Marcel H. Schulz

Publication Activity (10 Years)

Years Active: 2008-2023
Publications (10 Years): 21

Top Topics

Convolutional Neural Networks

Regulatory Elements

Conditional Mutual Information

Top Venues

Nucleic Acids Res.

J. Comput. Biol.

Publications

Sascha Schmalhofer, Marwin Möller, Nikoletta Katsaouni, Marcel H. Schulz, Lars Hedrich
Debugging Low Power Analog Neural Networks for Edge Computing. DATE (2023)
Dennis Hecker, Fatemeh Behjati-Ardakani, Alexander Karollus, Julien Gagneur, Marcel H. Schulz
The adapted Activity-By-Contact model for enhancer-gene assignment and its application to single-cell data. Bioinform. 39 (2) (2023)
Nikoletta Katsaouni, Florian Aul, Lukas Krischker, Sascha Schmalhofer, Lars Hedrich, Marcel H. Schulz
Energy efficient convolutional neural networks for arrhythmia detection. Array 13 (2022)
Timothy Warwick, Sandra Seredinski, Nina M. Krause, Jasleen Kaur Bains, Lara Althaus, James A Oo, Alessandro Bonetti, Anne Dueck, Stefan Engelhardt, Harald Schwalbe, Matthias S. Leisegang, Marcel H. Schulz, Ralf P. Brandes
A universal model of RNA.DNA: DNA triplex formation accurately predicts genome-wide RNA-DNA interactions. Briefings Bioinform. 23 (6) (2022)
Beatriz Serrano-Solano, Melanie Christine Föll, Cristóbal Gallardo-Alba, Anika Erxleben, Helena Rasche, Saskia Hiltemann, Matthias Fahrner, Mark J. Dunning, Marcel H. Schulz, Beáta Scholtz, Dave Clements, Anton Nekrutenko, Bérénice Batut, Björn A. Grüning
Fostering accessible online education using Galaxy as an e-learning platform. PLoS Comput. Biol. 17 (5) (2021)
Michael Scherer, Florian Schmidt, Olga Lazareva, Jörn Walter, Jan Baumbach, Marcel H. Schulz, Markus List
Machine learning for deciphering cell heterogeneity and gene regulation. Nat. Comput. Sci. 1 (3) (2021)
Peter Ebert, Marcel H. Schulz
Fast detection of differential chromatin domains with SCIDDO. Bioinform. 37 (9) (2021)
Nina Baumgarten, Florian Schmidt, Marcel H. Schulz
Improved linking of motifs to their TFs using domain information. Bioinform. 36 (6) (2020)
Shounak Chakraborty, Stefan Canzar, Tobias Marschall, Marcel H. Schulz
Chromatyping: Reconstructing Nucleosome Profiles from NOMe Sequencing Data. J. Comput. Biol. 27 (3) (2020)
Nina Baumgarten, Dennis Hecker, Sivarajan Karunanithi, Florian Schmidt, Markus List, Marcel H. Schulz
EpiRegio: analysis and retrieval of regulatory elements linked to genes. Nucleic Acids Res. 48 (Webserver-Issue) (2020)
Florian Schmidt, Marcel H. Schulz
On the problem of confounders in modeling gene expression. Bioinform. 35 (4) (2019)
Markus List, Azim Dehghani Amirabad, Dennis Kostka, Marcel H. Schulz
Large-scale inference of competing endogenous RNA networks with sparse partial correlation. Bioinform. 35 (14) (2019)
Florian Schmidt, Fabian Kern, Peter Ebert, Nina Baumgarten, Marcel H. Schulz
TEPIC 2 - an extended framework for transcription factor binding prediction and integrative epigenomic analysis. Bioinform. 35 (9) (2019)
Shounak Chakraborty, Stefan Canzar, Tobias Marschall, Marcel H. Schulz
Chromatyping: Reconstructing Nucleosome Profiles from NOMe Sequencing Data. RECOMB (2018)
Fatemeh Behjati-Ardakani, Florian Schmidt, Marcel H. Schulz
Predicting transcription factor binding using ensemble random forest models. F1000Research 7 (2018)
Florian Schmidt, Markus List, Engin Cukuroglu, Sebastian Köhler, Jonathan Göke, Marcel H. Schulz
An ontology-based method for assessing batch effect adjustment approaches in heterogeneous datasets. Bioinform. 34 (17) (2018)
