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Jonas Fischer

Jonas Fischer

Max-Planck-Institut für Informatik
D5: Databases and Information Systems
Exploratory Data Analysis
 office: E1 7, Room 3.04
Saarland Informatics Campus
66123 Saarbrücken
Germany
 email: Get my email address via email

Research Interests

  • Pattern and Rule mining
  • Interpretable explanations of neural networks
  • Pruning neural networks (Lottery Ticket Hypothesis)
  • Low dimensional embeddings
  • Computational Epigenetics
  • Computational Cancer Research
  • Algorithmic Bioinformatics

Publications

  • Hedderich, M*, Fischer, J*, Klakow, D, Vreeken, J, Label-Descriptive Patterns and their Application to Characterizing Classification Errors. In: Proceedings of the International Conference on Machine Learning (ICML), PMLR, 2022. (21.9% acceptance rate)

  • Fischer, J, Burkholz, R, Plant 'n' Seek: Can You Find the Winning Ticket? International Conference on Learning Representations (ICLR), OpenReview, 2022. (32.9% acceptance rate) [preprint]

  • Marx, A, Fischer, J, Estimating Mutual Information via Geodesic kNN. SIAM Conference on Data Mining (SDM), SIAM, 2022. (27.9% acceptance rate) [preprint]

  • Fischer, J, Burkholz, R, Towards strong pruning for lottery tickets with non-zero biases. preprint: arXiv:2110.11150, 2021

  • Kamp, M, Fischer, J, Vreeken, J, Federated Learning from Small Datasets. preprint: arXiv:2110.03469, 2021

  • Fischer, J, Vreeken, J, Differentiable Pattern Set Mining. In: Proceedings of the ACM SIGKDD International Conference on Knowledge Discovery and Data Mining (KDD'21), ACM, 2021. (15.4% acceptance rate)

  • Fischer, J, Oláh, A, Vreeken, J, What's in the Box? Explaining Neural Networks with Robust Rules. In: Proceedings of the International Conference on Machine Learning (ICML), PMLR, 2021. (21.4% acceptance rate)

  • Fischer, J, Ardakani, FB, Kattler, K, Walter, J, Schulz, MH, CpG content-dependent associations between transcription factors and histone modifications. Plos ONE 16(4): e0249985, 2021

  • Heiter, E, Fischer, J, Vreeken, J, Factoring out prior knowledge from low-dimensional embeddings. preprint: arXiv:2103.01828, 2021

  • Fischer, J, Vreeken, J, Discovering Succinct Pattern Sets Expressing Co-Occurrence and Mutual Exclusivity. In: Proceedings of the ACM SIGKDD International Conference on Knowledge Discovery and Data Mining (KDD'20), ACM, 2020. (16.8% acceptance rate)

  • Fischer, J, Vreeken, J, Sets of Robust Rules, and How to Find Them In: Proceedings of the European Conference on Machine Learning and Principles and Practice of Knowledge Discovery in Data (ECMLPKDD), Springer, 2019. (17.7% acceptance rate) Selected plenary talk

  • Fischer, J, Schulz, MH, Fast and accurate bisulfite alignment and methylation calling for mammalian genomes. Talk at ISMB/ECCB, Basel, Switzerland, 2019.

  • Fischer, J, Schulz, MH, Fast and accurate bisulfite alignment and methylation calling for mammalian genomes. Short talk/poster at RECOMB-seq/RECOMB, Paris, France, 2018.

  • Ardakani, FB Kattler, K, Nordström, KJ, Gasparoni, N, Gasparoni, G, Fuchs, S, Sinha, A, Barann, M, Ebert, P, Fischer, J, Hutter, B, Zipprich, G, Imbusch, CD, Felder, B, Eils, J, Brors, B, Lengauer, T, Manke, T, Rosenstiel, P, Walter, J, Schulz, MH, Integrative analysis of single-cell expression data reveals distinct regulatory states in bidirectional promoters. Epigenetics & Chromatin 11(1): 66, 2018.

  • * equal contribution

Academic Activities

  • Teaching activity

    Past:Elements of Statistical Learning, head TA (2019/2020), Information Retrieval and Data Mining, TA (2017/2018), Bioinformatics 2, TA (2015), Programming 2, TA (2014)

    Upcoming:BST 280 - Introductory Genomics and Bioinformatics for Health Research (fall 22), BST270 Reproducible Data Science (winter 22)

  • Reviewing activity

    Journals: Journal for Knowledge and Information Systems (KAIS), IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB), Cancer Research

    Conferences: subreviewer for Advances in Neural InformationProcessing Systems (NeurIPS) 2018, 2019, subreviewer for ACM International Conference on Knowledge Discovery and Data Mining (SIGKDD) 2018, PC for SIAM conference on data mining (SDM) 2021

  • Evaluator for ELLIS PhD Program candidates 2022

Education