Team

José Luis López

Image: José Luis López

Project: Metabolic modeling and carbon use efficiency in soils

Paper: José Luis López , Arista Fourie, Sanne WM 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 associations 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 Center 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 defense 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 defense 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