Single-Cell Open Lab (scOpenLab)

Single cell sequencing (sc-seq) technologies are evolving fast and become more and more important for many research groups. To address this need, the DKFZ single cell open lab (scOpenLab, DKFZ W192) started work in January 2018. Funding for the scOpenLab staff is generously provided by DKFZ-HIPO (

The lab is headed by Jan-Philipp Mallm ( and is located in the Bioquant in room 423 on the 4th floor. The scOpenLab offers assisted access to instrumentation for processing the cells and preparing the libraries for sequencing to all DKFZ groups. To do these experiments successfully there will be regular training sessions. After the training systems can be booked at the scOpenLab.


Currently, workflows for 3’-UMI single-cell RNA seq and T-cell receptor profiling with the 10x Genomics Chromium system ( as well as scRNA-seq on the Fluidigm C1 system ( are available. The portfolio of techniques and machines will be constantly updated and expanded in close interactions with the sc-seq community at the DKFZ. While the staff costs are covered by DKFZ-HIPO, the consumables for the experiments have to be bought by the individual users. Usage of the 10x Genomics system for University of Heidelberg researchers is via David Ibberson at the Cellnetworks Deep Sequencing Core Facility and for the EMBL via their Genomics Core Facility.

Training schedule

General introduction into the scOpenLab: Bioquant, Seminar room 041, 24th January at 9 AM.

The first training session for scRNA-seq on the Chromium drop-seq system will take place on 24th January 2018 at 11 AM. Due to the high amount of requests, already five hands-on training sessions are fully booked. If you are interested to participate in any further trainings, please send an email to - we will add you to the waiting list and get back to you as soon as possible.

Additional information and protocols


Jan-Philipp Mallm

scOpenLab (W192)

Im Neuenheimer Feld 267

69120 Heidelberg


BioQuant room 423

Tel.: +49-6221-54-51321
e-mail: scopenlab (at)