Genome-wide methods

High throughput genetic methods and the development of novel technologies such as RNA interference (RNAi) are rapidly transforming both basic biological science and biomedicine requiring restructuring of conventional research units. Because of the highly specialized and capital-intensive nature of genomics instrumentation and reagent sets these should be developed as core infrastructures providing services to researchers nationally. Integration and focusing of local services was initiated within this network in BF in 2007 and led to national recognition on the Roadmap of National Research Insfrastructures (2008).

In addition to ongoing support for genetics, genomics, and gene expression and regulation, recent investments into systems biology and high-throughput technologies have already provided critical support for world-leading scientific research. Cost-effective access to reagents and libraries enabling knockdowns or overexpression as well as high-throughput facilities is provided nationwide as a collaborative effort of Helsinki units. High-content screening services are customized to local research strengths and integrated with imaging and translational technologies. The genome-wide BF network will continue as an expert body to coordinate training efforts, to evaluate the services, to facilitate the use of these services in biocenters throughout Finland, and to integrate these activities internationally.

Contact persons & Feedback

Technology platform services

Genetics and Genomics

- Services include eg. resequencing; de novo sequencing; metagenomics; targeted sequencing; SNP genotyping (GWAS); targeted SNP genotyping; copy number variation.

Helsinki
BI DNA Sequencing & Genomics Laboratory (BI-DGEN)

FIMM Genomics

FIMM Sequencing Unit

Gene expression and regulation

- Services include eg. immunoprecipitations; DNA methylation analysis; RNA-seq; gene expression microarrays; Nanostrings, QuantStudioTM 12K Flex system

Turku
Finnish Functional Genomics Centre (FFGC)

Helsinki
Biomedicum Functional Genomics Unit (FuGU)

Genome-scale biology

- Services include eg. genome-scale reagents; ORF cloning; siRNA, shRNA, ORF, miRNA screens; high-content analysis

Helsinki
Genome Biology Unit

Biomedicum Functional Genomics Unit (FuGU)

Biomedicum High-Throughput Center

Contact persons & Feedback

Genome-wide methods user survey

Genome-wide methods platform user survey

Contact persons

Coordinator of the BF Genome-wide methods network
Janna Saarela / tel. +358 (0) 2941 25755 / janna.saarela (at) helsinki.fi
University of Helsinki

BF Genome-wide methods technology platform partners:
Outi Monni (BCH, Biomedicum Functional Genomics Unit (FuGU)); Petri Auvinen (BI, DNA Sequencing and Genomics Laboratory (BI-DGEN)); Tea Vallenius (BI, Genome-biology Unit (GBU)); Riitta Lahesmaa & Riikka Lund (BioCity, Finnish Microarray and Sequencing Centre (FMSC)); Janna Saarela (FIMM, FIMM Technology Center; DNA Sequencing and Genotyping Laboratory; High-throughput Screening Facility)