Illumina NextSeq 1000
The Illumina NextSeq 1000 is an NGS sequencing system designed to miniaturize sample and reagent volumes and increase read output. The NextSeq 1000 is capable of many sequencing applications, including targeted metagenomics, whole genome sequencing, transcriptomics, immune repertoire profiling, sequencing of targeted panels, exomes and large panels, circulating tumor DNA, single-cell sequencing, and spatial profiling.
Contact the facility to discuss services and applications.
|
SERVICE |
INTERNAL |
ACADEMIA |
|
Amplicon library preparation |
$50 |
$65 |
|
16S Profiling |
$50 |
$65 |
|
Illumina DNA library preparation |
$130 |
$145 |
|
SequelPrep normalization |
$155 |
$200 |
|
Kapa qPCR validation |
$50 |
$50 |
|
NovaSeq PE150bp (50M reads) |
$155 |
Contact Facility |
|
RNA-Seq Library Prep (PolyA capture) |
$100 |
Contact Facility |
|
RNA-Seq Library Prep (Ribodepletion) |
$150 |
Contact Facility |
|
NextSeq cartridges |
|
|
|
300 cycle (1 x 150) P1 |
Contact facility |
Contact facility |
|
600 cycle (2 x 300) P1 25M Reads |
$1425 per 25M reads |
$1600 per 25M reads |
NGS Sequencing Depth Recommendations
|
SERVICE |
Recommended Reads |
Recommended Read Length |
Recommended Coverage |
|
Transcriptomics |
5-10m (prokaryotic) |
2 x 50+ bp |
N/A |
|
Transcriptomics |
5-10m (prokaryotic) |
2 x 150-300+ bp |
N/A |
|
Whole Genome Sequencing |
N/A |
2 x 150-300+ bp |
100x |
|
Whole Genome Sequencing |
N/A |
2 x 50+ bp for SNPs |
30-60x (germline/strain) 500-1000x (somatic mutations) |
|
Metagenomics |
1-20m |
2 x 50+ bp |
N/A |
|
Metagenomics |
N/A |
2 x 300+ bp |
100-400x per species |
|
16S Amplicon Metagenomics |
20-50m |
600 (V3-V4/V3-V4-V5) |
N/A |
|
Genome Skimming |
N/A |
1 x 35+ bp |
0.05-20x |
FAQs
How should I provide my samples for NGS?
| # of Samples | Recommended storage tube/plate |
|---|---|
| 1 to 8 | Individual tubes |
| 8 to 24 | 8 tube strips or part of a 96 well PCR plate* |
| More than 24 | Part of whole 96 well PCR plate* |
*Organize samples vertically (A1-H1, A2-H2) — NOT horizontally (A1-A12).
What NGS applications do you support?
We can support many common NGS protocols from genome sequencing to transcriptomics. Long read and single cell sequencing are also available. We often are able to accommodate custom library preps or specific kits not listed below. If you have any questions about whether we can support your sequencing project please contact us.
Illumina Sequencing:
- Whole Genome/Shotgun Metagenome (Illumina DNA Prep, Illumina DNA Prep PCR-Free)
- RNA-Seq (NEB Ultra II RNA Prep, NEB UltraExpress RNA Kit)
- Amplicon Sequencing (16S/18S/ITS/custom)
- Single Cell (10X Genomics)
Oxford Nanopore:
PromethION 48 (Library preps TBD).
Can I submit sample libraries I prepared myself?
Yes! We do accept DIY libraries for Illumina sequencing, though we cannot guarantee library quality or success. Library quality control will be needed to ensure run integrity. Please contact us for more information.
What are your requirements for sample concentration and quantity?
| Application | Minimum Concentration | Minimum Quantity |
|---|---|---|
| 16S Sequencing | 5 ng/µL | 10 µL |
| Amplicon Sequencing | 5 ng/µL | 10 µL |
| Transcriptomics | — | — |
| Metagenomics | — | — |
| Whole genome sequencing | — | — |
Samples outside of the recommended concentrations can still be accepted but success is not guaranteed. Please contact us if this may be an issue for your project.
Which sequencing platforms do you have?
Currently we perform next generation sequencing on the Illumina NextSeq 1000. Soon, we will also support the Illumina NovaSeqX and PromethION 48
What sequencing depth do I need for my experiment?
Sequencing depth will vary considerably for different projects and often relates to the goals of the sequencing experiment. Please contact us to arrange a consultation if you are having trouble determining the appropriate amount of sequencing you require for your project.
Do you run QC on my samples?
We do not run QC on submitted samples unless requested. Please follow sample submission quality guidelines. After library preparation, we confirm library quality via fragment analysis on the Agilent TapeStation.
How long do you store unused sample and library?
We store unused sample for one month. Additional storage is available on request.
How long is my data stored?
Data will be stored for at least 1 month. Backups may be available on request, but we do not guarantee data availability after 1 month.
What is your sequencing turnaround time?
Turnaround time is dependent on the current queue. Orders placed that consume an entire flow cell can often be processed sooner, but please reach out to us if you have questions about the current estimated wait time.
How can I ensure successful sequencing?
Good quality sequencing starts with good quality samples. Make sure you are using validated extraction methods and always run QC on your samples prior to submitting them to us. We always do our best to ensure the highest possible probability of success, but we cannot guarantee it.
What is your policy for failed sequencing samples?
If quality control indicates that a success is possible, failed sequencing will be run a second time with no additional charge, except in cases when batch effects would render the repeat useless.
Can you provide analysis?
Yes! We currently offer bioinformatic pipelines for differential expression analysis (transcriptomics), metagenomics, phylogenetic assignment (16S/18S/ITS), variant calling (SNPs), de-novo assembly, GO annotation/enrichment, and more. Please contact us for consultation or for generating a quote.