Ziga Avsec

Positions

10/2014 - today          Tutor in Machine Learning and Statistical Modelling (LMU, Munich)
08/2014 - 10/2014Research assistant in the Computational Genomics group of the Gene Center, Munich (Gagneur lab)
2011 - 2013

Tutor in Physics 1, Physics 2, Computational tools in Physics (University of Ljubljana)

Education

10/2015 - todayPhD student in the Graduate School of Quantitative Biosciences Munich
10/2013 - 10/2015M.Sc. in Biophysics (LMU Munich)
2010 - 2013B.Sc. in Physics (University of Ljubljana)
  

Publications

  • Gökcen Eraslan, Žiga Avsec, Julien Gagneur, Fabian Theis, Deep learning: New computational modeling techniques for genomics, Nature Reviews Genetics, (in press)
  • Cheng J, Maier KC, Avsec Ž, Rus P, Gagneur J. Cis-regulatory elements explain most of the mRNA stability variation across genes in yeast. Rna 23 (11), 1648-1659
  • Felix Brechtmann, Agne Matuseviciute, Christian Mertes, Vicente A Yepez, Ziga Avsec, Maximilian Herzog, Daniel Magnus Bader, Holger Prokisch, Julien Gagneur, OUTRIDER: A statistical method for detecting aberrantly expressed genes in RNA sequencing data, AJHG, 2018, PMID: 30503520
  • Avsec Ž, Barekatain M, Cheng J, Gagneur J. Modeling positional effects of regulatory sequences with spline transformations increases prediction accuracy of deep neural networks, Bioinformatics 34 (8), 1261-1269
  • Avsec Ž, Kreuzhuber R, Israeli J, Xu N, Cheng J, Shrikumar A, et al. Kipoi: accelerating the community exchange and reuse of predictive models for genomics, bioRxiv, 375345
  • Samira Ait-El-Makdem,..., Ziga Avsec, Christian Mertes, ..., Julien Gagneur,...,Véronique Paquis-Flucklinger, Mutations in MDH2, Encoding a Krebs Cycle Enzyme, Cause Early-Onset Severe Encephalopathy, AJHG, 2017, Jan 5. PMID: 27989324