Next Generation Sequencing

NGS platforms and additional services

next generation sequencingUSEQ operates a broad range of sequencing platforms, each with unique characteristics. Technical and cost characteristics determine the best fit for your experiment. Service fees include costs for chemicals, operator time, quality control, maintenance, lab information management system (LIMS) and troubleshooting.

Platform & Configurations

Currently, we operate the following Illumina platforms and configurations:

  • 1x NextSeq500
  • 2x NextSeq2000
  • 1x iSeq100
  • 2x NovaSeq 6000 (external)
  • Nanopore MinIon
  • Nanopore GridIon X5
  • Nanopore ProMethion
  • Nanopore PromethIon (1 machines)

On this page you can find an overview per platform of the most widely used run modi, configurations and expected output*. Other run modi and custom recipes are possible as well, upon consultation with USEQ.

* Please note that high quality of sequence libraries is crucial in order to obtain maximum output. For samples submitted as ready to sequence libraries, USEQ cannot take any responsibility for data quality and quantity.

Sample Requirements & Turn around times

For ready-to-sequence samples: please deliver your (pooled) samples in an 1,5 ml tube with a concentration of 4 nM and a minimal volume of 40 ul.

For DNA / RNA library preparation: please refer to the library preparations page.

Turnaround times depend on the specific service; details are described in our FAQ

Pricing

ServicePrice perPrice (excl VAT)
Nanopore FlongleRun € 406
Nanopore MinIon (R10)Run € 933
Nanopore PromethIon (R10)Run € 1.443
iSeq 100 (4 M clusers; all configs)Run € 1.163
NextSeq500 2 x 75 bp mid output (120 M clusters)Run€ 1.714
NextSeq500 2 x 150 bp mid output (120 M clusters)Run€ 2.348
NextSeq500 1 x 75 bp high output (400 M clusters)Run€ 2.098
NextSeq500 2 x 75 bp high output (400 M clusters)Run€ 3.401
NextSeq500 2 x 150 bp high output (400 M clusters)Run€ 5.044
NextSeq2000 2 x 50 bp (P1 -100 M clusters)Run€ 1.433
NextSeq2000 2 x 150 bp (P1 -100 M clusters)Run€ 1.714
NextSeq2000 2 x 300 bp (P1 -100 M clusters)Run€ 2.277
NextSeq2000 2 x 50 bp (P2 -400 M clusters)Run€ 1.885
NextSeq2000 2 x 100 bp (P2 -400 M clusters)Run€ 2.951
NextSeq2000 2 x 150 bp (P2 -400 M clusters)Run€ 3.694
NextSeq2000 2 x 300 bp (P2 -400 M clusters)Run€ 4.006
NextSeq2000 1 x 50 bp (P3-1000M clusters)Run€ 2.593
NextSeq2000 2 x 50 bp (P3-1000M clusters)Run€ 3.447
NextSeq2000 2 x 100 bp (P3-1000M clusters)Run€ 4.512
NextSeq2000 2 x 150 bp (P3-1000M clusters)Run€ 5.792
NovaSeq SP 2 x 50 (750M clusters)Run€ 3.257
NovaSeq SP 2 x 100 (750M clusters)Run€ 3.917
NovaSeq SP 2 x 150 (750M clusters)Run€ 4.170
NovaSeq SP 2 x 250 (750M clusters)Run€ 5.388
NovaSeq S1 2 x 50 (1500M clusters)Run€ 5.033
NovaSeq S1 2 x 100 (1500M clusters)Run€ 6.048
NovaSeq S1 2 x 150 (1500M clusters)Run€ 6.455
NovaSeq S2 2 x 50 (3500M clusters)Run€ 8.485
NovaSeq S2 2 x 100 (3500M clusters)Run€ 10.262
NovaSeq S2 2 x 150 (3500M clusters)Run€ 10.871
NovaSeq S4 1 x 35 (9000M clusters)Run€ 11.539
NovaSeq S4 2 x 100 (9000M clusters)Run€ 13.868
NovaSeq S4 2 x 150 (9000M clusters)Run€ 15.322
Novaseq X 10B (100 cycles)Run€ 8.061
Novaseq X 10B (200 cycles)Run€ 9.818
Novaseq X 10B (300 cycles)Run€ 10.372
Novaseq X 25B (300 cycles)Run€ 16.290
WGS (100 Gbases)Sample€ 750
WES (100x coverage)Sample€ 330

Service fees include costs for chemicals, operator time and troubleshooting.


