NGS Sequencing

Our Next Generation Sequencing service portfolio covers the full sequencing process from study design to primary sequence analysis. We have developed NGS workflows for a large variety of experiments for both DNA and RNA samples. 

Please submit your service request from the HILIFE iLab online system. iLab is web-based software tool designed to streamline service requests and equipment reservations in core facilities.

FIMM NGS Genomics laboratory provides a wide range of next-generation (NGS) sequencing services nationally and internationally. We focus primarily in medical genomics.

Our portfolio includes, but is not limited to, whole genome (WGS), whole exome (WES), targeted panel, cfDNA, metagenome and methylation sequencing. We also customize method to fit the needs of customers.

Our services include study design, sample QC, library preparation, target enrichment, sequencing on Illumina platform, data analysis and data storage.

Please submit your service request from the HILIFE iLab online system.

Contact:

Head of Sequencing Unit Pekka Ellonen, pekka.ellonen@fimm.fi, +358 50 415 4481

NGS Projects Manager Maija Lepistö, maija.h.lepisto@fimm.fi, +358 50 415 6608

NGS Services Manager Sari Hannula, sari.hannula@fimm.fi, +358 50 415 0582

FIMM NGS Transcriptomics provides a wide range of RNA next-generation sequencing (NGS) services both nationally and internationally. We focus primarily in medical genetics.

Our portfolio includes multiple Illumina short read -based applications from whole transcript and small RNA sequencing to targeted RNA sequencing approach. We also customize methods to fit the needs of customer projects.

Our services include study design, sample QC, library preparation, sequencing on Illumina platform, sample specific data analysis with our in-house pipelines and data storage. Secondary data analysis (such as differential gene expression) are available by request.

Please submit your service request from the HILIFE iLab online system.

Contact:

NGS transcriptomics & Head of Single Cell Analytics Pirkko Mattila, pirkko.mattila@helsinki.fi

NGS Service Expert Anu Suoranta, anu.z.suoranta@helsinki.fi, +358 50 319 8842

 

 

Amplicon sequencing enables ultra-deep analysis of targeted PCR amplicons. It's a cost-effective way for large scale screening of targeted DNA regions or to validate previous NGS findings. Immunoseq and metagenomics are also popular applications on the amplicon seq field.

Please submit your service request from the HILIFE iLab online system.

Contact:

Amplicon Services Manager Tiina Hannunen, tiina.hannunen@helsinki.fi, +358 50 472 7946

Our NGS sequencing services include integrated bioinformatic support. We provide assistance in the experimental design of next generation sequencing (NGS) experiments, support for the analysis of model organism related NGS data, and have mature best-practice and computational solutions for a variety of model organism related NGS applications. Please note that sequencing analyses acquired from the FIMM sequencing unit include our basic services.

Our sequencing service includes supporting primary data analysis pipeline, for example:

  • RNA-seq data analysis (basic)
  • miRNA-seq data analysis (basic)
  • Detection of germline variants (basic / advanced)
  • Somatic variant discovery
  • Copy-number alternation analysis
  • Variant filtering and annotation
  • Association testing between rare variants and phenotypes
  • Differential gene and allele-specific expression analysis