Illumina NextSeq 2000

Illumina NextSeq

The Illumina NextSeq 2000 is our newest short-read sequencer, and has replaced the NextSeq 550.

Illumina NextSeq


The sequencing chemistry is similar across all Illumina platforms. Libraries compatible with one Illumina sequencer should be compatible with all Illumina sequencers.

Used for a variety of applications, including but not limited to:

  • De novo whole genome sequencing
  • Whole genome resequencing
  • Exome sequencing
  • RNA-Seq
  • scRNA-Seq
  • miRNA/small RNA-Seq
  • ChIP-Seq
  • RIP-Seq
  • Degradome sequencing


  • Three output sizes available: P1, P2, and P3 producing 100 million, 400 million, or 1 billion reads (or read pairs) per run respectively
  • P1 is available only as a 300 cycle kit
  • P2 and P3 are available as 100, 200 or 300 cycle kits
  • One library pool per flow cell, no individual lane loading
  • Sample multiplexing available from 96-384 samples, depending on the application

Data produced in the FASTQ format.

This instrument is operated by Genomics Core Facility staff in conjunction with next-generation sequencing services.