Genomics
Scientific ManagerProf. Dr. Marek Bartkuhn Tel.: +49 (0)641-99-36470 |
Technical ManagerDr. Tara Procida-Kowalski Tel.: +49 (0)641-99-36471 |
Description
The genomics and bioinformatics platform will make bulk- and single-cell transcriptomic, genomic, and epigenetic analysis by next-generation sequencing available within cDEEP. This includes all necessary steps from sample quality control over library preparation up to the delivery of demultiplexed sequence reads (FASTQ files).
Instrumentation/Software
Sequencer
Illumina NovaSeq 6000
There are four flow cell types available with different throughputs:
| Flow Cell Type | SP | S1 | S2 | S4 |
|---|---|---|---|---|
| Paired-end reads | 1.3 – 1.6 B | 2.6 – 3.2 B | 6.6 – 8.2 B | 16 – 20 B |
| Number of sequenced fragments | 650 – 800 M | 1.3 – 1.6 B | 3.3 – 4.1 B | 8 – 10 B |
Approximate sample throughput per run for key applications:
| Application | SP | S1 | S2 | S4 |
|---|---|---|---|---|
| Human Genomes | ~4 | ~8 | ~20 | ~48 |
| Exomes | ~40 | ~80 | ~200 | ~500 |
| Transcriptomes | ~32 | ~64 | ~164 | ~400 |
Other instruments
- Nanodrop 2000 Spectrophotometer
- Agilent Tapestation 4200
- Invitrogen Qubit Flex Fluorometer
- BioRad CFX Real-Time PCR Detection System
- 10X Chromium Controller
Services
We consult in designing cost-effective sequencing experiments obtaining sufficient reads to successfully address the biological questions of interest. We typically take isolated nucleic acids as samples. We can also process cell suspensions and perform single-cell NGS by means of the 10X Chromium system.
Quality reports and FASTQ files are made available via secured download.
Downloads/Links
NGS-spezifische Nutzungsordnung