SNP&SEQ

Job opportunity
 Although we are currently not advertising for any open job positions at the SNP&SEQ Technology Platform you are welcome to send a spontaneous application (CV + personal letter) to:
ann-christine.syvanen@medsci.uu.se.
 We are constantly looking for experienced and skilled research engineers and bioinformaticians.

  The SNP&SEQ Technology Platform can assist genotyping projects of varying size, from 1 SNP to 5,000,000 SNPs  in hundreds or thousands of samples using five different genotyping systems to cover the needs of all projects.

  • The iScan system (Illumina) is used for genotyping up to 5,000,000 SNPs or DNA methylation analysis of 450,000 CpG sites per sample by the Infinium assay.
  • BeadStation 500GX (Illumina) is used for genotyping of 768 - 3072 SNPs per sample by the GoldenGate assay.
  • BeadExpress (Illumina) is used for genotyping 48-384 SNPs per sample by the Golden Gate assay.
  • GenomeLab SNPstream (Beckman Coulter) is used for genotyping 12-48 SNPs per sample.
  • GeniosPro (Tecan) is used for genotyping individual SNPs or a low number of SNPs per sample by single-base extension with fluorescence polarization detection.

 Read more about the different assays and instruments here.


SNP genotyping service includes:

  • Semi automated SNP genotyping in an accredited laboratory with dedicated personnel
  • Support for identification of SNPs in candidate genes or candidate genomic regions from public databases
  • Bioinformatics-assisted primer and assay design
  • Measurement of the DNA concentration of samples to be genotyped 
  • SNP genotyping for  projects ranging in size from 1- >5,000,000 SNPs per sample
  • Analysis of data using the analysis software of each genotyping system, e.g. genotype calling, analysis of copy number variation or methylation
  • Tailor-made result reports for larger projects upon request
  • Delivery of quality assessed genotyping results in Text file format
  • Compilation of material and methods regarding assay design and genotyping for publications
  • Maintenance of database containing information on samples, genotypes, SNPs and primer sequences

The first step in a SNP genotyping project is to complete a project description form and send it to Tomas Axelsson who can also provide additional information

 

News

  • The Swedish Childhood Cancer Foundation

    2011-12-14

    Molecular Medicine research group has received funding from the Swedish Childhood Cancer Foundation.

  • VR grant

    2011-11-17

    VR-RFI has granted 6.7 million SEK for running costs to the SNP&SEQ platform.

  • K&A Wallenberg grant

    2011-10-04

    Molecular Medicine research group has received funding from the K&A Wallenberg foundation.

  • Publication in Nature

    2011-08-11

    A study that doubles the number of susceptibility genes for multiple sclerosis (MS) was published in Nature on Aug 11.

  • Instrument Upgrade.

    2011-06-20

    The SNP&SEQ Technology Platform have now upgraded our Genome Analyzer IIx with a HiSeq 2000 instrument from Illumina.

  • Publication in Nature Genetics

    2011-03-06

    Five new loci for coronary artery disease were published on-line in Nature Genetics on March 6th.

  • European Project: ESGI

    2011-01-18

    The Molecular Medicine group contributes to the ESGI infra-structure by technology development, eg. allele-specific gene expression and epigenetics.