Alexandros Xenos

Max Planck Institute of Biochemistry

Department of Machine Learning and Systems Biology

Martinsried, Germany

I am a Postdoctoral Researcher at the Department of Machine Learning and Systems Biology at the Max Planck Institute of Biochemistry, led by Prof. Karsten Borgwardt.

Before joining the MPI, I was a postdoctoral researcher at the Barcelona Supercomputing Center (BSC) holding an AI4Science fellowship granted by the Spanish Ministry of Science. I obtained my PhD in Artificial Intelligence from the Department of Computer Science at the Polytechnic University of Catalonia (UPC). At UPC, I was advised by Prof. Natasa Przulj and was a member of the interdisciplinary research group Integrated Connectedness in Network Biology. During my PhD, I had the opportunity to spend some time at Harvard Medical School at the Zitnik Lab. I received my Diploma (BSc and MEng equivalent) in Applied Mathematical and Physical Sciences from the National Technical University of Athens. I completed my master thesis in the National Hellenic Research Foundation (NHRF) under the supervision of Prof. Aristotelis Chatziioannou.

news

Oct 2025	Joined the Department of Machine Learning and Systems Biology at the Max Planck Institute of Biochemistry as a Postdoctoral Researcher!
Dec 2024	Awarded the AI4Science Postdoctoral Fellowship by the Spanish Ministry of Science!
Feb 2024	Successfully defended my PhD thesis “Towards a Linear Embedding Space of Biological Networks” at the Polytechnic University of Catalonia (UPC), graded Summa Cum Laude!

selected publications

Bioinf. Adv.

The axes of biology: a novel axes-based network embedding paradigm to decipher the functional mechanisms of the cell

Sergio Doria-Belenguer, Alexandros Xenos, Gaia Ceddia, and 2 more authors

Bioinformatics Advances, 2024

DOI Bib

@article{doria2024axes,
  title = {The axes of biology: a novel axes-based network embedding paradigm to decipher the functional mechanisms of the cell},
  author = {Doria-Belenguer, Sergio and Xenos, Alexandros and Ceddia, Gaia and Malod-Dognin, No{\"e}l and Pr{\v{z}}ulj, Nata{\v{s}}a},
  journal = {Bioinformatics Advances},
  volume = {4},
  number = {1},
  pages = {vbae075},
  year = {2024},
  publisher = {Oxford University Press},
  doi = {10.1093/bioadv/vbae075},
}

arXiv

Simplifying complex machine learning by linearly separable network embedding spaces

Alexandros Xenos, Noel Malod-Dognin, and Natasa Przulj

arXiv preprint arXiv:2410.01865, 2024

DOI Bib

@article{xenos2024simplifying,
  title = {Simplifying complex machine learning by linearly separable network embedding spaces},
  author = {Xenos, Alexandros and Malod-Dognin, Noel and Przulj, Natasa},
  journal = {arXiv preprint arXiv:2410.01865},
  year = {2024},
  doi = {10.48550/arXiv.2410.01865},
}

IJMS

Integrated data analysis uncovers new COVID-19 related genes and potential drug re-purposing candidates

Alexandros Xenos, Noël Malod-Dognin, Carme Zambrana, and 1 more author

International Journal of Molecular Sciences, 2023

DOI Bib

@article{xenos2023integrated,
  title = {Integrated data analysis uncovers new {COVID}-19 related genes and potential drug re-purposing candidates},
  author = {Xenos, Alexandros and Malod-Dognin, No{\"e}l and Zambrana, Carme and Pr{\v{z}}ulj, Nata{\v{s}}a},
  journal = {International Journal of Molecular Sciences},
  volume = {24},
  number = {2},
  pages = {1431},
  year = {2023},
  publisher = {MDPI},
  doi = {10.3390/ijms24021431},
}

Bioinformatics

A functional analysis of omic network embedding spaces reveals key altered functions in cancer

Sergio Doria-Belenguer, Alexandros Xenos, Gaia Ceddia, and 2 more authors

Bioinformatics, 2023

DOI Bib

@article{doria2023functional,
  title = {A functional analysis of omic network embedding spaces reveals key altered functions in cancer},
  author = {Doria-Belenguer, Sergio and Xenos, Alexandros and Ceddia, Gaia and Malod-Dognin, No{\"e}l and Pr{\v{z}}ulj, Nata{\v{s}}a},
  journal = {Bioinformatics},
  volume = {39},
  number = {5},
  pages = {btad281},
  year = {2023},
  publisher = {Oxford University Press},
  doi = {10.1093/bioinformatics/btad281},
}

Bioinformatics

Linear functional organization of the omic embedding space

Alexandros Xenos, Noël Malod-Dognin, Stevan Milinković, and 1 more author

Bioinformatics, 2021

DOI Bib

@article{xenos2021linear,
  title = {Linear functional organization of the omic embedding space},
  author = {Xenos, Alexandros and Malod-Dognin, No{\"e}l and Milinkovi{\'c}, Stevan and Pr{\v{z}}ulj, Nata{\v{s}}a},
  journal = {Bioinformatics},
  volume = {37},
  number = {21},
  pages = {3839--3847},
  year = {2021},
  publisher = {Oxford University Press},
  doi = {10.1093/bioinformatics/btab487},
}

Sci. Rep.

Network neighbors of viral targets and differentially expressed genes in COVID-19 are drug target candidates

Carme Zambrana, Alexandros Xenos, René Böttcher, and 2 more authors

Scientific Reports, 2021

DOI Bib

@article{zambrana2021network,
  title = {Network neighbors of viral targets and differentially expressed genes in {COVID}-19 are drug target candidates},
  author = {Zambrana, Carme and Xenos, Alexandros and B{\"o}ttcher, Ren{\'e} and Malod-Dognin, Noel and Pr{\v{z}}ulj, Nata{\v{s}}a},
  journal = {Scientific Reports},
  volume = {11},
  number = {1},
  pages = {18985},
  year = {2021},
  publisher = {Nature Publishing Group UK London},
  doi = {10.1038/s41598-021-98289-x},
}