Sample Submission

We provide an online samplesubmission system that is connected to our laboratory management system. PI-groups have an account ID, and all users belonging to this account will have their own user ID for the system. PI's can connect multiple project codes to their account so that billing requires the least administration. Users can submit the sample information online as well and when this is completed, physically hand in the samples in the USEQ freezer at the stratenum. For more details, and the submission procedure, go to the sample submission page



NGS platforms and additional services

Illumina NextSeq500

Applications: genome, exome, transcriptome sequencing.

ConfigurationRun type Raw reads / pairs (million)
Mid Output2 x 75 bp120
Mid Output2 x 150 bp120
High Output1 x 75 bp350
High Output2 x 75 bp350
High Output2 x 150 bp350

Illumina NovaSeq X

Applications: large scale genome, exome, transcriptome sequencing.

ConfigurationRun type Raw reads / pairs (billion)
10B2 x 50 bp10
10B2 x 100 bp10
10B2 x 150 bp10

ILlumina novaseq 6000

Applications: large scale genome, exome, transcriptome sequencing.

ConfigurationRun type Raw reads / pairs (million)
SP2 x 50 bp750
SP2 x 150 bp750
SP2 x 250 bp750
S12 x 50 bp1.500
S12 x 100 bp1.500
S12 x 150 bp1.500
S22 x 50 bp3.500
S22 x 100 bp3.500
S22 x 150 bp3.500
S42 x 100 bp9.000
S42 x 150 bp9.000

ILlumina iSeq 100

Applications: small scale amplicon sequencing,Novaseq pooling and rebalancing.

ConfigurationRun type Raw reads / pairs (million)
standard1 x 36 bp4
standard1 x 50 bp4
standard1 x 75 bp4
standard2 x 75 bp4
standard2 x 150 bp4

Illumina NextSeq2000

Applications: genome, exome, transcriptome sequencing.

ConfigurationRun type Raw reads / pairs (million)
P12 x 50 bp100
P12 x 150100
P12 x 300100
P22 x 50 bp400
P22 x 100 bp400
P22 x 150 bp400
P22 x 300 bp400
P31 x 50 bp1000
P32 x 50 bp1000
P32 x 100 bp1000
P32 x 150 bp1000

Oxford Nanopore Sequencing

The third generation sequencing is developing fast. Besides the imaging based real time single molecule sequencing, nanopore sequencing is the new promising technology. We are currently exploring and offering nanopore sequencing using the MinION platform from Oxford Nanopore Technologies in collaboration with the group of Jeroen de Ridder at the UMCU.

Because Nanopore technology is developing fast, please contact us for the latest specifications, performance, and expectations.

Whole Genome Sequencing

We provide access to Human Whole Genome Sequencing (WGS) or other large scale sequencing experiments on the Novaseq 6000 platform.

For further information, please contact us.

Consultancy Service

For expert advice on your NGS-based research and the possibilities USEQ offers to get the most out of your samples: request a meeting at our consulting hour, each Friday at 1:30pm. Experimental design, technology, platform and library preparation choice, standard bioinformatics analysis, results and follow-up experiments are discussed. The facility manager ensures to bring the right experts from any of the participating organisations to the table.

You can request a meeting at useq@umcutrecht.nl.

NEWS

Check out our new Spatial Omics services with nanostring GeoMX & CosMX
Christmas holiday close: USEQ is closed between 25 dec – 5 jan 2024!