Author

Rainer Schwacke

Forschungszentrum Jülich

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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Plant Biology· 2 Bioinformatics· 1

Signature Assays, Organisms & Methods

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Research Focus:gene regulatory network inference· 2 Organism:plant (other)· 2 Assay:whole-genome sequencing· 2 Organism:Arabidopsis· 1 Approach:benchmark study· 1 Research Focus:database / resource· 1 Approach:deep learning· 1 Approach:experimental assay· 1

Frequent Co-Authors

Björn UsadeliD· 2 shared Marie BolgeriD· 2 shared Alisandra K. DentoniD· 1 shared Andreas P.M. WeberiD· 1 shared Anna I PrattiD· 1 shared Anthony Bolger· 1 shared Benjamin BrandtiD· 1 shared Carina Engstler· 1 shared

Activity by Year

2025-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 20 mutual co-author links

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2 shared papersBioinformatics

Björn UsadelORCID

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Author profile →

3 papers

Recent·Most cited

pamiR: INVESTIGATING PLANT CELLS ONE ORGANELLE AT A TIME

Benjamin Brandt, Anna I Pratt, Carina Engstler, Deborah Schwarz, Dominik Schneider, Felix Hauser, Chase L. Lewis, Chance M. Lewis, Serena Schwenkert, Rainer Schwacke, Hans‐Henning Kunz

The paper introduces pamiR, a resource for plastid-specific gene silencing in plants, and demonstrates its use in identifying gene family members involved in plant physiology.

bioRxiv · Oct 26, 2026 · PreprintPlant Biology

Helixer--de novo Prediction of Primary Eukaryotic Gene Models Combining Deep Learning and a Hidden Markov Model

Felix Holst, Anthony Bolger, Felicitas Kindel, Christopher Günther, Janina Maß, Sebastian ST Triesch, Niklas Kiel, Nima P. Saadat, Oliver Ebenhöh, Björn Usadel, Rainer Schwacke, Andreas P.M. Weber, Marie Bolger, Alisandra K. Denton

Helixer, a hybrid convolutional/bLSTM network with a hidden Markov model post-processor, predicts eukaryotic primary gene models from DNA alone, outscoring GenemarkES and AUGUSTUS on most species.

Nature Methods · Nov 24, 2025Peer-reviewedBioinformatics✦ In-depth digest

PubPlant: a continuously updated online resource for sequenced and published plant genomes

Rainer Schwacke, Marie Bolger, Björn Usadel

PubPlant catalogs over 1800 sequenced plant genomes, offering visualizations and phylogenetic insights, and highlights gaps in food crop genome sequencing.

Frontiers in Plant Science · Jun 24, 2025Peer-reviewedPlant Biology