Malte D Luecken

Joined

August 2021

Names

Malte D Luecken (Preferred)

Emails

****@helmholtz-muenchen.de (Confirmed)

Personal Links

Google Scholar

ORCID

Career & Education History

Postdoc

Helmholtz Center Munich (helmholtz-muenchen.de)

2018 – 2021

Researcher

UCB Pharma (ucb.com)

2016 – 2018

PhD student

University of Oxford (oxford.ac.uk)

2012 – 2016

Advisors, Relations & Conflicts

Postdoc Advisor

Fabian Theis

2018 – 2021

Expertise

Representation learning

batch removal

latent space modeling

2020 – 2021

Single cell biology

Data analysis

Pipelines

2017 – 2021

Network analysis

Biological networks

2012 – 2018

Publications

Defining and benchmarking open problems in single-cell analysis
Malte D Luecken, Scott Gigante, Daniel Dimitrov, Yvan Saeys, Fabian J Theis, Smita Krishnaswamy
- Nature Biotechnology
- Readers: Everyone
Feature selection methods affect the performance of scRNA-seq data integration and querying
Luke Zappia, Sabrina Richter, Ciro Ramírez-Suástegui, Raphael Kfuri-Rubens, Weixu Wang, Oliver Dietrich, Amit Frishberg, Malte D Luecken, Fabian J Theis
- Nature Methods
- Readers: Everyone
Great patients embed alike: contrastive learning for sample representation from single-cell data
Vladimir Shitov, Mohammad Moghareh Dehkordi, Benjamin M Frey, Till Richter, Emma Maria Schonner, Youssef Naciri Zerta, Malte D Luecken
- ICLR 2026 Conference Withdrawn Submission
- Readers: Everyone
Beyond Visual Inspection: Principled Benchmarking of Single-Cell Trajectory Representations with scTRAM
Kemal Inecik, Malte D Luecken, Fabian J Theis
- GenBio 2025 Poster
- Readers: Everyone
Benchmarking Sample Representations from Single-Cell Data: Metrics for Biologically Meaningful Embeddings
Vladimir Shitov, Mohammad Moghareh Dehkordi, Malte D Luecken
- ICLR 2025 Workshop LMRL
- Readers: Everyone
A benchmark for prediction of transcriptomic responses to chemical perturbations across cell types
Artur Szałata, Andrew Benz, Robrecht Cannoodt, Mauricio Cortes, Jason Fong, Sunil Kuppasani, Richard Lieberman, Tianyu Liu, Javier A. Mas-Rosario, Rico Meinl, Jalil Nourisa, Jared Tumiel, Tin M. Tunjic, Mengbo Wang, Noah Weber, Hongyu Zhao, Benedict Anchang, Fabian J Theis, Malte D Luecken, Daniel B Burkhardt
- NeurIPS 2024 Track Datasets and Benchmarks Spotlight
- Readers: Everyone
A sandbox for prediction and integration of DNA, RNA, and proteins in single cells
Malte D Luecken, Daniel Bernard Burkhardt, Robrecht Cannoodt, Christopher Lance, Aditi Agrawal, Hananeh Aliee, Ann T Chen, Louise Deconinck, Angela M Detweiler, Alejandro A Granados, Shelly Huynh, Laura Isacco, Yang Joon Kim, Dominik Klein, BONY DE KUMAR, Sunil Kuppasani, Heiko Lickert, Aaron McGeever, Honey Mekonen, Joaquin Caceres Melgarejo et al. (18 additional authors not shown)
- Published: 11 Oct 2021, Last Modified: 23 May 2023
- NeurIPS 2021 Datasets and Benchmarks Track (Round 2)
- Readers: Everyone

Co-Authors

View all 70 co-authors

Malte D Luecken

Names

Emails

Personal Links

Career & Education History

Advisors, Relations & Conflicts

Expertise

Publications

Defining and benchmarking open problems in single-cell analysis

Feature selection methods affect the performance of scRNA-seq data integration and querying

Great patients embed alike: contrastive learning for sample representation from single-cell data

Beyond Visual Inspection: Principled Benchmarking of Single-Cell Trajectory Representations with scTRAM

Benchmarking Sample Representations from Single-Cell Data: Metrics for Biologically Meaningful Embeddings

A benchmark for prediction of transcriptomic responses to chemical perturbations across cell types

A sandbox for prediction and integration of DNA, RNA, and proteins in single cells

Co-Authors