High throughput sequencing data analysis

In the last few years a range of new technologies have made large scale sequencing of genomes both fast and cost-efficient. At the bioinformatics core facility we are following the development of the analytical methods for handling the enormous datasets that result from high-throughput sequencing (HTS). We provide with a range of services related to HTS.

Typical input: A raw datafile recieved from a sequencer. 

Types of analysis:

  • SNP, Indel, and gene variant discovery using whole genome, exome and targeted sequencing. The output is a list of interesting gene variants supplied with rich annotation.
  • Mapping reads to a reference genome
  • Assembling a genome and generating a consensus sequence based on de Novo sequencing
  • Gene expression analysis including differential expression as well as SNP, Indel, and gene variant discovery from RNA sequencing data
  • Detecting and characterizing miRNAs or other short RNAs from HTS data
  • Finding protein-DNA contact points from ChIP-Seq data
  • Analysis of DNA methylation from bisulfite sequencing
  • Finding the number of operational taxonomic units (OTUs), creating phylogenetic trees and assigning species, genus or family information from metagenomic studies of short read data.
  • General help with software, pipelines and algorithms related to HTS data
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