Nico Pfeifer - RankMe

52 papers A* 1B 2C 3Journal 42Unranked 3

Year	Rank	Type	Title / Venue / Authors
2026	J	`jnl`	How Meta-research Can Pave the Road Towards Trustworthy AI In Healthcare: Catalogue of Ideas and Roadmap for Future Research. CoRR Valerie K. Bürger, Marlie Besouw, Jana Fehr, Riana Minocher, Emma Moorhead, Isabel Velarde, Louis Agha-Mir-Salim, Julia Amann, Alexandra Bannach-Brown, David B. Blumenthal, Kaitlyn Hair, Bert Heinrichs, Moritz Herrmann, Elizabeth Hofvenschiöld, Sune Holm, Anne A. H. de Hond, Sara Kijewski, Stuart McLennan, Timo Minssen, Marco S. Nobile, Nico Pfeifer, Jessica L. Rohmann, Tony Ross-Hellauer, Marija Slavkovik, Karin Tafur, Eleonora Viganò, Magnus Westerlund, Tracey L. Weissgerber, Vince I. Madai
2026	J	`jnl`	How Private Are DNA Embeddings? Inverting Foundation Model Representations of Genomic Sequences. CoRR Sofiane Ouaari, Jules Kreuer, Nico Pfeifer
2025	J	`jnl`	An informed deep learning model of the Omicron wave and the impact of vaccination. Comput. Biol. Medicine Elham Shamsara, Florian König, Nico Pfeifer
2025	J	`jnl`	Privacy-preserving federated unsupervised domain adaptation with application to age prediction from DNA methylation data. Bioinform. Cem Ata Baykara, Ali Burak Ünal, Nico Pfeifer, Mete Akgün
2025	J	`jnl`	Robust Representation Learning for Privacy-Preserving Machine Learning: A Multi-Objective Autoencoder Approach. IEEE Access Sofiane Ouaari, Ali Burak Ünal, Mete Akgün, Nico Pfeifer
2025	J	`jnl`	TabPFN-Wide: Continued Pre-Training for Extreme Feature Counts. CoRR Christopher Kolberg, Katharina Eggensperger, Nico Pfeifer
2024	J	`jnl`	A privacy-preserving approach for cloud-based protein fold recognition. Patterns Ali Burak Ünal, Nico Pfeifer, Mete Akgün
2024	J	`jnl`	Machine learning prediction of malaria vaccine efficacy based on antibody profiles. PLoS Comput. Biol. Jacqueline Wistuba-Hamprecht, Bernhard Reuter, Rolf Fendel, Stephen L. Hoffman, Joseph J. Campo, Philip L. Felgner, Peter G. Kremsner, Benjamin Mordmüller, Nico Pfeifer
2024	J	`jnl`	PP-GWAS: Privacy Preserving Multi-Site Genome-wide Association Studies. CoRR Arjhun Swaminathan, Anika Hannemann, Ali Burak Ünal, Nico Pfeifer, Mete Akgün
2024	J	`jnl`	Privacy Preserving Federated Unsupervised Domain Adaptation with Application to Age Prediction from DNA Methylation Data. CoRR Cem Ata Baykara, Ali Burak Ünal, Nico Pfeifer, Mete Akgün
2023	J	`jnl`	Attentive Variational Information Bottleneck for TCR-peptide interaction prediction. Bioinform. Filippo Grazioli, Pierre Machart, Anja Mösch, Kai Li, Leonardo V. Castorina, Nico Pfeifer, Martin Renqiang Min
2023	J	`jnl`	COmic: convolutional kernel networks for interpretable end-to-end learning on (multi-)omics data. Bioinform. Jonas C. Ditz, Bernhard Reuter, Nico Pfeifer
2023	J	`jnl`	Insights to HIV-1 coreceptor usage by estimating HLA adaptation with Bayesian generalized linear mixed models. PLoS Comput. Biol. Anna Hake, Anja Germann, Corena de Beer, Alexander Thielen, Martin Däumer, Wolfgang Preiser, Hagen von Briesen, Nico Pfeifer
2023	J	`jnl`	PlasmoFAB: A Benchmark to Foster Machine Learning for Plasmodium falciparum Protein Antigen Candidate Prediction. CoRR Jonas Christian Ditz, Jacqueline Wistuba-Hamprecht, Timo Maier, Rolf Fendel, Nico Pfeifer, Bernhard Reuter
2023	J	`jnl`	PlasmoFAB: a benchmark to foster machine learning for Bioinform. Jonas C. Ditz, Jacqueline Wistuba-Hamprecht, Timo Maier, Rolf Fendel, Nico Pfeifer, Bernhard Reuter
2023	J	`jnl`	Predicting functional effects of ion channel variants using new phenotypic machine learning methods. PLoS Comput. Biol. Christian Malte Boßelmann, Ulrike B. S. Hedrich, Holger Lerche, Nico Pfeifer
