We are the Bioinformatics Unit at the Core Facility at the Faculty of Medicine and Health Sciences. At present, we are located at the Hus 462, Floor 10.

We offer several Bioinformatics analyses from Microarray to Next-Generation Sequencing to High-throughput Image Analysis, primarily with open-source software, like R, Python, etc. We also have licensed software for Whole Genome Sequencing analyses, such as Sentieon. We develop pipelines for data analysis, from RAW data to the functional genomics.

We can assist you in three ways

  • Support/consultancy: to advise on bioinformatics procedures, methods and resources.
  • Technical assistance: help with tools, database, making figures or other small bioinformatics tasks.
  • Research collaboration: requests that require an effort beyond technical assistance/consultancy will be set up as research collaboration.

Bioinformatics Unit’s mission at the Core facility is to offer researchers support with bioinformatics analysis at any level. We firmly believe that the interface between bioinformatics and biology is the key-step towards success in our collaboration. For this reason, we are open to receive your projects for data analysis or development of computational pipelines of the project or maybe a small talk that you need for some statistical calculations.

Let us try to help with your projects and analysis.

Contact us

Services

Scale up your omics research instantly with Us

Services includes;

  • Personal Bioinformatics team for project discussion, evaluation and analysis
  • PhD-level project manager to support the experiment and the data analysis
  • Quick turnaround time to analysis the sequencing data
  • No one-size-fits-all analysis - develop new analytic tools for each project
  • Three-layered data protection with huge storage capacity

Analysis

Description

RNA sequencing analysis

  • Allele-specific expression analysis
  • long non-coding RNA expression
  • single-cell RNAsequencing data analysis

  • Microarray Data Analysis
  • alternate splicing
  • genetic variants
  • fusion genes
  • novel transcripts

  • Epigenomic Data Analsysis
  • DNA methylation analysis
  • Illumina EPICv1, EPICv2 array analysis,
  • 450K, 850K and 935K array analysis
  • from RAW data to functional genomics
  • BS-data analysis from the RAW data files
  • RRBS data analysis from the RAW data files
  • Nanopore DNA methylation data analysis
  • Twist DNA methylation data analysis

  • Project planning &
    Computational Pipeline Development
  • Detail discussion of the project before the experiment,
    during the experiment and also during the data analysis

  • Statistical Calculations
  • Statistical calculations with R, SPSS, etc

  • Ontology, Pathways, Network analysis
  • iPathwayGuide (licensed software) for GO, Pathway and Interaction network analysis

  • Microbial Genomics
  • Whole Genome data analysis from short and long read data
  • whole metagenomic data analysis
  • pan-genome data analysis
  • Viral metagenomics
  • De-novo genome assembly and genome annotation
  • Mapping and Variant calling

Technology

Computational Resources

Computation

Description

Computational Resources
- workstation

  • 2 x 48 core Intel Xeon Gold Processors
  • 512 GiB of DDR4 RAM
  • Linux Kernel Distribution
  • 2 dedicated NVIDIA GPUs
  • 1GBPS network for fast data transfer
Computational Resources
- server
  • 1.5 TB RAM
  • 130 TB internal SATA HDD
  • 25GBPS network
  • 3 NVIDIA L40S 48 GB GDDR6 GPUs
Storage Devices
  • More than 300TB data storage
  • RAID services
Data Security

Three-layered data encryption including -

  • Hard Disk Encryption,
  • Two-Factor Authentication, and
  • Unique login ID
Softwares
  • Open-source softwares,
  • Licensed softwares - iPathwayGuide

Projects are ordered via the Core Facility booking system iLab

Clinical Genomics, Sweden

We are also working with Clinical Genomics, Sweden from other Universities in Sweden to develop and integrate new analytic computational pipelines for big data analysis. Please find more details here:

Clinical Genomics Homepage

Core Facility