Ghent University Academic Bibliography

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A comparison of embedding aggregation strategies in drug-target interaction prediction

Dimitrios Iliadis (UGent) , Bernard De Baets (UGent) , Tapio Pahikkala and Willem Waegeman (UGent)

(2024) BMC BIOINFORMATICS. 25(1).
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Assessing the reliability of point mutation as data augmentation for deep learning with genomic data

Hyunjung Lee, Utku Özbulak, Homin Park (UGent) , Stephen Depuydt (UGent) , Wesley De Neve (UGent) and Joris Vankerschaver (UGent)

(2024) BMC BIOINFORMATICS. 25(1).
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CRISPR-Cas-Docker : web-based in silico docking and machine learning-based classification of crRNAs with Cas proteins

Homin Park (UGent) , Jong Bum Won, Yunseol Park, Esla Timothy Anzaku (UGent) , Joris Vankerschaver (UGent) , Arnout Van Messem (UGent) , Wesley De Neve (UGent) and Hyunjin Shim (UGent)

(2023) BMC BIOINFORMATICS. 24(1).
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VariantscanR : an R-package as a clinical tool for variant filtering of known phenotype-associated variants in domestic animals

Fréderique Boeykens (UGent) , Sofie Bhatti (UGent) , Luc Peelman (UGent) and Bart Broeckx (UGent)

(2023) BMC BIOINFORMATICS. 24(1).
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Pan-genome de Bruijn graph using the bidirectional FM-index

Lore Depuydt (UGent) , Luca Renders (UGent) , Thomas Abeel (UGent) and Jan Fostier (UGent)

(2023) BMC BIOINFORMATICS. 24(1).
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DeltaMSI : artificial intelligence-based modeling of microsatellite instability scoring on next-generation sequencing data

Koen Swaerts, Franceska Dedeurwaerdere, Dieter De Smet, Peter De Jaeger and Geert Martens (UGent)

(2023) BMC BIOINFORMATICS. 24(1).
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SUBATOMIC : a SUbgraph BAsed mulTi-OMIcs clustering framework to analyze integrated multi-edge networks

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

(2022) BMC BIOINFORMATICS. 23(1).
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FragGeneScanRs : faster gene prediction for short reads

Felix Van der Jeugt, Peter Dawyndt (UGent) and Bart Mesuere (UGent)

(2022) BMC BIOINFORMATICS. 23(1).
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DECONbench : a benchmarking platform dedicated to deconvolution methods for tumor heterogeneity quantification

Clémentine Decamps, Alexis Arnaud, Florent Petitprez, Mira Ayadi, Aurélia Baurès, Lucile Armenoult, N. Alcala, A. Arnaud, Francisco Avila Cobos (UGent) , Luciana Batista, et al.

(2021) BMC BIOINFORMATICS. 22(1).
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Conditional permutation importance revisited

Dries Debeer (UGent) and Carolin Strobl

(2020) BMC BIOINFORMATICS. 21(1).

Academic Bibliography

A comparison of embedding aggregation strategies in drug-target interaction prediction

Assessing the reliability of point mutation as data augmentation for deep learning with genomic data

CRISPR-Cas-Docker : web-based in silico docking and machine learning-based classification of crRNAs with Cas proteins

VariantscanR : an R-package as a clinical tool for variant filtering of known phenotype-associated variants in domestic animals

Pan-genome de Bruijn graph using the bidirectional FM-index

DeltaMSI : artificial intelligence-based modeling of microsatellite instability scoring on next-generation sequencing data

SUBATOMIC : a SUbgraph BAsed mulTi-OMIcs clustering framework to analyze integrated multi-edge networks

FragGeneScanRs : faster gene prediction for short reads

DECONbench : a benchmarking platform dedicated to deconvolution methods for tumor heterogeneity quantification

Conditional permutation importance revisited

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