Ghent University Academic Bibliography

Your filters: cql: author exact 352760E4-F0EE-11E1-A9DE-61C894A0A6B4

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- Conference Paper
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Prior Knowledge Injection into Deep Learning Models Predicting Gene Expression from Whole Slide Images

Max Hallemeesch, Marija Pizurica (UGent) , Paloma Rabaey (UGent) , Olivier Gevaert, Thomas Demeester (UGent) and Kathleen Marchal (UGent)

(2025) Imageomics-AAAI-25 , Discovering Biological Knowledge from Images using AI, part of AAAI 2025.
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- Journal Article
- A1
- open access
Assessing the authenticity and purity of a commercial Bacillus thuringiensis bioinsecticide through whole genome sequencing and metagenomics approaches

Yari Van Laere (UGent) , Marie-Alice Fraiture, Andrea Gobbo, Sigrid C. J. De Keersmaecker, Kathleen Marchal (UGent) , Nancy H. C. Roosens and Kevin Vanneste

(2025) FRONTIERS IN MICROBIOLOGY. 16.
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- Journal Article
- A1
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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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Strain-level characterization of foodborne pathogens without culture enrichment for outbreak investigation using shotgun metagenomics facilitated with nanopore adaptive sampling

Florence Buytaers, Bavo Verhaegen (UGent) , Tom Van Nieuwenhuysen (UGent) , Nancy H. C. Roosens, Kevin Vanneste, Kathleen Marchal (UGent) and Sigrid C. J. De Keersmaecker

(2024) FRONTIERS IN MICROBIOLOGY. 15.
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Benchmarking bacterial taxonomic classification using nanopore metagenomics data of several mock communities

Alexander Van Uffelen (UGent) , Andres Posadas Yabar (UGent) , Nancy H. C. Roosens, Kathleen Marchal (UGent) , Sigrid C. J. De Keersmaecker and Kevin Vanneste

(2024) SCIENTIFIC DATA. 11(1).
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- Miscellaneous
Synthetic multimodal data modelling for data imputation

Francisco Carrillo-Perez, Marija Pizurica (UGent) , Kathleen Marchal (UGent) and Olivier Gevaert

(2024) NATURE BIOMEDICAL ENGINEERING.
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- Journal Article
- A1
- open access
Digital profiling of gene expression from histology images with linearized attention

Marija Pizurica (UGent) , Yuanning Zheng, Francisco Carrillo-Perez, Humaira Noor, Wei Yao, Christian Wohlfart, Antoaneta Vladimirova, Kathleen Marchal (UGent) and Olivier Gevaert

(2024) NATURE COMMUNICATIONS. 15(1).
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- Journal Article
- A1
- open access
Transforming Shiga toxin-producing Escherichia coli surveillance through whole genome sequencing in food safety practices

Stéphanie Nouws (UGent) , Bavo Verhaegen (UGent) , Sarah Denayer, Florence Crombé (UGent) , Denis Piérard (UGent) , Bert Bogaerts, Kevin Vanneste (UGent) , Kathleen Marchal (UGent) , Nancy H. C. Roosens and Sigrid C. J. De Keersmaecker

(2023) FRONTIERS IN MICROBIOLOGY. 14.
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- A1
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Expression divergence of expansin genes drive the heteroblasty in Ceratopteris chingii

Yue Zhang, Yves Van de Peer (UGent) , Bei Lu, Sisi Zhang, Jingru Che, Jinming Chen, Kathleen Marchal (UGent) and Xingyu Yang

(2023) BMC BIOLOGY. 21(1).
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- Journal Article
- A1
- open access
Competitive interactions facilitate resistance development against antimicrobials

Luka Svet, Ilse Parijs, Simon Isphording, Bram Lories, Kathleen Marchal (UGent) and Hans P. Steenackers

(2023) APPLIED AND ENVIRONMENTAL MICROBIOLOGY. 89(10).

Academic Bibliography

Prior Knowledge Injection into Deep Learning Models Predicting Gene Expression from Whole Slide Images

Assessing the authenticity and purity of a commercial Bacillus thuringiensis bioinsecticide through whole genome sequencing and metagenomics approaches

ELLIPSIS : robust quantification of splicing in scRNA-seq

Strain-level characterization of foodborne pathogens without culture enrichment for outbreak investigation using shotgun metagenomics facilitated with nanopore adaptive sampling

Benchmarking bacterial taxonomic classification using nanopore metagenomics data of several mock communities

Synthetic multimodal data modelling for data imputation

Digital profiling of gene expression from histology images with linearized attention

Transforming Shiga toxin-producing Escherichia coli surveillance through whole genome sequencing in food safety practices

Expression divergence of expansin genes drive the heteroblasty in Ceratopteris chingii

Competitive interactions facilitate resistance development against antimicrobials

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