Dilip A. Durai, Marcel H. Schulz
In silico read normalization using set multi-cover optimization. Bioinform. 34 (19) (2018)
Andrea Hornáková, Markus List, Jilles Vreeken, Marcel H. Schulz
JAMI: fast computation of conditional mutual information for ceRNA network analysis. Bioinform. 34 (17) (2018)
Tim Kehl, Lara Schneider, Florian Schmidt, Daniel Stöckel, Nico Gerstner, Christina Backes, Eckart Meese, Andreas Keller, Marcel H. Schulz, Hans-Peter Lenhof
RegulatorTrail: a web service for the identification of key transcriptional regulators. Nucleic Acids Res. 45 (Webserver-Issue) (2017)
Azim Dehghani Amirabad, Marcel H. Schulz
Multitask regression for condition-specific prioritization of miRNA targets in transcripts. PeerJ Prepr. 4 (2016)
Dilip A. Durai, Marcel H. Schulz
transcriptome assembly. Bioinform. 32 (11) (2016)
Peter Ebert, Fabian Müller, Karl Nordström, Thomas Lengauer, Marcel H. Schulz
A general concept for consistent documentation of computational analyses. Database J. Biol. Databases Curation 2015 (2015)
Marcel H. Schulz, David Weese, Manuel Holtgrewe, Viktoria Dimitrova, Sijia Niu, Knut Reinert, Hugues Richard
Fiona: a parallel and automatic strategy for read error correction. Bioinform. 30 (17) (2014)
Jonathan Göke, Marcel H. Schulz, Julia Lasserre, Martin Vingron
Estimation of pairwise sequence similarity of mammalian enhancers with word neighbourhood counts. Bioinform. 28 (5) (2012)
Marcel H. Schulz, Daniel R. Zerbino, Martin Vingron, Ewan Birney
RNA-seq assembly across the dynamic range of expression levels. Bioinform. 28 (8) (2012)
Marcel H. Schulz, William E. Devanny, Anthony Gitter, Shan Zhong, Jason Ernst, Ziv Bar-Joseph
DREM 2.0: Improved reconstruction of dynamic regulatory networks from time-series expression data. BMC Syst. Biol. 6 (2012)
Sebastian Bauer, Sebastian Köhler, Marcel H. Schulz, Peter N. Robinson
Bayesian ontology querying for accurate and noise-tolerant semantic searches. Bioinform. 28 (19) (2012)
Anne-Katrin Emde, Marcel H. Schulz, David Weese, Ruping Sun, Martin Vingron, Vera M. Kalscheuer, Stefan A. Haas, Knut Reinert
Detecting genomic indel variants with exact breakpoints in single- and paired-end sequencing data using SplazerS. Bioinform. 28 (5) (2012)
Peter Huggins, Shan Zhong, Idit Shiff, Rachel Beckerman, Oleg Laptenko, Carol Prives, Marcel H. Schulz, Itamar Simon, Ziv Bar-Joseph
DECOD: fast and accurate discriminative DNA motif finding. Bioinform. 27 (17) (2011)
Marcel H. Schulz, Sebastian Köhler, Sebastian Bauer, Peter N. Robinson
Exact score distribution computation for ontological similarity searches. BMC Bioinform. 12 (2011)
Marcel H. Schulz, Sebastian Köhler, Sebastian Bauer, Martin Vingron, Peter N. Robinson
Exact Score Distribution Computation for Similarity Searches in Ontologies. WABI (2009)
Kai Ye, Marcel H. Schulz, Quan Long, Rolf Apweiler, Zemin Ning
Pindel: a pattern growth approach to detect break points of large deletions and medium sized insertions from paired-end short reads. Bioinform. 25 (21) (2009)
David Weese, Marcel H. Schulz
Efficient String Mining under Constraints Via the Deferred Frequency Index. ICDM (2008)
Marcel H. Schulz, David Weese, Tobias Rausch, Andreas Döring, Knut Reinert, Martin Vingron
Fast and Adaptive Variable Order Markov Chain Construction. WABI (2008)
Marcel H. Schulz, Sebastian Bauer, Peter N. Robinson
The generalised k-Truncated Suffix Tree for time-and space-efficient searches in multiple DNA or protein sequences. Int. J. Bioinform. Res. Appl. 4 (1) (2008)