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Concentration and Quality Control

This service is only for future sequencing projects at CTG.

Requesting a project at CTG

To initiate a project using our available services, please start a project in iLab. You can login using your LucatID (SWAMID) on the Lund University iLab webpage.

 

RNA concentration

RNA Concentration is measured by a fluorometric method, using the Qubit 4 or Qubit Flex instruments.

Available Assays:

  • Broad Range RNA Assay
  • High Sensitivity RNA Assay

RNA quality

RNA quality is assessed by micro-capillary gel electrophoresis, using the TapeStation 4200. RNA sample quality is expressed as RNA Integrity Number (RIN) that can vary from 1 to 10, with the higher number indicating higher quality. 

Available assays:

  • RNA Assay
  • High Sensitivity RNA Assay

Sample Requirements

Detailed instructions will be provided after requesting a QC project in iLab. 

Deliverables

Concentration measurement results will be delivered as:

  • Excel file containing the measured values.

Quality measurement results will be delivered as:

  • PDF files containing electropherogram and RIN values.
  • Excel file containing RIN values.

DNA concentration

DNA Concentration is measured by a fluorometric method, using the Qubit 4 or Qubit Flex instruments.

Available Assays:

  • Broad Range dsDNA Assay
  • High Sensitivity dsDNA Assay

DNA Quality

DNA quality is assessed by micro-capillary gel electrophoresis, using the TapeStation 4200. DNA sample quality is expressed as DNA Integrity Number (RIN) that can vary from 1 to 10, with the higher number indicating higher quality. 

Available assays:

  • Genomic DNA Assay
  • Cell-free DNA Assay

Sample Requirements

Detailed instructions will be provided after requesting a QC project in iLab. 

Deliverables

Concentration measurement results will be delivered as:

  • Excel file containing the measured values.

Quality measurement results will be delivered as:

  • PDF files containing electropherogram and DIN values.
  • Excel file containing DIN values.

DNA Quality for FFPE samples

In addition to concentration measurements described for DNA above, a qPCR is performed to assess the quality of FFPET-derived DNA more accurately. This assay gives an estimation of DNA fragmentation status and its amplification potential expressed as ∆Cq value.

Sample requirements

  • Sample concentration needs to be determined by a fluorometric method (e.g. Qubit).
  • Sample needs to be normalized in EB-buffer (10 mM Tris-Cl, pH 8.5).
    • Concentration: 2.5 ng/µl*
    • Volume: 5 µl
      * Samples with concentrations lower than 2.5 ng/µl cannot be processed
  • Samples should be delivered in 200 µl strips.
  • All samples should be labeled individually, directly on the side and the lid of a tube.
  • Samples must be delivered on ice.

Deliverables

Quality measurement results for FFPE samples will be delivered as:

  • Excel file containing ∆Cq scores and the quality estimates.

Contact for service

Phone: +46730753563

E-mail: CTGservice [at] med [dot] lu [dot] se (CTGservice[at]med[dot]lu[dot]se)

Qubit Flex

Qubit Flex

Page manager: liesl [dot] joubert [at] med [dot] lu [dot] se | 4 Sep 2023