FIMM

P.O. Box 20
FI-00014
University of Helsinki
Finland

Contacts

2009 © Institute for Molecular Medicine Finland FIMM

For genotyping customers

Genotyping process

1. Starting meeting Before a project starts we shall organize a starting meeting where all details about a project shall be discussed. If you are interested in starting a project please contact our genotyping or sequencing personnel for more instructions
2. FIMM Service Agreement and
Genotyping Application Form		 FIMM Service Agreement must be signed by both sides before the project can start in our laboratory. A genotyping application should also be filled to describe the purpose of the genotyping or other laboratory work performed by us. If your project is required by law to have an ethical permit you need to supply us with a copy of it before the project starts.
3. FIMM basic information of samples Provide the sample information using the electronic sample data form (Note! You need to able macros included.)
4. DNA requirements Please, check the requirements for DNA depending the method the project samples will be processed.
5. Shipment Fill up this sample submission form and bring it to the lab together with the samples.
6. Data release
7. Return of overleft DNA's and primers.

 

 

DNA requirements for:

  • Sequenom
    • Ideal concentration is 10 ng/µl (also 5 ng/µl is possible) and the amount needed for one multiplex reaction is 20 ng. DNA dilutions should be made in water
    • Provide the samples in skirted 96-well plates
    • Purify DNA using commercial kits, quantitate it using either UV spectrophotometer or Picogreen.
    • To achieve optimal resources for quality control procedures, we recommend plating 90 unique samples and two duplicate samples per plate. The rest four wells can be left empty and are filled with two CEPH-control samples and two water controls by us.
  • Illumina
    • Minimun concentration is 50 ng/µl, all samples within a project should be in same concentration
    • Total amount of DNA varies according to application, e.g. 200 ng for Infinium genotyping, 0.5-1 ug for methylation analysis, please ask us for details
    • In case / control projects you should consider duplicating one or more samples per 96-well plate for quality control
  • Affymetrix
    • Optimal concentration for samples is 50 ng/ul. E.g. for Genome-Wide Human SNP Array 6.0 chip you need 500 ng of DNA per sample
  • Microsatellite genotyping
    • A whole genome scan with Linkage Mapping Set v.2.5 - MD10 uses approximately 5 ug of DNA, optimal concentration 5-50 ng/ ul, use same concentration for all samples
    • For fine mapping projects please enquire us
    • All plates should have at least 3 empty wells for control samples

Contact Persons at FIMM Technology Centre

email: fimm-genotyping@helsinki.fi, fimm-sequencing@helsinki.fi

Janna Saarela Director of FIMM Technology Centre
Päivi Lahermo Genotyping
Mari Kaunisto Genotyping (leave of absence)
Maarit Lappalainen Genotyping
Pekka Ellonen Sequencing
Seija Hackl Laboratory
Tiina Hannunen Laboratory
Suvi Kyttänen Laboratory
Sirkka Ekström Laboratory
Sari Hannula Laboratory
Siv Knaappila Laboratory
Mikko Siurala Laboratory
Anu Yliperttula Laboratory
Anne Leinonen Data Management
Kyösti Sutinen Data Management

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