Clinical Genomics Göteborg

Clinical Genomics Göteborg was established in January 2016 as a collaborative effort between the Sahlgrenska Academy at the University of Gothenburg and Area 4, Laboratory Medicine at the Sahlgrenska University Hospital. Its mission is to facilitate translational research and help bridge the gap from research to clinical routine. The bioinformatics facility and sequencing facility are closely associated, providing an end-to-end solution from sample to analysis. Translational research projects are carried out in close collaboration with both researchers and clinicians, locally and nationally.

Services

We provide sequencing and bioinformatics support for clinical research and clinical implementation projects with a focus on NGS, including sequencing and/or data analysis. Our bioinformatics facility provides guidance and support on a wide range of NGS applications including WGS for clinical applications where data is either generated locally using our Nova Seq or at the Clinical Genomics facility in Stockholm. The sequencing facility performs RNA-seq, exome sequencing, whole-genome sequencing, panels, metagenomics and bacterial genome sequencing locally, including 10x single-cell, exome and WGS. We also perform general consulting and support on cluster hardware and software infrastructure development and storage for NGS applications.

Applications

Projects are divided into three packages focusing on different aspects of clinical research:

• WP1: Acquired Diseaseas
  Lead bioinformatician: Alvar Almstedt
• WP2: Hereditary Disease
  Lead bioinformatician: Mathias Johansson
• WP3: Microbiology
  Lead bioinformatician: Jens Persson-Werling
• WP4: Ultrasensitive detection of cell-free tumour DNA
  Lead Bioinformatican: Tobias Österlund

Equipment

BFx Facility:

• 532 core secure computing cluster
• 175 Tb SSD-backed RAID 10 Storage + 220 Tb RAID 6 Storage
• Univa GridEngine
• CLC Genomics Server Software

Sequencing Facility (GCSU):

• 10x Chromium Genomics + Single-Cell Platform
• 1 NovaSeq 6000
• 1 NextSeq500
• 3 MiSeq
• 3 IonTorrent PGM
• 2 Ion S5 Prime