Genomics Technology platform

Janine Altmüller


The Genomics Technology Platform provides support to researchers from the Max Delbrück Center and BIH/Charité and is committed to implement key sequencing technologies and to establish state-of-the-art service pipelines.
We operate Illumina, Oxford Nanopore and PacBio platforms and offer standard as well as customized library preparation workflows to our users.
Single-cell multi-omics and spatial biology technologies are a major focus of our work. Our integrated FACS unit enables us to select and isolate cells on site. A broad range of state-of-the-art single-cell applications are available for downstream analyses.
We constantly implement novel techniques in collaborative research projects and are closely working with clinical researchers to translate these technologies into systems medicine. By providing a multi-omics view on the pathophysiology of patient or model system samples, we support clinical scientists to delineate the underlying mechanisms of diseases like cancer, cardiovascular events, or neurological disorders.

The facility comprises three teams: Next Generation Sequencing, Single-Cell Technologies and Data Management. 


Next Generation Sequencing Team (Dr. Tatiana Borodina)

We operate an impressive line of sequencing platforms (Illumina, PacBio, Oxford Nanopore), pipetting robots and analytical equipment. The team has extensive experience implementing novel protocols, automating library preparation, and methodological development.

Available services and technologies include:

  • Consultations on NGS-related questions;
  • Support in the experimental design of NGS projects;
  • QC for DNA and RNA samples and sequencing libraries;
  • Library preparation from bulk material for diverse -Seq applications:
    • RNA sequencing (e.g. mRNA-, totalRNA-, 3’mRNA-, miRNA-Seq),
    • DNA sequencing (e.g. whole genome, whole exome, amplicon, cfDNA),
    • Epigenome (ChIP-Seq, Methyl-Seq, direct RNA and DNA sequencing);
  • Short-read sequencing on Illumina instruments: iSeq, MiSeq, MiniSeq, NextSeq 2000, NovaSeq 6000, NovaSeq X plus;
  • Long-read sequencing on Pacific Biosciences Sequel II;
  • Long-read sequencing on Oxford Nanopore MinION and PromethION platforms


Single-Cell Technologies Team (Dr. Thomas Conrad)

The Single-cell technologies team provides access to an exceptionally wide range of cutting-edge single-cell and spatial multiomics approaches. To facilitate easy access for a broad user community, we provide close support from experimental design to sample preparation and data processing. In addition to regular services, we offer individual user training to enable independent access to our advanced instruments. Single-cell technologies are rapidly evolving; we therefore continuously implement novel approaches in the context of collaborative research projects.

Available services and technologies include:

  • Counseling on study design
  • Counseling on sample preparation
  • FACS
  • Droplet-based approaches (10X Genomics; Dolomite)
  • Plate-based assays (Smart-Seq2/3; G&T-Seq; scBS+T-Seq)
  • Spatial transcriptomics (10X Genomics Visium + Xenium; Nanostring GeoMx + CosMx)


Data Management Team (Dr. Marten Jäger)

The process of collection and processing of genomic data is still lacking sufficient level of standardisation. To close that gap, the group strives to implement automated software solutions for genomic data processing and analysis enabling effective introduction of quality control measures safeguarding reproducibility.

Regarding data management issues please contact

Please refrain from directly contacting individual members of the data management group to avoid lost inquiries.


Steering Committee

Christian Conrad
Stefanie Großwendt
Ute Scholl

Yo Lee
Ilaria Piazza
Nikolaus Rajewsky

Nils Blüthgen (Charité)
Anton Henssen (MDC/Charité)


The BIH/MDC Genomics Technology Platform, headed by Janine Altmüller, comprises three teams: Next Generation Sequencing, Single-Cell Technologies and Data Management, under the management of Tatiana Borodina, Thomas Conrad and Marten Jäger, respectively.

