Mario Stanke

ORCID

Publication Activity (10 Years)

Years Active: 2003-2023
Publications (10 Years): 8

Top Venues

University of Göttingen (PHD)

Education History

University of Göttingen

PHD

Publications

Tomás Bruna, Heng Li, Joseph Guhlin, Daniel Honsel, Steffen Herbold, Mario Stanke, Natalia Nenasheva, Matthis Ebel, Lars Gabriel, Katharina Jasmin Hoff
Galba: genome annotation with miniprot and AUGUSTUS. BMC Bioinform. 24 (1) (2023)
Johanna Lange, Mario Stanke, Marc Ebner
Co-evolution of Spies and Resistance Fighters. EvoApplications (2022)
Darvin Mertsch, Mario Stanke
End-to-end learning of evolutionary models to find coding regions in genome alignments. Bioinform. 38 (7) (2022)
Matthis Ebel, Giovanna Migliorelli, Mario Stanke
Global, highly specific and fast filtering of alignment seeds. BMC Bioinform. 23 (1) (2022)
Lars Gabriel, Katharina Jasmin Hoff, Tomás Bruna, Mark Borodovsky, Mario Stanke
TSEBRA: transcript selector for BRAKER. BMC Bioinform. 22 (1) (2021)
Mario Stanke, Willy Bruhn, Felix Becker, Katharina Jasmin Hoff
VARUS: sampling complementary RNA reads from the sequence read archive. BMC Bioinform. 20 (1) (2019)
Katharina Jasmin Hoff, Simone Lange, Alexandre Lomsadze, Mark Borodovsky, Mario Stanke
BRAKER1: Unsupervised RNA-Seq-Based Genome Annotation with GeneMark-ET and AUGUSTUS. Bioinform. 32 (5) (2016)
Stefanie König, Lars Romoth, Lizzy Gerischer, Mario Stanke
Simultaneous gene finding in multiple genomes. Bioinform. 32 (22) (2016)
Stefanie König, Lars Romoth, Lizzy Gerischer, Mario Stanke
Simultaneous gene finding in multiple genomes. PeerJ Prepr. 3 (2015)
Zhijie Dong, Keyu Wang, Truong Khanh Linh Dang, Mehmet Gültas, Marlon Welter, Torsten Wierschin, Mario Stanke, Stephan Waack
CRF-based models of protein surfaces improve protein-protein interaction site predictions. BMC Bioinform. 15 (2014)
Katharina Jasmin Hoff, Mario Stanke
WebAUGUSTUS - a web service for training AUGUSTUS and predicting genes in eukaryotes. Nucleic Acids Res. 41 (Webserver-Issue) (2013)
Anne-Kathrin Schultz, Ingo Bulla, Mariama Abdou-Chekaraou, Emmanuel Gordien, Burkhard Morgenstern, Fabien Zoulim, Paul Dény, Mario Stanke
jpHMM: recombination analysis in viruses with circular genomes such as the hepatitis B virus. Nucleic Acids Res. 40 (Web-Server-Issue) (2012)
Thomas Unterthiner, Anne-Kathrin Schultz, Jan Bulla, Burkhard Morgenstern, Mario Stanke, Ingo Bulla
Detection of viral sequence fragments of HIV-1 subfamilies yet unknown. BMC Bioinform. 12 (2011)
Oliver Keller, Martin Kollmar, Mario Stanke, Stephan Waack
A novel hybrid gene prediction method employing protein multiple sequence alignments. Bioinform. 27 (6) (2011)
Ingo Bulla, Anne-Kathrin Schultz, Fabian Schreiber, Ming Zhang, Thomas Leitner, Bette T. Korber, Burkhard Morgenstern, Mario Stanke
HIV classification using the coalescent theory. Bioinform. 26 (11) (2010)
Dietmar Sommerfeld, Thomas Lingner, Mario Stanke, Burkhard Morgenstern, Harald Richter
AUGUSTUS at MediGRID: Adaption of a bioinformatics application to grid computing for efficient genome analysis. Future Gener. Comput. Syst. 25 (3) (2009)
