Academic Bibliography

Search 200 years of publications by Ghent University researchers.

dr. Jim Clauwaert

Faculty of Bioscience Engineering > Department of Data analysis and mathematical modelling

ORCID iD: 0000-0002-5876-1406

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- Book Chapter
ProD : a tool for predictive design of tailored promoters in Escherichia coli

Friederike Mey (UGent) , Jim Clauwaert (UGent) , Maarten Van Brempt, Michiel Stock (UGent) , Jo Maertens (UGent) , Willem Waegeman (UGent) and Marjan De Mey (UGent)

(2022) Prokaryotic gene regulation : methods and protocols. In Methods in Molecular Biology 2516. p.51-59
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- Journal Article
- A1
- open access
CpG transformer for imputation of single-cell methylomes

Gaetan De Waele (UGent) , Jim Clauwaert (UGent) , Gerben Menschaert (UGent) and Willem Waegeman (UGent)

(2022) BIOINFORMATICS. 38(3). p.597-603
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- Journal Article
- A1
- open access
Novel transformer networks for improved sequence labeling in genomics

Jim Clauwaert (UGent) and Willem Waegeman (UGent)

(2022) IEEE-ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS. 19(1). p.97-106
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Improving the performance of machine learning models for biotechnology : the quest for deus ex machina

Friederike Mey (UGent) , Jim Clauwaert (UGent) , Kirsten Van Huffel (UGent) , Willem Waegeman (UGent) and Marjan De Mey (UGent)

(2021) BIOTECHNOLOGY ADVANCES. 53.
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- Journal Article
- A1
- open access
Explainability in transformer models for functional genomics

Jim Clauwaert (UGent) , Gerben Menschaert (UGent) and Willem Waegeman (UGent)

(2021) BRIEFINGS IN BIOINFORMATICS. 22(5).
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- Miscellaneous
- open access
The quest for deus ex machina : harnessing the power of machine learning for synthetic biology

Friederike Mey (UGent) , Jim Clauwaert (UGent) , Kirsten Van Huffel, Willem Waegeman (UGent) and Marjan De Mey (UGent)

(2021)
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- Journal Article
- A1
- open access
Predictive design of sigma factor-specific promoters

Maarten Van Brempt, Jim Clauwaert (UGent) , Friederike Mey (UGent) , Michiel Stock (UGent) , Jo Maertens (UGent) , Willem Waegeman (UGent) and Marjan De Mey (UGent)

(2020) NATURE COMMUNICATIONS. 11(1).
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- Conference Paper
- C3
- open access
The quest for deus ex machina : harnessing the power of machine learning for synthetic biology

Friederike Mey (UGent) , Jim Clauwaert (UGent) , Kirsten Van Huffel, Willem Waegeman (UGent) and Marjan De Mey (UGent)

(2020) 5th Applied Synthetic Biology in Europe meeting (ASBE V), Abstracts.
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- PhD Thesis
- open access
Deep learning techniques for genome processing and annotation tasks in prokaryotes

Jim Clauwaert (UGent)

(2020)
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- Journal Article
- A1
- open access
DeepRibo : a neural network for precise gene annotation of prokaryotes by combining ribosome profiling signal and binding site patterns

Jim Clauwaert (UGent) , Gerben Menschaert (UGent) and Willem Waegeman (UGent)

(2019) NUCLEIC ACIDS RESEARCH. 47(6).

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