2023	J	`jnl`	Robust Representation Learning for Privacy-Preserving Machine Learning: A Multi-Objective Autoencoder Approach. CoRR Sofiane Ouaari, Ali Burak Ünal, Mete Akgün, Nico Pfeifer
2023	B	`conf`	ppAURORA: Privacy Preserving Area Under Receiver Operating Characteristic and Precision-Recall Curves. NSS Ali Burak Ünal, Nico Pfeifer, Mete Akgün
2022	J	`jnl`	Bringing the Algorithms to the Data - Secure Distributed Medical Analytics using the Personal Health Train (PHT-meDIC). CoRR Marius de Arruda Botelho Herr, Michael Graf, Peter Placzek, Florian König, Felix Bötte, Tyra Stickel, David Hieber, Lukas Zimmermann, Michael Slupina, Christopher Mohr, Stephanie Biergans, Mete Akgün, Nico Pfeifer, Oliver Kohlbacher
2022	J	`jnl`	CECILIA: Comprehensive Secure Machine Learning Framework. CoRR Ali Burak Ünal, Mete Akgün, Nico Pfeifer
2022	J	`jnl`	COmic: Convolutional Kernel Networks for Interpretable End-to-End Learning on (Multi-)Omics Data. CoRR Jonas C. Ditz, Bernhard Reuter, Nico Pfeifer
2022	J	`jnl`	Efficient privacy-preserving whole-genome variant queries. Bioinform. Mete Akgün, Nico Pfeifer, Oliver Kohlbacher
2021	J	`jnl`	Convolutional Motif Kernel Networks. CoRR Jonas C. Ditz, Bernhard Reuter, Nico Pfeifer
2021	A*	`conf`	ESCAPED: Efficient Secure and Private Dot Product Framework for Kernel-based Machine Learning Algorithms with Applications in Healthcare. AAAI Ali Burak Ünal, Mete Akgün, Nico Pfeifer
2021	J	`jnl`	Identifying disease-causing mutations with privacy protection. Bioinform. Mete Akgün, Ali Burak Ünal, Bekir Ergüner, Nico Pfeifer, Oliver Kohlbacher
2021	J	`jnl`	ppAUC: Privacy Preserving Area Under the Curve with Secure 3-Party Computation. CoRR Ali Burak Ünal, Nico Pfeifer, Mete Akgün
2020	J	`jnl`	ESCAPED: Efficient Secure and Private Dot Product Framework for Kernel-based Machine Learning Algorithms with Applications in Healthcare. CoRR Ali Burak Ünal, Mete Akgün, Nico Pfeifer
2020	—	`conf`	Privacy Preserving Gaze Estimation using Synthetic Images via a Randomized Encoding Based Framework. ETRA Short Papers Efe Bozkir, Ali Burak Ünal, Mete Akgün, Enkelejda Kasneci, Nico Pfeifer
2020	—	`conf`	Privacy-preserving SVM on Outsourced Genomic Data via Secure Multi-party Computation. IWSPA@CODASPY Huajie Chen, Ali Burak Ünal, Mete Akgün, Nico Pfeifer
2019	B	`conf`	A Framework with Randomized Encoding for a Fast Privacy Preserving Calculation of Non-linear Kernels for Machine Learning Applications in Precision Medicine. CANS Ali Burak Ünal, Mete Akgün, Nico Pfeifer
2019	J	`jnl`	Privacy Preserving Gaze Estimation using Synthetic Images via a Randomized Encoding Based Framework. CoRR Efe Bozkir, Ali Burak Ünal, Mete Akgün, Enkelejda Kasneci, Nico Pfeifer
2019	J	`jnl`	Weighted elastic net for unsupervised domain adaptation with application to age prediction from DNA methylation data. Bioinform. Lisa Handl, Adrin Jalali, Michael Scherer, Ralf Eggeling, Nico Pfeifer
2019	J	`jnl`	web-rMKL: a web server for dimensionality reduction and sample clustering of multi-view data based on unsupervised multiple kernel learning. Nucleic Acids Res. Benedict Röder, Nicolas Kersten, Marius Herr, Nora K. Speicher, Nico Pfeifer
2018	J	`jnl`	An interpretable multiple kernel learning approach for the discovery of integrative cancer subtypes. CoRR Nora K. Speicher, Nico Pfeifer
2018	—	`conf`	XplOit: An Ontology-Based Data Integration Platform Supporting the Development of Predictive Models for Personalized Medicine. MIE Gabriele Weiler, Ulf Schwarz, Jochen Rauch, Kerstin Rohm, Thorsten Lehr, Stefan Theobald, Stephan Kiefer, Katharina Götz, Katharina Och, Nico Pfeifer, Lisa Handl, Sigrun Smola, Matthias Ihle, Amin T. Turki, Dietrich W. Beelen, Jürgen Rissland, Jörg Bittenbring, Norbert M. Graf
