Sequencing Only

SCOP offers services for sequencing of user-prepared libraries on the NovaSeq6000 and NextSeq500.

SCOP offers sequencing and basic bioinformatic data processing and analysis for the bulk assays: RNA sequencing, RRBS, WGBS, and ChIP-Seq.

SCOP offers sequencing and bioinformatic data processing for the single-cell assays: RNA sequencing and ATAC sequencing.

Please be aware of the following and if you have questions, please contact us here.

• Libraries should be compatible with Illumina sequencing platforms
• Libraries should be of good quality without adaptor dimers.
• We recommend the use of unique dual indices (UDI) for NovaSeq sequencing.
• Sequencing pools can only be run on whole flow cells.
• Define how many reads per sample are required for your data analysis.
• Define sequencing kit and number of cycles.

NovaSeq6000:

NextSeq500:

• Measure library concentration using qubit or qPCR library quantification.
• Estimate library quality and size using a capillary electrophoresis method (Bioanalyser / Tapestation). Make sure no adapter-dimer traces are visible.
• Calculate the nanomolar concentration by using the formula:
• Dilute libraries to the recommended pool concentration (you can get input from SCOP) in EB buffer or equivalent in tubes in numerical order.
• Provide SCOP with the library volume required to pool (see pool volumes below).
• SCOP will pool upon sequencing.

Deliver diluted libraries ready for pooling in a box labeled with your SCOP project ID.

The three main experimental steps are:

1. Sample drop-off

See details under sample preparations and sample delivery.

2. Sequencing

• Libraries are pooled and sequenced.
• In case of library excess, libraries will be stored for potential additional sequencing if requested by the user or if the initial run fails. Libraries may be picked up by the user within one month of sequencing.

3. Access to files or data processing and analysis

Raw sequencing - or FASTQ files only

• You will receive an email with instructions on how to access the raw sequencing files (BCL) or FASTQ files

Data processing and analysis

• SCOP offers basic bioinformatic processing and analysis for specific bulk assays: RNA sequencing, RRBS, WGBS, and ChiP-Seq, and basic bioinformatic processing for single-cell assays: RNA sequencing and ATAC sequencing.

• You will receive an email with instructions on how to access your data and results.

• Sequencing price varies depending on kit and the price is influenced by exchange rate.
• If you would like us to provide a sequencing cost estimate, then contact us with information about the number of reads required for your libraries.

Please recognize and acknowledge SCOP’s contributions to the scientific improvements in your project. Being acknowledged in publications is very important as it serves as documentation for the SCOPS's value and performance.

For a guide on how to acknowledge SCOP, click here.