Author

Niklas Kiel

Cluster of Excellence on Plant SciencesORCID 0000-0002-8153-8835Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Bioinformatics· 1 Microbiology· 1

Signature Assays, Organisms & Methods

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Organism:Arabidopsis· 1 Approach:deep learning· 1 Approach:experimental assay· 1 Research Focus:gene regulatory network inference· 1 Organism:multiple species· 1 Organism:plant (other)· 1 Research Focus:sequence-to-function modeling· 1 Research Focus:software / tool· 1

Frequent Co-Authors

Alisandra K. DentoniD· 1 shared Andreas P.M. WeberiD· 1 shared Anthony Bolger· 1 shared Björn UsadeliD· 1 shared Christopher Günther· 1 shared Felicitas KindeliD· 1 shared Felix Holst· 1 shared Janina MaßiD· 1 shared

Activity by Year

2025-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 36 mutual co-author links

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1 shared paperBioinformatics

Alisandra K. DentonORCID

Mutual co-authors in cluster

Author profile →

2 papers

Recent·Most cited

Experimental evolution of root-associated microbial communities

Niklas Kiel, Kathrin Wippel, Rubén Garrido‐Oter

This study uses experimental evolution to show that complex microbial communities can adapt to new plant hosts through genomic changes, improving colonization fitness without destabilizing the microbiota.

bioRxiv · Sep 19, 2026 · PreprintMicrobiology

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