Ghent University Academic Bibliography

Journal Article
A1
open access

Cell-specific transcriptomics and knockout reveal aquaporin function in grass stomatal movements

Lei Ding, Maxime J. Laurent, Sylvain Legay, Stijn Aesaert, Julien Georgery, David Cohen, Laurens Pauwels, Didier Le Thiec, Valentin Couvreur, Dirk Inzé (UGent) , et al.

(2026) NEW PHYTOLOGIST.

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Journal Article
A1
open access

ELLIPSIS : robust quantification of splicing in scRNA-seq

Marie Van Hecke (UGent) , Niko Beerenwinkel, Thibault Lootens (UGent) , Jan Fostier (UGent) , Robrecht Raedt (UGent) and Kathleen Marchal (UGent)

(2025) BIOINFORMATICS. 41(2).

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Journal Article
A1
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Starship giant transposons dominate plastic genomic regions in a fungal plant pathogen and drive virulence evolution

Yukiyo Sato, Roos Bex (UGent) , Grardy C. M. van den Berg, Parthasarathy Santhanam, Monica Höfte (UGent) , Michael F. Seidl and Bart P. H. J. Thomma

(2025) NATURE COMMUNICATIONS. 16(1).

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Journal Article
A1
open access

Asymmetric genome merging leads to gene expression novelty through nucleo‐cytoplasmic disruptions and transcriptomic shock in Chlamydomonas triploids

Lucas Prost Boxoen (UGent) , Quinten Bafort (UGent) , Antoine Van de Vloet (UGent) , Fabricio De Almeida Silva (UGent) , Yunn Thet Paing (UGent) , Griet Casteleyn (UGent) , Sofie D'hondt (UGent) , Olivier De Clerck (UGent) and Yves Van de Peer (UGent)

(2025) NEW PHYTOLOGIST. 245(22). p.869-884

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Journal Article
A1
open access

Cadmium sub-lethal effects on Daphnia magna : a new take on an old subject

Albano Pinto, Inês P.E. Macário, Guilherme Jeremias, Sérgio M. Marques, Joana Lourenço, Ana Rita Guimarães, Sofia L. Marques, Gabriela Moura, Jana Asselman (UGent) , Patrícia Pereira, et al.

(2025) ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY. 308.

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Journal Article
A1
open access

Comparative biology needs de novo transcriptome assemblies : drawing attention towards amphibians

Maria Torres-Sanchez, Sandra Goutte, H. Christoph Liedtke, Steven J. R. Allain, Md. Sabbir Ahammed, Natalie Calatayud, Aaron Comeault, Kathryn Elmer, Paula C. Eterovick, Edward Gilbert, et al.

(2025) AMPHIBIA-REPTILIA. 46(3). p.283-301

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Journal Article
A1
open access

Immunomodulation by glucocorticoid-induced leucine zipper in macrophages : enhanced phagocytosis, protection from pyroptosis, and altered mitochondrial function

Thierry M. Legroux, Hanna S. Schymik, Gilles Gasparoni, Saeed Mohammadi, Joern Walter, Claude Libert (UGent) , Britta Diesel, Jessica Hoppstaedter and Alexandra K. Kiemer

(2024) FRONTIERS IN IMMUNOLOGY. 15.

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Journal Article
A1
open access

Single-cell transcriptomics reveals heterogeneity in plant responses to the environment : a focus on biotic and abiotic interactions

Rubén Tenorio Berrio (UGent) and Marieke Dubois (UGent)

(2024) JOURNAL OF EXPERIMENTAL BOTANY. 75(17). p.5188-5203

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A1
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A single-cell multimodal view on gene regulatory network inference from transcriptomics and chromatin accessibility data

Jens Uwe Loers (UGent) and Vanessa Vermeirssen (UGent)

(2024) BRIEFINGS IN BIOINFORMATICS. 25(5).

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Journal Article
A1
open access

Assessment of transcriptional reprogramming of lettuce roots in response to chitin soil amendment

Leilei Li (UGent) , Moritz Kaufmann, Moffat Makechemu, Christof Van Poucke (UGent) , ellen de keyser (UGent) , Mieke Uyttendaele (UGent) , Cyril Zipfel, Bart Cottyn (UGent) and Joël F. Pothier

(2023) FRONTIERS IN PLANT SCIENCE. 14.

Academic Bibliography

Cell-specific transcriptomics and knockout reveal aquaporin function in grass stomatal movements

ELLIPSIS : robust quantification of splicing in scRNA-seq

Starship giant transposons dominate plastic genomic regions in a fungal plant pathogen and drive virulence evolution

Asymmetric genome merging leads to gene expression novelty through nucleo‐cytoplasmic disruptions and transcriptomic shock in Chlamydomonas triploids

Cadmium sub-lethal effects on Daphnia magna : a new take on an old subject

Comparative biology needs de novo transcriptome assemblies : drawing attention towards amphibians

Immunomodulation by glucocorticoid-induced leucine zipper in macrophages : enhanced phagocytosis, protection from pyroptosis, and altered mitochondrial function

Single-cell transcriptomics reveals heterogeneity in plant responses to the environment : a focus on biotic and abiotic interactions

A single-cell multimodal view on gene regulatory network inference from transcriptomics and chromatin accessibility data

Assessment of transcriptional reprogramming of lettuce roots in response to chitin soil amendment

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