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Mario Stanke

Active 2003–2025

62
Papers
28,706
Citations
48
h-index
56
i10-index

Citations

Citations per year for Mario Stanke1979: 1 citations1991: 2 citations2000: 1 citations2001: 1 citations2004: 13 citations2005: 16 citations2006: 27 citations2007: 69 citations2008: 174 citations2009: 203 citations2010: 188 citations2011: 213 citations2012: 183 citations2013: 218 citations2014: 264 citations2015: 241 citations2016: 234 citations2017: 228 citations2018: 268 citations2019: 907 citations2020: 952 citations2021: 973 citations2022: 707 citations2023: 524 citations2024: 966 citations2025: 372 citations2026: 15 citations1980–1990: no citations, so these years are not shown1992–1999: no citations, so these years are not shown2002–2003: no citations, so these years are not shown

Citation sources

Countries

World map of the countries and regions citing this authorUnited States: 2,742 citing papers, 19.6% of this breakdownChina: 2,170 citing papers, 15.5% of this breakdownGermany: 954 citing papers, 6.8% of this breakdownUnited Kingdom: 946 citing papers, 6.8% of this breakdownFrance: 542 citing papers, 3.9% of this breakdownAustralia: 491 citing papers, 3.5% of this breakdownCanada: 474 citing papers, 3.4% of this breakdownJapan: 425 citing papers, 3% of this breakdownSpain: 353 citing papers, 2.5% of this breakdownSwitzerland: 283 citing papers, 2% of this breakdownDenmark: 272 citing papers, 1.9% of this breakdownNetherlands: 268 citing papers, 1.9% of this breakdown
0%19.6%Other 29.2%

Institutions

Fields

  • Biochemistry, Genetics and Molecular Biology49.6%
  • Agricultural and Biological Sciences22%
  • Medicine8.9%
  • Immunology and Microbiology5.8%
  • Environmental Science4.4%
  • Neuroscience2.3%
  • Other7%

Topics

  • Genomics and Phylogenetic Studies10.2%
  • Chromosomal and Genetic Variations4%
  • Genetic diversity and population structure2.6%
  • Plant Pathogens and Fungal Diseases2.3%
  • RNA and protein synthesis mechanisms1.8%
  • Insect symbiosis and bacterial influences1.7%
  • Other77.4%

Coauthors

All papers

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  1. AUGUSTUS: ab initio prediction of alternative transcripts

    Authors: Mario Stanke, Oliver Keller, Irfan Gunduz, Alec Hayes, Stephan Waack, Burkhard Morgenstern - Nucleic Acids Research, Nucleic Acids Res. 2006 cited by 3,000

  2. Using native and syntenically mapped cDNA alignments to improve de novo gene finding

    Authors: Mario Stanke, Mark Diekhans, Robert Baertsch, David Haussler - Bioinformatics, Bioinform. 2008 cited by 2,599

  3. BRAKER1: Unsupervised RNA-Seq-Based Genome Annotation with GeneMark-ET and AUGUSTUS

    Authors: Katharina Jasmin Hoff, Simone Lange, Alexandre Lomsadze, Mark Borodovsky, Mario Stanke - Bioinformatics, Bioinform. 2015 cited by 1,364

  4. Whole-Genome Annotation with BRAKER

    Authors: Katharina J. Hoff, Alexandre Lomsadze, Mark Borodovsky, Mario Stanke - Methods in molecular biology 2019 cited by 843

  5. AUGUSTUS: a web server for gene prediction in eukaryotes that allows user-defined constraints

    Authors: Mario Stanke, Burkhard Morgenstern - Nucleic Acids Research, Nucleic Acids Res. 2005 cited by 1,719

  6. Gene prediction in eukaryotes with a generalized hidden Markov model that uses hints from external sources

    Authors: Mario Stanke, Oliver Schöffmann, Burkhard Morgenstern, Stephan Waack - BMC Bioinformatics, BMC Bioinform. 2006 cited by 1,441

  7. Gene prediction with a hidden Markov model and a new intron submodel

    Authors: Mario Stanke, Stephan Waack - Bioinformatics, ECCB 2003 cited by 1,763

  8. AUGUSTUS: a web server for gene finding in eukaryotes

    Authors: Mario Stanke, Rasmus Steinkamp, Stephan Waack, Burkhard Morgenstern - Nucleic Acids Research, Nucleic Acids Res. 2004 cited by 1,419

  9. Predicting Genes in Single Genomes with AUGUSTUS

    Authors: Katharina J. Hoff, Mario Stanke - Current Protocols in Bioinformatics 2018 cited by 420