2018	J	`jnl`	geno2pheno[ngs-freq]: a genotypic interpretation system for identifying viral drug resistance using next-generation sequencing data. Nucleic Acids Res. Matthias Döring, Joachim Büch, Georg Friedrich, Alejandro Pironti, Prabhav Kalaghatgi, Elena Knops, Eva Heger, Martin Obermeier, Martin Däumer, Alexander Thielen, Rolf Kaiser, Thomas Lengauer, Nico Pfeifer
2017	C	`conf`	All Fingers Are Not the Same: Handling Variable-Length Sequences in a Discriminative Setting Using Conformal Multi-Instance Kernels. WABI Sarvesh Nikumbh, Peter Ebert, Nico Pfeifer
2017	J	`jnl`	Genetic sequence-based prediction of long-range chromatin interactions suggests a potential role of short tandem repeat sequences in genome organization. BMC Bioinform. Sarvesh Nikumbh, Nico Pfeifer
2017	J	`jnl`	Prediction of HIV-1 sensitivity to broadly neutralizing antibodies shows a trend towards resistance over time. PLoS Comput. Biol. Anna Hake, Nico Pfeifer
2017	J	`jnl`	Towards Multiple Kernel Principal Component Analysis for Integrative Analysis of Tumor Samples. J. Integr. Bioinform. Nora K. Speicher, Nico Pfeifer
2015	J	`jnl`	Identification and analysis of methylation call differences between bisulfite microarray and bisulfite sequencing data with statistical learning techniques. BMC Bioinform. Matthias Döring, Gilles Gasparoni, Jasmin Gries, Karl Nordström, Pavlo Lutsik, Jörn Walter, Nico Pfeifer
2015	J	`jnl`	Integrating different data types by regularized unsupervised multiple kernel learning with application to cancer subtype discovery. Bioinform. Nora K. Speicher, Nico Pfeifer
2014	C	`conf`	Interpretable Per Case Weighted Ensemble Method for Cancer Associations. WABI Adrin Jalali, Nico Pfeifer
2012	J	`jnl`	Improving HIV coreceptor usage prediction in the clinic using hints from next-generation sequencing data. Bioinform. Nico Pfeifer, Thomas Lengauer
2009	—	`—`	Kernel-based machine learning on sequence data from proteomics and immunomics. Nico Pfeifer
2008	J	`jnl`	LC-MSsim - a simulation software for liquid chromatography mass spectrometry data. BMC Bioinform. Ole Schulz-Trieglaff, Nico Pfeifer, Clemens Gröpl, Oliver Kohlbacher, Knut Reinert
2008	C	`conf`	Multiple Instance Learning Allows MHC Class II Epitope Predictions Across Alleles. WABI Nico Pfeifer, Oliver Kohlbacher
2008	J	`jnl`	OpenMS - An open-source software framework for mass spectrometry. BMC Bioinform. Marc Sturm, Andreas Bertsch, Clemens Gröpl, Andreas Hildebrandt, Rene Hussong, Eva Lange, Nico Pfeifer, Ole Schulz-Trieglaff, Alexandra Zerck, Knut Reinert, Oliver Kohlbacher
2007	J	`jnl`	Gradient-Based Optimization of Kernel-Target Alignment for Sequence Kernels Applied to Bacterial Gene Start Detection. IEEE ACM Trans. Comput. Biol. Bioinform. Christian Igel, Tobias Glasmachers, Britta Mersch, Nico Pfeifer, Peter Meinicke
2007	J	`jnl`	Statistical learning of peptide retention behavior in chromatographic separations: a new kernel-based approach for computational proteomics. BMC Bioinform. Nico Pfeifer, Andreas Leinenbach, Christian G. Huber, Oliver Kohlbacher
2007	J	`jnl`	TOPP - the OpenMS proteomics pipeline. Bioinform. Oliver Kohlbacher, Knut Reinert, Clemens Gröpl, Eva Lange, Nico Pfeifer, Ole Schulz-Trieglaff, Marc Sturm
2005	J	`jnl`	TICO: a tool for improving predictions of prokaryotic translation initiation sites. Bioinform. Maike Tech, Nico Pfeifer, Burkhard Morgenstern, Peter Meinicke