The MiSeq supports a wide range of applications, including the following:
- Targeted resequencing
- TruSeq Custom Amplicon Sequencing
- De novo sequencing (< 20Mb for ∼ 50x coverage, < 50Mb for ∼ 20x coverage)
- Small RNA sequencing
- Metagenomics
- Library QC
The NextSeq500 supports a wide range of applications, including the following:
- Whole genome sequencing
- Exome sequencing
- Transcriptome sequencing
- Targeted resequencing
| Application | MiSeq | NextSeq500 |
|---|---|---|
| DNA Sequencing | ||
| Whole Genome - Large (e.g. Human)1 | 1 | 1-10 |
| Whole Genome - Small (e.g. E. coli)2 | 1-96 | 120-792 |
| Targeted - Exome or large panels3 | 1 | 1-12 |
| Targeted - Small gene panels4 | 3 | 15-48 |
| RNA Sequencing | ||
| RNA Profilinga | 1-2 | 12-36 |
| Transcriptome Analysisb | - | 3-10 |
| Small RNA Analysisc | 1-5 | 25-80 |
| Targeted RNAd | 384 | 384 |
| Regulation Applications | ||
| ChIP-Seqi | 1 | 8-24 |
| Methylation Analysisii | - | 1 |
DNA sequencing applications based on:
- 30x coverage of a human genome
- 30x or greater coverage of a 5 Mb microbial genome
- 4 Gb per sample at 2x75bp read length
- TruSight One Sequencing Panel
RNA sequencing applications based on:
- 10 million reads per sample
- 40 million reads per sample
- 5 million reads per sample
- based on TruSeq indexing and up to 65 targets for MiSeq, 1041 targets for NextSeq
Regulation sequencing applications based on:
- 15 million reads per sample for identification of transcription factor binding
- 30x coverage