Team

José Luis López

Image: José Luis López

Project: Metabolic modeling and carbon use efficiency in soils

Paper: José Luis López, Arista Fourie, Sanne W.M. Poppeliers et al. (2023): Growth rate is a dominant factor predicting the rhizosphere effectExternal link. ISME J. doi: 10.1038/s41396-023-01453-6External link

Current position: José is a researcher at CONICETExternal link, he started his career at IBBMExternal link, and now works at IPATECExternal link in Bariloche, Argentina. His main focus is on how to use seed endophytes to promote plant growth and protection.

Susanna R. Grigson

Image: Susanna R. Grigson

Project: inferring bacteriophage functions from protein-protein interactions

Papers: Susanna R. Grigson, Jody C. McKerral, James G. Mitchell, and Robert A. Edwards (2022): Organizing the bacterial annotation space with amino acid sequence embeddingsExternal link, BMC bioinformatics 23(1): 385, doi: 10.1186/s12859-022-04930-5External link.

Current position: Susie is a PhD student at Flinders UniversityExternal link in Australia. Read more about Susie and her work here.

Dan Liu

Image: Dan Liu

Project: Virus-host interactions

Papers: Dan Liu, Francesca Young, David L. Robertson, and Ke Yuan. (2023): Prediction of virus-host association using protein language models and multiple instance learning.External link bioRxiv 2023-04. doi:  doi.org/10.1101/2023.04.07.536023External link

Dan Liu, Yingjun Ma, Xingpeng Jiang, and Tingting He. (2019): Predicting virus-host association by Kernelized logistic matrix factorization and similarity network fusionExternal link. BMC bioinformatics 20  1-10. doi: https://doi.org/10.1186/s12859-019-3082-0External link

Current position: Dan is an Early Stage Researcher of the VIROINFExternal link. She is currently a PhD in virology at MRC-University of Glasgow Centre for Virus ResearchExternal link (UK). Her main focus is on predicting virus-host interactions using protein language models.

Cédric Lood

Image: Cédric Lood

Project: Bacterial defence systems

Paper: Dann Turner, Andre N. Shkoporov, Cédric Lood. et al. (2023): Abolishment of morphology-based taxa and change to binomial species namesExternal link, Arch Virol 168, 74, doi: doi.org/10.1007/s00705-022-05694-2External link

Current position: Cédric is a postdoctoral fellow of the FWOExternal link. He is currently working at the Lab of Gene Technology, KU LeuvenExternal link (Belgium). His main focus in on phage-bacteria interactions in the clinical context of phage therapy against ESKAPE pathogens.

Adéla Finstrlova

Image: Adéla Finstrlova

Project: Phage defence systems

Papers: to be done

Current position: Adéla is working in Brno, Czechia in the Laboratory of Molecular Diagnostics of MicroorganismsExternal link as a researcher. Her main focus is on phage-host interaction, she primarily studies bacteria from genus Staphylococcus and their phages.

David Appiah

Image: Sybille Huck

Project: Collect and gather time series data from scientific publications

Currently looking for a PhD student position