set up and DRAGEN on-board for 6x faster secondary analysis. Now with lossless genomic compression, saving up to 80% on storage costs.

Learn More

See the system in your lab

Frame the QR code with your smartphone for a virtual view of the system on-location in your lab environment.

Simulate the system on-location in your lab environment.

Begin Virtual View

Sequencing power for the applications you need

NextSeq 2000 is redesigned from the ground up to maximize future proofing, offering sequencing power for high throughput applications. Offering scalability for evolving needs and larger studies, it supports a vast variety of applications, including:

Single-Cell Gene Expression

(100 cycles) 4k cells; 10k reads/cell

Examine the transcriptomes of individual cells for a high-resolution view of cell-to-cell variation. Explore the distinct biology of individual cells in complex tissues and understand cellular subpopulation responses to environmental cues. With P2 reagents, analyze 10 samples in approximately 13 hours. Or step up to P3 reagents to analyze 25 samples in approximately 19 hours.

Learn More
Whole-Exome Sequencing

(200 cycles) 50× mean target coverage

Exome sequencing is a cost-effective approach when whole-genome sequencing is not practical or necessary. Efficiently identify coding variants across a broad range of applications, including population genetics, genetic disease, and cancer studies. In about 21 hours you can analyze 16 samples with P2 reagents – with P3, get 40 whole exomes in about 33 hours.

Learn More
Shotgun Metagenomics

(300 cycles) 50M reads/sample

Comprehensively sample all genes in all organisms present in a given complex sample. Evaluate bacterial diversity and detect the abundance of microbes in various environments or study unculturable microorganisms that are otherwise difficult or impossible to analyze. In approximately 29 hours you can have data from 8 samples using P2 reagents. Scale up to 20 samples in approximately 48 hours with P3 reagents.

Learn More

System Specifications

40-330 Gb*
output range
400 M-1.1 B
single reads per run
2 x 150 bp
max read length

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


Interested in staying informed about the NextSeq 1000 and NextSeq 2000 Systems?

Sign up now.

Sign up now.