  10. BRAKER3: Fully automated genome annotation using RNA-seq and protein evidence with GeneMark-ETP, AUGUSTUS, and TSEBRA

    Authors: Lars Gabriel, Tomáš Brůna, Katharina J. Hoff, Matthis Ebel, Alexandre Lomsadze, Mark Borodovsky, Mario Stanke - Genome Research 2023 cited by 556

  11. A novel hybrid gene prediction method employing protein multiple sequence alignments

    Authors: Oliver Keller, Martin Kollmar, Mario Stanke, Stephan Waack - Bioinformatics, Bioinform. 2011 cited by 627

  12. Sixteen diverse laboratory mouse reference genomes define strain-specific haplotypes and novel functional loci

    Authors: Jingtao Lilue, Anthony Doran, Ian T. Fiddes, Monica Abrudan, Joel Armstrong, Ruth Bennett, William Chow, Joanna Collins, Stephan C. Collins, Anne Czechanski, Petr Danecek, Mark Diekhans, Dirk-Dominik Dolle, Matt Dunn, Richard Durbin, Dent Earl, Anne C. Ferguson‐Smith, Paul Flicek, Jonathan Flint, Adam Frankish, Beiyuan Fu, Mark Gerstein, James Gilbert, Leo Goodstadt, Jennifer Harrow, Kerstin Howe, Ximena Ibarra-Soria, Mikhail Kolmogorov, Chris Lelliott, Darren W. Logan, Jane Loveland, Clayton E. Mathews, Richard Mott, Paul Muir, Stefanie Nachtweide, Fábio C. P. Navarro, Duncan T. Odom, Naomi Park, Sarah Pelan, Son Pham, Mike Quail, Laura G. Reinholdt, Lars Romoth, Lesley Shirley, Cristina Sisu, Marcela Sjöberg, Mario Stanke, Charles A. Steward, Mark Thomas, Glen Threadgold, David Thybert, James Torrance, Kim Wong, Jonathan Wood, Binnaz Yalcin, Fengtang Yang, David J. Adams, Benedict Paten, Thomas Keane - Nature Genetics 2018 cited by 332

  13. The house spider genome reveals an ancient whole-genome duplication during arachnid evolution

    Authors: Evelyn E. Schwager, Prashant P. Sharma, Thomas H. Clarke, Daniel J. Leite, Torsten Wierschin, Matthias Pechmann, Yasuko Akiyama‐Oda, Lauren A. Esposito, Jesper Bechsgaard, Trine Bilde, Alexandra D. Buffry, Hsu Chao, Huyen Dinh, HarshaVardhan Doddapaneni, Shannon Dugan, Cornelius Eibner, Cassandra G. Extavour, Peter Funch, Jessica E. Garb, Luis Baudouin Gonzalez, Vanessa L. González, Sam Griffiths‐Jones, Yi Han, Cheryl Y. Hayashi, Maarten Hilbrant, Daniel Hughes, Ralf Janßen, Sandra L. Lee, Ignacio Maeso, Shwetha C. Murali, Donna M. Muzny, Rodrigo Nunes da Fonseca, Christian Louis Bonatto Paese, Jiaxin Qu, Matthew Ronshaugen, Christoph Schomburg, Anna Schönauer, Angelika Stollewerk, Montserrat Torres-Oliva, Natascha Turetzek, Bram Vanthournout, John H. Werren, Carsten Wolff, Kim C. Worley, Gregor Bucher, Richard A. Gibbs, Jonathan A. Coddington, Hiroki Oda, Mario Stanke, Nadia A. Ayoub, Nikola-Michael Prpíc, Jean‐François Flot, Nico Posnien, Stephen Richards, Alistair P. McGregor - BMC Biology 2017 cited by 492

  14. AUGUSTUS at EGASP: using EST, protein and genomic alignments for improved gene prediction in the human genome

    Authors: Mario Stanke, Ana Tzvetkova, Burkhard Morgenstern - Genome biology 2006 cited by 340

  15. Large scale RNAi screen in Tribolium reveals novel target genes for pest control and the proteasome as prime target

    Authors: Julia Ulrich, Van‐Anh Dao, Upalparna Majumdar, Christian Schmitt-Engel, Jonas Schwirz, Dorothea Schultheis, Nadi Ströhlein, Nicole Troelenberg, Daniela Großmann, Tobias Richter, Jürgen Dönitz, Lizzy Gerischer, Gérard Leboulle, Andreas Vilcinskas, Mario Stanke, Gregor Bucher - BMC Genomics 2015 cited by 181

