Postdoctoral Researcher in AI for Single-cell Epigenomics (m/f/d)
Postdoctoral Researcher in AI for Single-cell Epigenomics (m/f/d)
We are looking for a highly motivated postdoctoral researcher to join the Computational and Developmental Biology group at the Max Delbrück Center for Molecular Medicine (MDC) in Berlin. Our interdisciplinary team develops innovative computational approaches to reconstruct tissue trajectories from multimodal single-cell and spatial omics data and to uncover the regulatory mechanisms driving cellular differentiation during vertebrate embryonic development. In this project, you will develop quantitative machine learning models to study how different layers of epigenetic regulation shape cell fate decisions. In close collaboration with experimental groups, you will work with large-scale multiome datasets from mouse and zebrafish embryos, including single-cell measurements of chromatin accessibility, promoter activity, histone modifications, and chromatin topology.
During your daily work, you will:
- develop sequence-to-function deep learning models (e.g. Borzoi-, Enformer-, or AlphaGenome-style) to predict single-cell chromatin accessibility, histone modifications, higher-order chromatin organization, and gene expression in mouse and zebrafish embryos
- design and perform large-scale _in silico_ perturbation experiments, including motif ablation, virtual transcription factor knock-outs, and regulatory-element screening, to generate mechanistic hypotheses
- analyse experimental perturbation datasets from in-house projects and collaborations, including perturbations of histone modifiers and developmental signalling pathways such as Nodal, BMP, FGF, WNT, and retinoic acid
- compare mouse and zebrafish embryogenesis to identify conserved and species-specific regulatory programs
- collaborate closely with experimental researchers to design validation experiments and refine predictive models
- contribute actively to a highly interdisciplinary and collaborative environment of computational and experimental biologists
- PhD (or MSc with several years of working experience) in computational or natural sciences with a strong computational / quantitative focus
- Strong programming skills in Python or R; experience with a modern deep-learning framework; experience in building efficient and reusable software is a plus
- Solid background in machine learning
- Experience with the analysis of high-throughput sequencing data (single-cell RNA-seq, ATAC-seq, multiome) is highly desirable
- Interest in genomics, gene regulation and/or developmental biology
- Ability to work both independently and collaboratively in an interdisciplinary team
- a remuneration in accordance with the collective agreement for the federal public service (TVöD-Bund), including additional company pension schemes
- a secure job
- flexible working hours and childcare support
- the possibility of mobile working
- an idyllic green campus, which is easily accessible by bicycle, public transport or car
- free use of Nextbike from the Buch S-Bahn station to the campus
- Subsidy for the job ticket as well as discounts in the campus canteen
- On-campus health and fitness center
- additional health benefits such as flu vaccination, eye test, ergonomics advice at the workplace
If you have a foreign degree, please submit proof of the recognition of your Master's degree in Germany with your application. The proof can be determined via the anabin database and can be submitted as a PDF attachment to the application. Further information can be found at Recognition of Degrees and Achievments.
For information on fair mobility, click here: https://www.fair-labour-mobility.eu/.
www.mdc-berlin.de https://www.mdc-berlin.de/mittnenzweig
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