The Genomics Core Facility aims to provide researchers with state-of-the-arts high-throughput sequencing and microarray services. As part of our service packages, we provide guidelines to sample preparation and assistance with experimental design.
 
Quantification and quality control of DNA
 
Accurate measurement of DNA quantity and quality is crucial for a successful experiment. High-quality DNA should be high molecular weight and free of contaminants such as carbohydrates, proteins and organic solvents.
 
  • We strongly recommend the use of fluorescent nucleic acid assay for quantification of dsDNA using Quant-iT PicoGreen or Qubit assays.
  • To determine DNA integrity we recommend running a 1% agarose gel electrophoresis or Agilent TapeStation DNA tapescreens.
  • We encourage assessing the purity by spectrophotometer (Nanodrop or equivalent). On the Nanodrop, DNA samples should have an A260/A280 ratio of 1.8 to 2.0, and an A260/A230 ratio higher than 2.0.
  • Samples should be delivered diluted in water.
  • For sample concentration please contact the core facility. Concentration will depend on the protocol.
 
Quantification and quality control of total RNA
 
Precise measurement of RNA quantity and quality is crucial for a successful experiment. RNA with no degradation and free of contaminants such as carbohydrates, proteins and organic solvents is required.
 
  • Total RNA samples should be quantified using the Nanodrop spectrophotometer. RNA samples should have an A260/A280 ratio and A260/A230 of 1.8 to 2.0.
  • All RNA samples deliver for service will be subjected to a quality control using the Agilent 2100 Bioanalyzer prior to downstream processing. The electropherogram and the RNA Integrity Number (RIN) of each sample will be used to assess the RNA integrity. If a sample has a lower RIN value than 8.0, the sample shows low quality and the user should be aware of the occurrence of possible bias in the analysis.
 
Additional costs related to poor sample quality will be responsibility of the user.
 
The Genomics Core Facility recommends the use of Qiagen kits for RNA isolation. RNA should be DNase treated and dissolved in RNase free water. 
 
 
Useful tips on sample preparation and handling

RNA quality control (pdf)

Working with RNA (pdf)

RNA Isolation Using QIAGEN RNeasy Mini Kit

DNA Isolation Using Promega Wizard Kit

 

 
 
 
 
 
 


News

Feb 24, 2016

The HiSeq 4000 build upon the existing HiSeq 2500 platform using the new HiSeq X patterned flow cell technology, providing unparalleled speed and performance. The dual-flow cell HiSeq 4000 System delivers the highest throughput and lowest price per sample across multiple applications. The new sequencer will provide users will faster turnaround time (run time is 3 days compared to 6-11 days in HiSeq 2500) and higher quality, more data per run and longer reads (150 bp paired-end).

Feb 15, 2016

The Oslo University Hospital Genomics and Bioinformatics Core Facilities will relocate to the new Oslo Cancer Cluster Innovation park to colocalise with the section for Molecular Pathology. The colocalisation will facilitate the technology and competence transfer from our genomics environment to accelerate the implementation of high-throughput sequencing for clinical stratification of cancer patients.


Contact Information:

oslo<at>genomics.no 

Visiting address:
Genomics Core Facility (Room 3-F8-04)
Department of Core facilities
Institute for Cancer Research
New OCCI-building 
 
Norwegian Radium Hospital 
Ullernchaussen 66, Lamell 3, 2B 
NO-0379 Oslo, NORWAY

+47 - 9183 2772 Laboratory
+47 - 9183 3425 Office

Head of Core Facility
Leonardo A. Meza-Zepeda, Dr. philos.

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