Author

T. Depuydt

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· 3 Evolutionary Biology· 1

Signature Assays, Organisms & Methods

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Approach:statistical model· 4 Research Focus:cell type annotation· 3 Research Focus:gene regulatory network inference· 3 Organism:Arabidopsis· 2 Approach:deep learning· 2 Assay:DNA methylation· 2 Approach:benchmark study· 1 Assay:bulk RNA-seq· 1

Frequent Co-Authors

K. Vandepoele· 4 shared N. Manosalva Perez· 2 shared C. M. Osuna-Cruz· 1 shared E. Vancaester· 1 shared J. Staut· 1 shared L. Liu· 1 shared M. Crespi· 1 shared M. Heidecker· 1 shared

Activity by Year

2020-2023 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 23 mutual co-author links

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4 shared papersPlant Biology

K. Vandepoele

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4 papers

Recent·Most cited

MINI-EX version 2: cell-type-specific gene regulatory network inference using an integrative single-cell transcriptomics approach

J. Staut, N. Manosalva Perez, T. Depuydt, K. Vandepoele, S. Lukicheva

MINI-EX version 2 infers cell-type-specific gene regulatory networks in plants using single-cell transcriptomics and TF motif integration, improving accuracy and enabling analysis of non-model species.

bioRxiv · Dec 24, 2023 · PreprintPlant Biology

Regulatory annotation identifies KAN1, MYB44 and PIF4 as regulators of Arabidopsis lincRNAs expressed in root

L. Liu, M. Heidecker, T. Depuydt, N. Manosalva Perez, M. Crespi, T. Blein, K. Vandepoele

The paper constructs a gene regulatory network in Arabidopsis to identify TFs regulating root-specific lincRNAs, revealing key regulators and their associated lincRNAs linked to root development.

bioRxiv · Sep 9, 2022 · PreprintPlant Biology

Multi-omics network-based functional annotation of unknown Arabidopsis genes

T. Depuydt, K. Vandepoele

This paper develops an automated function prediction algorithm for Arabidopsis genes using multi-omics data, annotating 42.6% of unknown genes with validated functions.

bioRxiv · Jun 17, 2021Plant Biology

Systematic and functional analysis of horizontal gene transfer events in diatoms.

E. Vancaester, C. M. Osuna-Cruz, T. Depuydt, K. Vandepoele

This study systematically analyzes horizontal gene transfer in diatoms, finding that 3-5% of their proteome has horizontal origin and HGT contributes to metabolic expansion and ecological success.

bioRxiv · Jan 24, 2020Evolutionary Biology