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Supported Experiments

The CCG currently performs the following flavors of experiments on its next generation sequencers:

Whole Genome Shotgun Sequencing

  • Random fragments of a complete known genome are sequenced. Standard pipelines for alignment against a reference sequence and variant detection are available.

deNovo Sequencing

  • Random fragments of a complete unknown genome are sequenced. Standard pipelines include deNovo assembly and annotation.

Targeted Resequencing (including Exome Sequencing)

  • Random fragments of a selected region of a known genome are sequenced. Standard pipelines for alignment against a reference and variant detection are available.

RNA-Seq (Transcriptome Sequencing)

  • Reverse transcribed cDNA fragments from the transcriptome of an organism with known genome are sequenced. Standard analyses include alignment against a transcript database, detection of splice sites and gene expression estimation.

ChIP-Seq

  • DNA fragments extracted by Chromatin Immunoprecipitation are sequenced. Standard analysis pipelines include alignment against a reference genome, detection of binding sites (peaks), normalization against a control.

smallRNA-Seq

  • Reverse transcribed cDNA fragments of size-selected RNA molecules are sequenced. Standard analyses include expression comparison, sequence variation assessment, prediction of novel micro RNAs.


Customized experiments that do not fall into one of the above categories can be designed on request.