NGS Bioinformatics at the CCG
We provide bioinformatics support for next-generation sequencing (NGS) data generated at our facility. This typically includes standard secondary analysis using established and validated pipelines. If you require bioinformatics support for your project, we strongly recommend discussing this early during the consultation phase. Early planning allows us to align experimental design and data generation with the specific requirements of downstream analysis. If advanced bioinformatics analyses are performed, this is frequently carried out within the framework of scientific collaboration. Accordingly, we kindly request appropriate acknowledgment in any resulting publications.
Data analysis for different applications
Whole Exome Sequencing (WES) and Gene Panel Sequencing
Content of analysis
alignment, variant calling (SNPs + Indels), denovo variant calling for trios, annotation
Results
Varbank - access to variant lists, BAM- and VCF files for download
Whole Genome Sequencing (WGS)
Content of analysis
alignment, variant calling (SNPs + Indels), denovo variant calling for trios, annotation
Results
Varbank - access to variant lists, BAM- and VCF files for download
Total RNASeq and 3‘ Lexogen RNASeq
Content of analysis
alignment, feature counts, differential expression calculation, GO-term enrichment analysis
Results
feature counts, expression values, p-values, plots
10x scRNASeq
Content of analysis
Cell Ranger analysis
Results
Cell Ranger report, feature-barcode tables, Loupe browser file
10x Spatial Transcriptomics
Content of analysis
Space Ranger analysis
Results
Space Ranger report, feature-barcode tables, Loupe browser file
PacBio 16s RNA
In special cases further in-depth analyses are possible.
Contact
Please contact the bioinformatics team via bioinfo-support(at)uni-koeln(dot)de.