Publications by authors named "Stephan Waack"

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Design of typical genes for heterologous gene expression.
Dominic Simm, Blagovesta Popova, Gerhard H Braus, Stephan Waack, Martin Kollmar

Sci Rep· June 2022

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Critical assessment of coiled-coil predictions based on protein structure data.
Dominic Simm, Klas Hatje, Stephan Waack, Martin Kollmar

Sci Rep· June 2021

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A graph-based algorithm for detecting rigid domains in protein structures.
Truong Khanh Linh Dang, Thach Nguyen, Michael Habeck, Mehmet Gültas, Stephan Waack

BMC Bioinformatics· February 2021

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PC-TraFF: identification of potentially collaborating transcription factors using pointwise mutual information.
Cornelia Meckbach, Rebecca Tacke, Xu Hua, Stephan Waack, Edgar Wingender

BMC Bioinformatics· December 2015

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Combining features in a graphical model to predict protein binding sites.
Torsten Wierschin, Keyu Wang, Marlon Welter, Stephan Waack, Mario Stanke

Proteins· May 2015

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CRF-based models of protein surfaces improve protein-protein interaction site predictions.
Zhijie Dong, Keyu Wang, Truong Khanh Linh Dang, Mehmet Gültas, Marlon Welter, Stephan Waack

BMC Bioinformatics· August 2014

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Quantum coupled mutation finder: predicting functionally or structurally important sites in proteins using quantum Jensen-Shannon divergence and CUDA programming.
Mehmet Gültas, Güncel Düzgün, Sebastian Herzog, Sven Joachim Jäger, Cornelia Meckbach, Stephan Waack

BMC Bioinformatics· April 2014

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GenePainter: a fast tool for aligning gene structures of eukaryotic protein families, visualizing the alignments and mapping gene structures onto protein structures.
Björn Hammesfahr, Florian Odronitz, Stefanie Mühlhausen, Stephan Waack, Martin Kollmar

BMC Bioinformatics· March 2013

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Coupled mutation finder: a new entropy-based method quantifying phylogenetic noise for the detection of compensatory mutations.
Mehmet Gültas, Martin Haubrock, Nesrin Tüysüz, Stephan Waack

BMC Bioinformatics· September 2012

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Cross-species protein sequence and gene structure prediction with fine-tuned Webscipio 2.0 and Scipio.
Klas Hatje, Oliver Keller, Björn Hammesfahr, Holger Pillmann, Stephan Waack

BMC Res Notes· July 2011

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A novel hybrid gene prediction method employing protein multiple sequence alignments.
Oliver Keller, Martin Kollmar, Mario Stanke, Stephan Waack

Bioinformatics· March 2011

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WebScipio: an online tool for the determination of gene structures using protein sequences.
Florian Odronitz, Holger Pillmann, Oliver Keller, Stephan Waack, Martin Kollmar

BMC Genomics· September 2008

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Scipio: using protein sequences to determine the precise exon/intron structures of genes and their orthologs in closely related species.
Oliver Keller, Florian Odronitz, Mario Stanke, Martin Kollmar, Stephan Waack

BMC Bioinformatics· June 2008

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AUGUSTUS: ab initio prediction of alternative transcripts.
Mario Stanke, Oliver Keller, Irfan Gunduz, Alec Hayes, Stephan Waack

Nucleic Acids Res· July 2006

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P-value based visualization of codon usage data.
Peter Meinicke, Thomas Brodag, Wolfgang Florian Fricke, Stephan Waack

Algorithms Mol Biol· June 2006

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Score-based prediction of genomic islands in prokaryotic genomes using hidden Markov models.
Stephan Waack, Oliver Keller, Roman Asper, Thomas Brodag, Carsten Damm

BMC Bioinformatics· March 2006

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Gene prediction in eukaryotes with a generalized hidden Markov model that uses hints from external sources.
Mario Stanke, Oliver Schöffmann, Burkhard Morgenstern, Stephan Waack

BMC Bioinformatics· February 2006

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AUGUSTUS: a web server for gene finding in eukaryotes.
Mario Stanke, Rasmus Steinkamp, Stephan Waack, Burkhard Morgenstern

Nucleic Acids Res· July 2004

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Gene prediction with a hidden Markov model and a new intron submodel.
Mario Stanke, Stephan Waack

Bioinformatics· October 2003

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