  16. BRAKER2: Automatic Eukaryotic Genome Annotation with GeneMark-EP+ and AUGUSTUS Supported by a Protein Database

    Authors: Tomáš Brůna, Katharina J. Hoff, Alexandre Lomsadze, Mario Stanke, Mark Borodovsky - NAR Genomics and Bioinformatics 2020 cited by 1,811

  17. The iBeetle large-scale RNAi screen reveals gene functions for insect development and physiology

    Authors: Christian Schmitt-Engel, Dorothea Schultheis, Jonas Schwirz, Nadi Ströhlein, Nicole Troelenberg, Upalparna Majumdar, Van‐Anh Dao, Daniela Großmann, Tobias Richter, Maike Tech, Jürgen Dönitz, Lizzy Gerischer, Mirko Theis, Inga Schild, Jochen Trauner, Nikolaus Koniszewski, Elke Küster-Schöck, Sebastian Kittelmann, Yonggang Hu, Sabrina Lehmann, Janna Siemanowski, Julia Ulrich, Kristen A. Panfilio, Reinhard Schröder, Burkhard Morgenstern, Mario Stanke, Frank Buchhholz, Manfred Frasch, Siegfried Roth, Ernst A. Wimmer, Michael Schoppmeier, Martin Klingler, Gregor Bucher - Nature Communications 2015 cited by 220

  18. Multi-Genome Annotation with AUGUSTUS

    Authors: Stefanie Nachtweide, Mario Stanke - Methods in molecular biology 2019 cited by 106

  19. Gene Transfer from Bacteria and Archaea Facilitated Evolution of an Extremophilic Eukaryote

    Authors: Gerald Schönknecht, Wei‐Hua Chen, Chad M. Ternes, Guillaume G. Barbier, Roshan P. Shrestha, Mario Stanke, Andrea Bräutigam, Brett J. Baker, Jillian F. Banfield, R. Michael Garavito, Kevin M. Carr, Curtis G. Wilkerson, Stefan A. Rensing, David Gagneul, Nicholas E. Dickenson, Christine Oesterhelt, Martin J. Lercher, Andreas P.M. Weber - Science 2013 cited by 511

  20. Wild tobacco genomes reveal the evolution of nicotine biosynthesis

    Authors: Shuqing Xu, Thomas Brockmöller, Aura Navarro‐Quezada, Heiner Kuhl, Klaus Gase, Zhihao Ling, Wenwu Zhou, Christoph Kreitzer, Mario Stanke, Haibao Tang, Eric Lyons, Priyanka Pandey, Shree P. Pandey, Bernd Timmermann, Emmanuel Gaquerel, Ian T. Baldwin - National Academy of Sciences, Proceedings of the National Academy of Sciences 2017 cited by 216

  21. Sequencing of Culex quinquefasciatus Establishes a Platform for Mosquito Comparative Genomics

    Authors: Peter Arensburger, Karyn Mégy, Robert M. Waterhouse, Jenica Abrudan, Paolo Amedeo, Beatriz Antelo, Lyric C. Bartholomay, Shelby Bidwell, Elisabet Caler, Francisco Câmara Ferreira, Corey L. Campbell, Kathryn S. Campbell, Claudio Casola, Marta T. Castro, Ishwar Chandramouliswaran, Sinéad B. Chapman, Scott Christley, Javier Costas, Eric Eisenstadt, Cédric Feschotte, Claire M. Fraser, Roderic Guigó, Brian J. Haas, M. Hammond, Bill S. Hansson, Janet Hemingway, Sharon R. Hill, Clint Howarth, Rickard Ignell, Ryan Kennedy, Chinnappa D. Kodira, Neil F. Lobo, Chunhong Mao, George F. Mayhew, Kristin Michel, Akio Mori, Nannan Liu, Horacio Naveira, Vishvanath Nene, Nam Q. Nguyen, Matthew D. Pearson, Ellen J. Pritham, Daniela Puiu, Yumin Qi, Hilary Ranson, José M. C. Ribeiro, Hugh M. Roberston, David W. Severson, Martin Shumway, Mario Stanke, Robert L. Strausberg, Cheng Sun, Granger Sutton, Zhijian Tu, José M. C. Tubío, Maria Unger, Dana L. Vanlandingham, Albert J. Vilella, Owen White, Jared White, Charles S. Wondji, Jennifer R. Wortman, Evgeny M. Zdobnov, Bruce W. Birren, Bruce M. Christensen, Frank H. Collins, Anthony J. Cornel, George Dimopoulos, Linda I. Hannick, Stephen Higgs, Gregory C. Lanzaro, Daniel Lawson, Norman H. Lee, Marc A. T. Muskavitch, Alexander S. Raikhel, Peter W. Atkinson - Science 2010 cited by 486

