Uwe Ohler

36 papers Misc 1Journal 25Unranked 10
YearRankTypeTitle / Venue / Authors
2024 J jnl
Deep Learning for RNA Regulation and Multidimensional Transcriptomics (Dagstuhl Seminar 24491).
Dagstuhl Reports
Annalisa Marsico, Uwe Ohler, Igor Ulitsky, Kathi Zarnack, Charlotte Capitanchik
2024 J jnl
Metadata-guided feature disentanglement for functional genomics.
Bioinform.
Alexander Rakowski, Remo Monti, Viktoriia Huryn, Marta Lemanczyk, Uwe Ohler, Christoph Lippert
2022 J jnl
Deep learning for prediction of population health costs.
BMC Medical Informatics Decis. Mak.
Philipp Drewe-Boss, Dirk Enders, Jochen Walker, Uwe Ohler
2022 J jnl
SLM2 Is A Novel Cardiac Splicing Factor Involved in Heart Failure due to Dilated Cardiomyopathy.
Genom. Proteom. Bioinform.
Jes-Niels Boeckel, Maximilian Möbius-Winkler, Marion Müller, Sabine Rebs, Nicole Eger, Laura Schoppe, Rewati Tappu, Karoline E. Kokot, Jasmin M. Kneuer, Susanne Gaul, Diana M. Bordalo, Alan Lai, Jan Haas, Mahsa Ghanbari, Philipp Drewe-Boss, Martin Liss, Hugo A. Katus, Uwe Ohler, Michael Gotthardt, Ulrich Laufs, Katrin Streckfuss-Bömeke, Benjamin Meder
2022 J jnl
Simultaneous dimensionality reduction and integration for single-cell ATAC-seq data using deep learning.
Nat. Mach. Intell.
Wolfgang Kopp, Altuna Akalin, Uwe Ohler
2021 — conf
Multimodal single cell data integration challenge: Results and lessons learned.
NeurIPS (Competition and Demos)
Christopher Lance, Malte D. Lücken, Daniel B. Burkhardt, Robrecht Cannoodt, Pia Rautenstrauch, Anna Laddach, Aidyn Ubingazhibov, Zhi-Jie Cao, Kaiwen Deng, Sumeer Khan, Qiao Liu, Nikolay Russkikh, Gleb Ryazantsev, Uwe Ohler, Angela Oliveira Pisco, Jonathan Bloom, Smita Krishnaswamy, Fabian J. Theis
2020 J jnl
Deep learning for prediction of population health costs.
CoRR
Philipp Drewe-Boss, Dirk Enders, Jochen Walker, Uwe Ohler
2019 J jnl
Advances and Challenges in Protein-RNA Recognition, Regulation and Prediction (Dagstuhl Seminar 19342).
Dagstuhl Reports
Rolf Backofen, Yael Mandel-Gutfreund, Uwe Ohler, Gabriele Varani
2018 J jnl
SSMART: sequence-structure motif identification for RNA-binding proteins.
Bioinform.
Alina Munteanu, Neelanjan Mukherjee, Uwe Ohler
2017 J jnl
Computational Challenges in RNA-Based Gene Regulation: Protein-RNA Recognition, Regulation and Prediction (Dagstuhl Seminar 17252).
Dagstuhl Reports
Rolf Backofen, Yael Mandel-Gutfreund, Uwe Ohler, Gabriele Varani
2017 J jnl
JACUSA: site-specific identification of RNA editing events from replicate sequencing data.
BMC Bioinform.
Michael Piechotta, Emanuel Wyler, Uwe Ohler, Markus Landthaler, Christoph Dieterich
2017 J jnl
The RNA workbench: best practices for RNA and high-throughput sequencing bioinformatics in Galaxy.
Nucleic Acids Res.
Björn A. Grüning, Jörg Fallmann, Dilmurat Yusuf, Sebastian Will, Anika Erxleben, Florian Eggenhofer, Torsten Houwaart, Bérénice Batut, Pavankumar Videm, Andrea Bagnacani, Markus Wolfien, Steffen Lott, Youri Hoogstrate, Wolfgang R. Hess, Olaf Wolkenhauer, Steve Hoffmann, Altuna Akalin, Uwe Ohler, Peter F. Stadler, Rolf Backofen
2016 Misc conf
Cseq-Simulator: A Data Simulator for CLIP-Seq Experiments.
PSB
Wanja Kassuhn, Uwe Ohler, Philipp Drewe
2015 J jnl
JAMM: a peak finder for joint analysis of NGS replicates.
