publications

2024

1. 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},
   }

2. 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},
   }

2023

1. 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},
   }

2. 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},
   }

2021

1. 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},
   }

2. 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},
   }