Anne-Kathrin Schultz, Ming Zhang, Ingo Bulla, Thomas Leitner, Bette T. Korber, Burkhard Morgenstern, Mario Stanke
jpHMM: Improving the reliability of recombination prediction in HIV-1. Nucleic Acids Res. 37 (Web-Server-Issue) (2009)
Oliver Keller, Florian Odronitz, Mario Stanke, Martin Kollmar, Stephan Waack
Scipio: Using protein sequences to determine the precise exon/intron structures of genes and their orthologs in closely related species. BMC Bioinform. 9 (2008)
Mario Stanke, Mark Diekhans, Robert Baertsch, David Haussler
gene finding. Bioinform. 24 (5) (2008)
Donna Karolchik, Robert M. Kuhn, Robert Baertsch, Galt P. Barber, Hiram Clawson, Mark Diekhans, Belinda Giardine, Rachel A. Harte, Angela S. Hinrichs, Fan Hsu, Kord M. Kober, Webb Miller, Jakob Skou Pedersen, Andy Pohl, Brian J. Raney, Brooke L. Rhead, Kate R. Rosenbloom, Kayla E. Smith, Mario Stanke, Archana Thakkapallayil, Heather Trumbower, Ting Wang, Ann S. Zweig, David Haussler, W. James Kent
The UCSC Genome Browser Database: 2008 update. Nucleic Acids Res. 36 (Database-Issue) (2008)
Robert M. Kuhn, Donna Karolchik, Ann S. Zweig, Heather Trumbower, Daryl J. Thomas, Archana Thakkapallayil, Charles W. Sugnet, Mario Stanke, Kayla E. Smith, Adam C. Siepel, Kate R. Rosenbloom, Brooke L. Rhead, Brian J. Raney, Andy Pohl, Jakob Skou Pedersen, Fan Hsu, Angela S. Hinrichs, Rachel A. Harte, Mark Diekhans, Hiram Clawson, Gill Bejerano, Galt P. Barber, Robert Baertsch, David Haussler, W. James Kent
The UCSC genome browser database: update 2007. Nucleic Acids Res. 35 (Database-Issue) (2007)
Anne-Kathrin Schultz, Ming Zhang, Thomas Leitner, Carla Kuiken, Bette T. Korber, Burkhard Morgenstern, Mario Stanke
A jumping profile Hidden Markov Model and applications to recombination sites in HIV and HCV genomes. BMC Bioinform. 7 (2006)
Ming Zhang, Anne-Kathrin Schultz, Charles Calef, Carla Kuiken, Thomas Leitner, Bette T. Korber, Burkhard Morgenstern, Mario Stanke
jpHMM at GOBICS: a web server to detect genomic recombinations in HIV-1. Nucleic Acids Res. 34 (Web-Server-Issue) (2006)
Mario Stanke, Oliver Keller, Irfan Gunduz, Alec Hayes, Stephan Waack, Burkhard Morgenstern
prediction of alternative transcripts. Nucleic Acids Res. 34 (Web-Server-Issue) (2006)
Mario Stanke, Oliver Schöffmann, Burkhard Morgenstern, Stephan Waack
Gene prediction in eukaryotes with a generalized hidden Markov model that uses hints from external sources. BMC Bioinform. 7 (2006)
Mario Stanke, Burkhard Morgenstern
AUGUSTUS: a web server for gene prediction in eukaryotes that allows user-defined constraints. Nucleic Acids Res. 33 (Web-Server-Issue) (2005)
Mario Stanke, Rasmus Steinkamp, Stephan Waack, Burkhard Morgenstern
AUGUSTUS: a web server for gene finding in eukaryotes. Nucleic Acids Res. 32 (Web-Server-Issue) (2004)
Mario Stanke, Stephan Waack
Gene prediction with a hidden Markov model and a new intron submodel. ECCB (2003)

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Publication Activity (10 Years)

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Mario Stanke