Bastian Salewsky
+49 30 9406 1342
MDC lab
PacBio and Oxford Nanopore sequencing | NGS library preparation | Nucleic acids isolation


Carola Dietrich 
+49 30 9406 1342
MDC lab
Single-cell genomics


Caroline Braeuning
+49 30 9406-3043
MDC lab
FACS unit manager


Catrin Janetzki
Charité lab
NGS library preparation | Illumina sequencing


Claudia Quedenau
+49 30 9406-3048
MDC lab
Safety and first aid | PacBio and Oxford Nanopore sequencing  | NGS library preparation


Cornelia Schlee
+49 30 450 669 048
Charité lab
NGS library preparation | Illumina sequencing


Cornelius Fischer 
+49 30 450 669 048
Data management


Elisabeth Kirst
+49 30 9406 2995
MDC lab
NGS library preparation | Illumina sequencing


Francesca Solinas
+49 30 9406 1320
MDC lab
Single-cell genomics


Izabela Plumbom
+49 30 9406 1320
MDC lab
Single-cell genomics | Spatial transcriptomics


Janine Altmüller
+49 30 9406 1434
Head of BIH/MDC Genomics Technology Platform


Jeannine Wilde
+49 30 9406 1321
MDC lab
Illumina sequencing coordination | NGS library preparation


Kirsten Richter
Lab administration


Lorena Derezanin
+49 30 450 669 048
Data management


Madlen Sohn
+49 30 9406-3266
MDC lab
NGS library preparation | Illumina sequencing


Marine Gil
+49 30 9406 3041
MDC lab
Single-cell genomics | Spatial transcriptomics


Marko Vukovic
MDC lab
Single-cell genomics


Marten Jäger
+49 30 450 569 048
Team leader Data management


Michaela Seeger-Zografakis
+49 30 9406 1324
MDC lab
FACS support 


Sarah Vitcetz
+49 30 9406 3041
MDC lab
Single-cell genomics | Spatial transcriptomics


Tatiana Borodina
+49 30 9406 1341
Team leader Next Generation Sequencing 


Thomas Conrad
+49 30 9406 1481
Team leader Single-cell Technologies


Ulrike Krüger
+49 30 450 643 507
Charité lab
Project coordination and Lab management | NGS library preparation | Illumina sequencing


Ute Ungethüm
+49 30 450 676 272
Charité lab
Coordination of large-scale projects (Charité lab) | Automation of nucleid acid extraction and QC assays



Next Generation Sequencing

Our services cover all stages of NGS projects, including experimental design, samples QC, library preparation and sequencing.

For consulting and assistance in planning of a sequencing experiment please contact us at or

NGS Services Prices

Actual pricelist valid for MDC and Charité users is available upon request.

Large-scale projects require individual cost calculation - please contact or


Services are currently ordered per email to or to  or to the members of the NGS team you are already in contact with.

Each service project has to be registered by filling the Project Registration Form and a relevant Sample Transfer Form – forms are sent out per email.

The specific number assigned by the NGS team to each project is used as a reference for further communication.

Turnaround time

Generally, the projects are processed in the order of samples (libraries) receipt.

Scheduling of sequencing libraries preparation for any platform depends on the current workload and equipment availability.

Illumina sequencing schedule depends on how fast the samples requiring the same sequencing mode are collected to fill up a flowcell. If your ready sequencing libraries occupy the whole flowcell, usually they can be sequenced within 1-2 weeks after the delivery.

Loading of ready libraries on PacBio and Oxford Nanopore PromethION is also usually possible within 1-2 weeks, depending on the sequencing queue.

Single-Cell Technologies

An increasing number of molecular modalities has become accessible by single-cell genomics in recent years. The resulting molecular signatures provide a comprehensive view on the individual cell types that together form a complex tissue, their functional states, interactions, and developmental trajectories.

Eventually, single-cell multi-omics approaches provide a unique opportunity to discover exclusive characteristics of a diseased cell state.

Available assays include the detection of gene expression profiles, open chromatin regions, DNA sequence, cell surface epitopes, or T- and B- cell receptor sequences, and combinations thereof for thousands of single-cells in parallel.

In addition, spatial transcriptomic approaches allow us to assay individual cells in their spatial context, and reconstruct tissue architecture and its changes in response to environmental cues or in disease states. 

Our integrated FACS unit enables us to perform initial quality control of single-cell preparations, and to select and isolate cell populations directly on site for droplet- or plate-based assays. 

As all single-cell projects require individual organization and individual project planning and sample handling, please contact Dr. Thomas Conrad – for further consultation.

Please contact Caroline Braeuning ( for access to FACS.

Dr. med. Janine Altmüller
Dr. med. Janine Altmüller