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Single-Cell Open Lab

Dr. Jan-Philipp Mallm

We provide specialized support for diverse single-cell sequencing methods, including spatial omics, tailored specifically for cancer research. Our services encompass project design, training, and implementation of techniques, prioritizing the exploration of tumor heterogeneity and resistance to chemotherapy. Through advanced automation and chemistry, we deliver comprehensive workflows from tissue to sequencing libraries.

Research Strategy

The Single-cell Open Lab provides technical infrastructure and expertise for single-cell sequencing workflows which includes droplet and plate-based techniques as well as spatial omics. We offer support in project design, grant proposal, and proof-of-concept experiments, training of users, and implementation of new techniques tailored to cancer research. Our aim is to provide complete workflows from tissues to read-to-sequence libraries. Central chemistry and optimized tissue preparations are available alongside automated library preparation frameworks. Scientifically, we focus on tumor heterogeneity in the context of resistance toward chemotherapy

 

Project Leader

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Prof. Dr. Jean Philipp Mallm

Phone:  +49 6221 54 51322

Email:  jan-philipp.mallm@bioquant.uni-heidelberg.de

Room:  BioQuant, room 423-425

Site:  https://www.dkfz.de/en/single-cell-sequencing/open-lab.html

Selected Publications

NASH limits anti-tumour surveillance in immunotherapy-treated HCC 

Dominik Pfister, Nicolás Gonzalo Núñez, Roser Pinyol, Olivier Govaere, Matthias Pinter, Marta Szydlowska, Revant Gupta, Mengjie Qiu, Aleksandra Deczkowska, Assaf Weiner, Florian Müller, Ankit Sinha, Ekaterina Friebel, Thomas Engleitner, Daniela Lenggenhager, Anja Moncsek, Danijela Heide, Kristin Stirm, Jan Kosla, Eleni Kotsiliti, Valentina Leone, Michael Dudek, Suhail Yousuf, Donato Inverso, …Mathias Heikenwalder 

Nature volume 592, pages 450–456 (2021)

Subclone-specific microenvironmental impact and drug response in refractory multiple myeloma revealed by single‐cell transcriptomics

Stephan M. Tirier, Jan-Philipp Mallm, Simon Steiger, Alexandra M. Poos, Mohamed H. S. Awwad, Nicola Giesen, Nicola Casiraghi, Hana Susak, Katharina Bauer, Anja Baumann, Lukas John, Anja Seckinger, Dirk Hose, Carsten Müller-Tidow, Hartmut Goldschmidt, Oliver Stegle, Michael Hundemer, Niels Weinhold, Marc S. Raab & Karsten Rippe 

Nature Communications volume 12, Article number: 6960 (2021)

Dissecting intratumour heterogeneity of nodal B-cell lymphomas at the transcriptional, genetic and drug-response levels 

Tobias Roider, Julian Seufert, Alexey Uvarovskii, Felix Frauhammer, Marie Bordas, Nima Abedpour, Marta Stolarczyk, Jan-Philipp Mallm, Sophie A Herbst, Peter-Martin Bruch, Hyatt Balke-Want, Michael Hundemer, Karsten Rippe, Benjamin Goeppert, Martina Seiffert, Benedikt Brors, Gunhild Mechtersheimer, Thorsten Zenz, Martin Peifer, Björn Chapuy, Matthias Schlesner, Carsten Müller-Tidow, Stefan Fröhling, Wolfgang Huber, Simon Anders, Sascha Dietrich 

Nat Cell Biol. 2020 Jul;22(7):896-906.