Bioinformatics Long-term Support (WABI)National facility
SciLifeLab offers bioinformatics long-term support in the format of “embedded bioinformaticians”, senior bioinformaticians working in your project for an extended time, typically 6 – 12 calendar months. This support has been enabled by a generous grant from the Knut and Alice Wallenberg Foundation and is predominantly targeting projects that have generated high-throughput data of kinds that can be produced at the SciLifeLab platforms. The facility has state-of the art competence and technical know-how in large-scale sequence data analysis, including transcriptomics, variant detection and de novo genome assembly. Research groups interested in long-term bioinformatics support will have to send in a specific application, please see information in the right side bar.
- All NGS applications. Virtually all kinds of sequencing projects are supported, as well as projects combining sequencing data with data from other SciLifeLab platforms.
- Free of charge. Projects are reviewed by a national committee and selected based on scientific level.
- Long-term support. Senior bioinformaticians working in your project for a period of 6-12 months.
Examples of technical areas of support:
- Variant calling in model and non-model organisms
- Human exome and whole-genome resequencing
- Differential and allele-specific expression
- De novo genome assembly
- Single-cell analyses
- Integrative analyses of multiple types of "omics" data
This facility only provides time as a resource. Computer equipment is provided mainly through SNIC.
- Single-Cell Analysis Reveals a Close Relationship between Differentiating Dopamine and Subthalamic Nucleus Neuronal Lineages. Kee et al. Cell Stem Cell (2017)
- Production of individualized V gene databases reveals high levels of immunoglobulin genetic diversity. Corcoran et al. Nature Communications (2016)
- Visualization and analysis of gene expression in tissue sections by spatial transcriptomics. Ståhl et al. Science (2016).
- RNA sequencing uncovers antisense RNAs and novel small RNAs in Streptococcus pyogenes. Le Rhun et al. RNA Biology (2016).
- The human gut microbiome as a transporter of antibiotic resistance genes between continents. Bengtsson-Palme et al. Antimicrobial Agents and Chemotherapy (2015).
- Cis-regulatory changes associated with a recent mating system shift and floral adaptation in Capsella. Steige et al. Molecular Biology and Evolution (2015).
- The mutational landscape in pediatric acute lymphoblastic leukemia deciphered by whole genome sequencing. Lindqvist et al. Human Mutation (2015).
- The genomic landscape underlying phenotypic integrity in the face of gene flow in crows. Poelstra et al. Science (2014).
A full publication list is provided at the Long-term Bioinformatics Support wiki.