Uppsala University

Address Box 256 SE-751 05
Uppsala, Sweden
Platforms Biomarkers, Imaging & Tracing, Small Molecules

Uppsala University – Quality, knowledge and creativity since 1477

 

Uppsala University is a highly respected, forward-looking university, ranked among the top 100 in the world. The university has world-class research that offers new perspectives on fundamental scientific questions and contributes to a sustainable environment, human health and advancement of society. Uppsala University is characterised by diversity and breadth, with international frontline research across nine faculties. The faculties in Medicine and Pharmacy cover twelve departments with expertise in drug development, drug delivery, drug usage and advanced research within several clinical specialties. Based on the latest findings within basic research the faculty of medicine conducts advanced clinical research in conjugation with the Uppsala University Hospital. Furthermore, Uppsala University collaborates with the best universities in the world and is a key collaborative partner for business and society.

 

Contact

Head of the facility
  • Ann-Christine Syvänen

Expertise

Technologies
  • NGS-Whole genome sequencing (WGS)
  • NGS-Exome sequencing(WES)
  • NGS-other
  • Fluorescence in situ hybridization (FISH)
  • Array comparative genomic hybridization (aCGH)
  • Genotyping
  • qPCR
  • Droplet Digital PCR (ddPCR)
  • Genome editing - CRISP/cas9
Purposes
  • Research
  • Clinical use
  • Service
Applications
  • Biomarkers discovery and development
  • Diagnostics and personalised disease profiling
  • Disease processes research
  • Epidemiology
  • Infection medicine
  • Microbial Genomics
  • Single cells studies
  • Therapeutic development

Features

Collaboration with industry where the institute collaborated with Genomics expertise (in the last 5 years) >10
% of TIME involved in technology/methods development/innovation/intellectual property related to Genomics 10%
Certifications
  • ISO17025

Track record

Key opinion leaders
  • Ulf Gyllensten, Professor in Medical Genetics and Genomics, Platform Director of SciLifeLab Genomics: Expertise in human genomics and molecular epidemiology
  • Lars Feuk, Professor in Medical Genetics and Genomics, Facility Director of the Uppsala Genome Center: Expertise in genetic variation and gene expression in human disease
  • Ann-Christine Syvänen, Professor in Molecular Medicine, former Director of the SNP&SEQ Technology Platform: Expertise in medical genetics and technologies genome-wide analysis.
  • Leif Andersson, Professor in Comparative genetics and functional genomics; Expertise in functional genomics in domestic animals.
  • Kerstin Lindblad Toh, Professor in Comparative Genetics and Genomics; Expertise in comparative genomics to identify genes in canine and human disease.
  • Tove Fall, Professor in Epidemiology, expertise in genomics analysis in diabetes and heart disease
Publications

Contact

Head of the facility
  • Ann-Christine Syvänen

Expertise

Technologies
  • Serial analysis of gene expression (SAGE)
  • RT-PCR
  • Microarrays
  • NGS- RNA sequencing
Purposes
  • Research
  • Clinical use
  • Service
Applications
  • Biomarkers discovery and development
  • Diagnostics and personalised disease profiling
  • Disease processes research
  • Human and pathogen transcriptomes
  • Non coding RNA analysis (miRNA, lncRNA, sRNA..)
  • Responses to environment
  • Single cells studies
  • Therapeutic development

Features

Collaboration with industry where the institute collaborated with Transcriptomics expertise (in the last 5 years) >10
Certifications
  • ISO17025

Track record

Key opinion leaders
  • Lars Feuk, Professor in Medical Genetics and Genomics, Facility Director of the Uppsala Genome Center: Expertise in genetic variation and gene expression in human disease
  • Lars Forsberg, Associate Professor. The role of loss of chromosome Y (LOY) in human health and disease
  • Leif Kirsebom, Professor. biology of RNA and its role in various cellular processes.
  • Johan Elf, Professor in physical biology. central processes in bacterial cells as transcriptional regulation, protein synthesis and cell division
  • Fredrik Pontén, Professor and Dr. Cecilia Lindskog from the Human Proteome Atlas.
  • Lars Lind, Professor in Clinical Epidemiology.
Publications

