Author

Daniela Ludwig

Charité – Universitätsmedizin Berlin

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Systems Biology· 2 Bioinformatics· 1 Genetics· 1

Signature Assays, Organisms & Methods

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Assay:proteomics· 4 Research Focus:benchmarking· 2 Research Focus:differential expression· 2 Approach:experimental assay· 2 Research Focus:gene regulatory network inference· 2 Approach:statistical model· 2 Organism:yeast· 2 Assay:bulk RNA-seq· 1

Frequent Co-Authors

Markus RalseriD· 4 shared Michael MüllederiD· 3 shared Vadim DemicheviD· 2 shared Agathe NiewiendaiD· 1 shared Aleksandra F. DabrowskaiD· 1 shared Alexey I. NesvizhskiiiD· 1 shared Anja Freiwald· 1 shared Anjali Chelur· 1 shared

Activity by Year

2022-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 23 mutual co-author links

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4 shared papersSystems Biology

Markus RalserORCID

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Author profile →

4 papers

Recent·Most cited

Bro1-Mediated Trafficking Couples TOR Signalling to Cellular Metabolism and Longevity

Kristal Ng, Juhi Kumar, Aleksandra F. Dabrowska, Jose Clemente-Ramos, Rowshan Ara Islam, Olga Xintarakou, Anja Freiwald, Natalie Bartel, Daniela Ludwig, Despina Stamataki, John Patrick Alao, Peter Harold Thorpe, Markus Ralser, Michael Mülleder, Sara Mole, Charalampos Rallis

This study identifies Bro1 as a central integrator linking TOR signalling to metabolic adaptation and longevity in fission yeast.

bioRxiv · Jan 12, 2026 · PreprintGenetics

Performance Characteristics of Zeno Trap Scanning DIA for Sensitive and Quantitative Proteomics at High Throughput

Ludwig Roman Sinn, Z. Wang, Claudia Alvarez, Anjali Chelur, Ihor Batruch, Patrick A. Pribil, Daniela Ludwig, Stephen A. Tate, Jose M. Castro‐Perez, Christoph B. Messner, Vadim Demichev, Markus Ralser

The paper evaluates ZT Scan DIA, a proteomics method combining scanning DIA with ion trapping, showing improved precursor and protein identification, quantification, and bias reduction in multi-species mixtures.

PROTEOMICS · Dec 26, 2025Peer-reviewedSystems Biology

Species-wide quantitative transcriptomes and proteomes reveal distinct genetic control of gene expression variation in yeast

Élie Teyssonnière, Pauline Trébulle, Julia Muenzner, Victor Loegler, Daniela Ludwig, Fatma Amari, Michael Mülleder, Anne Friedrich, Jing Hou, Markus Ralser, Joseph Schacherer

The paper quantifies transcriptomes and proteomes across 942 yeast isolates, showing weak correlation between mRNA and protein levels and distinct genetic control mechanisms.

Proceedings of the National Academy of Sciences · May 2, 2024Peer-reviewedSystems Biology

High sensitivity dia-PASEF proteomics with DIA-NN and FragPipe

Vadim Demichev, Łukasz Szyrwiel, Fengchao Yu, Guo Ci Teo, George Rosenberger, Agathe Niewienda, Daniela Ludwig, Jens Decker, Stephanie Kaspar‐Schoenefeld, Kathryn Susan Lilley, Michael Mülleder, Alexey I. Nesvizhskii, Markus Ralser

The paper demonstrates improved proteomic depth using DIA-NN and FragPipe for dia-PASEF data, achieving higher sensitivity and quantification in complex samples.

Nature Communications · Jul 8, 2022Peer-reviewedBioinformatics