Bioinform.
Mahmoud M. Ibrahim, Scott A. Lacadie, Uwe Ohler
2014 J jnl
COUGER - co-factors associated with uniquely-bound genomic regions.
Nucleic Acids Res.
Alina Munteanu, Uwe Ohler, Raluca Gordân
2014 J jnl
Improved transcript isoform discovery using ORF graphs.
Bioinform.
William H. Majoros, Niel Lebeck, Uwe Ohler, Song Li
2013 J jnl
Automated annotation of gene expression image sequences via non-parametric factor analysis and conditional random fields.
Bioinform.
Iulian Pruteanu-Malinici, William H. Majoros, Uwe Ohler
2013 J jnl
Genome-wide identification and predictive modeling of tissue-specific alternative polyadenylation.
Bioinform.
Dina Hafez, Ting Ni, Sayan Mukherjee, Jun Zhu, Uwe Ohler
2011 J jnl
Automatic Annotation of Spatial Expression Patterns via Sparse Bayesian Factor Models.
PLoS Comput. Biol.
Iulian Pruteanu-Malinici, Daniel L. Mace, Uwe Ohler
2011 — conf
imiRTP: An Integrated Method to Identifying miRNA-target Interactions in Arabidopsis thaliana.
BIBM
Jiandong Ding, Shusi Yu, Uwe Ohler, Jihong Guan, Shuigeng Zhou
2010 J jnl
An alignment-free method to identify candidate orthologous enhancers in multiple
Bioinform.
Arunachalam Manonmani, Karthik Jayasurya, Pavel Tomancak, Uwe Ohler
2010 J jnl
Extraction and comparison of gene expression patterns from 2D RNA
Bioinform.
Daniel L. Mace, Nicole Varnado, Weiping Zhang, Erwin Frise, Uwe Ohler
2010 J jnl
Modeling the Evolution of Regulatory Elements by Simultaneous Detection and Alignment with Phylogenetic Pair HMMs.
PLoS Comput. Biol.
William H. Majoros, Uwe Ohler
2009 J jnl
Complexity reduction in context-dependent DNA substitution models.
Bioinform.
William H. Majoros, Uwe Ohler
2008 J jnl
Strategies for Identifying RNA Splicing Regulatory Motifs and Predicting Alternative Splicing Events.
PLoS Comput. Biol.
Dirk Holste, Uwe Ohler
2006 — conf
Advancing the State of the Art in Computational Gene Prediction.
KDECB
William H. Majoros, Uwe Ohler
2006 — conf
Informative priors based on transcription factor structural class improve
ISMB (Supplement of Bioinformatics)
Leelavati Narlikar, Raluca Gordân, Uwe Ohler, Alexander J. Hartemink
2006 J jnl
Optimized mixed Markov models for motif identification.
BMC Bioinform.
Weichun Huang, David M. Umbach, Uwe Ohler, Leping Li
2006 — conf
Quantification of transcription factor expression from Arabidopsis images.
ISMB (Supplement of Bioinformatics)
Daniel L. Mace, Jiyoung Lee, Richard W. Twigg, Juliette Colinas, Philip N. Benfey, Uwe Ohler
2005 J jnl
Recognition of Unknown Conserved Alternatively Spliced Exons.
PLoS Comput. Biol.
Uwe Ohler, Noam Shomron, Christopher B. Burge
2001 — conf
Joint modeling of DNA sequence and physical properties to improve eukaryotic promoter recognition.
ISMB (Supplement of Bioinformatics)
Uwe Ohler, Heinrich Niemann, Guo-chun Liao, Gerald M. Rubin
1999 — conf
Discriminative training of language model classifiers.
EUROSPEECH
Uwe Ohler, Stefan Harbeck, Heinrich Niemann
1999 — conf
Information Theoretic Based Segments for Language Identification.
TSD
Stefan Harbeck, Uwe Ohler, Elmar Nöth, Heinrich Niemann
1999 J jnl
Interpolated markov chains for eukaryotic promoter recognition.
Bioinform.
Uwe Ohler, Stefan Harbeck, Heinrich Niemann, Elmar Nöth, Martin G. Reese
1999 — conf
Multigrams for language identification.
EUROSPEECH
Stefan Harbeck, Uwe Ohler
1998 — conf
Stochastic Language Models for Content Based DNA Sequence Classification.
German Conference on Bioinformatics
Uwe Ohler, Heinrich Niemann