Contact

Head of the facility
  • Ann-Christine Syvänen

Expertise

Technologies
  • DNA Methylation Analysis - High resolution melt (HRM)
  • DNA Methylation Analysis - Whole Genome Bisulfite Sequencing (WGBS)
  • DNA Methylation Analysis – Reduced Representation Bisulfite Sequencing (RRBS)
  • DNA Methylation Analysis – single-cell WGBS
  • DNA Methylation Analysis – Genome-wide methylome analysis by long-read sequencing
  • ChIP (including ChIP-chip, ChIP-seq)
  • Single-cell ATAC-seq
  • ATAC-seq
Purposes
  • Research
  • Clinical use
Applications
  • Biomarkers discovery and development
  • Diagnostics and personalised disease profiling
  • Disease processes research
  • Personalised "regulomes"
  • Responses to environment
  • Single cells studies
  • Therapeutic development

Features

Collaboration with industry where the institute collaborated with Epigenomics expertise (in the last 5 years) <10
% of TIME involved in technology/methods development/innovation/intellectual property related to Epigenomics 10%
Certifications
  • ISO17025

Track record

Key opinion leaders
  • Åsa Johansson, Assistant Professor. Expert in the role of genetics and epigenetics on human health
  • Ann-Christine Syvänen, Professor in Molecular Medicine.Expertise in medical genetics and technologies genome-wide analysis including epigenetics.
  • Helena Jernberg-Wiklund, Professor in Genetics and Pathology. Epigenetics of multiple myeloma
Publications

Contact

Head of the facility
  • Ann-Christine Syvänen

Expertise

Technologies
  • Western Blot
  • Isoelectric focusing (IEF)
  • Capillary electrophoresis(EC)
  • ELISA
  • Luminex
  • MesoScale Discovery(MSD)
  • MALDI-MS
  • LC-MS
  • Liquid chromatography (HPLC, UHPLC)
  • Olink panels
Purposes
  • Research
  • Clinical use
Applications
  • Biomarkers discovery and development
  • Diagnostics and personalised disease profiling
  • Disease processes research
  • Expression proteomics
  • Interaction proteomics and protein networks
  • Post-translational modifications
  • Therapeutic development

Features

Collaboration with industry where the institute collaborated with Proteomics expertise (in the last 5 years) >10

Track record

Key opinion leaders
  • Ulf Landegren, professor at the Immunology, Genetics and Pathology department. A pioneer the develpoment of methods such as oligonucleotide ligation assays, padlock, selector, and proximity probes.
  • Jonas Bergquist, professor and Facility Director and Head of the mass spectrometry-based proteomics facility at Uppsala University.
  • Per Andrén, associate Professor at the Dept. of Pharmaceutical Biosciences. Director of the National Center for Mass Spectrometry Imaging (NCMSI) infrastructure at Uppsala University. His research group works with imaging mass spectrometry and Peptidomics in neurodegenerative disorders and drug discovery.

Contact

Head of the facility
  • Ann-Christine Syvänen

Expertise

Technologies
  • High performance liquid chromatography (HPLC,UHPLC)
  • LC-MS
  • Nuclear magnetic resonance (NMR)
  • Untargeted metabolomics assays
Purposes
  • Research
Applications
  • Biomarkers discovery and development
  • Diagnostics and personalised disease profiling
  • Disease processes research

Track record

Key opinion leaders
  • Mikael Hedeland, Professor at Department of Medicinal Chemistry, Analytical Pharmaceutical Chemistry. Group leader of the Metabolomics resarch group

DATA ANALYSIS for

  • Genomics

DATA INTERPRETATION for

  • Genomics

DATA MANAGEMENT for:

  • FAIR data

STATISTICS

  • Molecular profiling (omics and others)
  • Expertise in clinical design of experiments, clinical statistics
  • Metadata (patient/sample information)
  • Methods and policies for information infrastructure, including privacy and security

BIOINFORMATICS

  • Genes and proteins annotation
  • Expression profiling with omics, microarray and others (e.g. PCR) for RNAseq, microRNA, other RNA species and proteins
  • Methylation profiling with NGS and array-types
  • Data integration (“Systems biology”)
  • Genetic analysis for Structural variation detection (Genome, Exome) and prediction of protein function from sequence information
  • Drug-target interaction analysis
  • Drug screening analysis
  • Bio-Imaging informatics
  • Development of new algorithms, e.g. new decision algorithms, new sequence aligners for NGS data, etc.
  • Development of semantic analysis tools
  • Informatics methods to support clinical decisions (diagnostic, predictive tests)

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