  22. Repeat associated mechanisms of genome evolution and function revealed by the Mus caroli and Mus pahari genomes

    Authors: David Thybert, Maša Roller, Fábio C. P. Navarro, Ian T. Fiddes, Ian Streeter, Christine Feig, David Martín‐Gálvez, Mikhail Kolmogorov, Václav Janoušek, Wasiu Akanni, Bronwen Aken, Sarah Aldridge, Varshith Chakrapani, William Chow, Laura Clarke, Carla Cummins, Anthony Doran, Matthew Dunn, Leo Goodstadt, Kerstin Howe, Matthew Howell, Ambre-Aurore Josselin, Robert C. Karn, Christina M. Laukaitis, Lilue Jingtao, Fergal J. Martin, Matthieu Muffato, Stefanie Nachtweide, Michael A. Quail, Cristina Sisu, Mario Stanke, Klara Stefflova, Cock van Oosterhout, Frédéric Veyrunes, Ben J. Ward, Fengtang Yang, Golbahar Yazdanifar, Amonida Zadissa, David J. Adams, Alvis Brāzma, Mark Gerstein, Benedict Paten, Son Pham, Thomas Keane, Duncan T. Odom, Paul Flicek - Genome Research 2018 cited by 135

  23. Genome Sequence of Aedes aegypti , a Major Arbovirus Vector

    Authors: Vishvanath Nene, Jennifer R. Wortman, Daniel Lawson, Brian J. Haas, Chinnappa D. Kodira, Zhijian Tu, Brendan Loftus, Zhiyong Xi, Karyn Mégy, Manfred Grabherr, Quinghu Ren, Evgeny M. Zdobnov, Neil F. Lobo, Kathryn S. Campbell, Susan E. Brown, Maria F. Bonaldo, Jinsong Zhu, Steven P. Sinkins, David G. Hogenkamp, Paolo Amedeo, Peter Arensburger, Peter W. Atkinson, Shelby Bidwell, Jim Biedler, Ewan Birney, Robert V. Bruggner, Javier Costas, Monique R. Coy, Jonathan Crabtree, Matt Crawford, Becky deBruyn, David DeCaprio, Karin Eiglmeier, Eric Eisenstadt, Hamza A. El-Dorry, William M Gelbart, Suely Lopes Gomes, M. Hammond, Linda I. Hannick, James R. Hogan, Michael H. Holmes, David B. Jaffe, J. Spencer Johnston, Ryan Kennedy, Hyunwoo Koo, Saul Kravitz, Evgenia V. Kriventseva, David Kulp, Kurt LaButti, Eduardo Lee, Li Song, Diane D. Lovin, Chunhong Mao, Evan Mauceli, Carlos Frederico Martins Menck, Jason Miller, Philip Montgomery, Akio Mori, Ana L. T. O. Nascimento, Horacio Naveira, Chad Nusbaum, Sinéad B. O'Leary, Joshua Orvis, Mihaela Pertea, Hadi Quesneville, Kyanne R. Reidenbach, Yu-Hui Rogers, Charles W. Roth, Jennifer R. Schneider, Michael C. Schatz, Martin Shumway, Mario Stanke, E. O. Stinson, José M. C. Tubío, Janice P. VanZee, Sergio Verjovski‐Almeida, Doreen Werner, Owen White, Stefan Wyder, Qiandong Zeng, Qi Zhao, Yongmei Zhao, Catherine A. Hill, Alexander S. Raikhel, Marcelo B. Soares, D. L. Knudson, Norman H. Lee, James E. Galagan, Steven L. Salzberg, Ian T. Paulsen, George Dimopoulos, Frank H. Collins, Bruce Birren, Claire M. Fraser, David W. Severson - Science 2007 cited by 1,123

  24. Insights into evolution of multicellular fungi from the assembled chromosomes of the mushroom Coprinopsis cinerea ( Coprinus cinereus )

    Authors: Jason Stajich, Sarah K. Wilke, Dag Ahrén, Chun Hang Au, Bruce W. Birren, Mark Borodovsky, Claire Burns, Björn Canbäck, Lorna A. Casselton, Eric C. K. Cheng, Jixin Deng, Fred S. Dietrich, David C. Fargo, Mark Farman, Allen C. Gathman, Jonathan M. Goldberg, Roderic Guigó, Patrick J. Hoegger, James B. Hooker, Ashleigh Huggins, Timothy Y. James, Takashi Kamada, Sreedhar Kilaru, Chinnapa Kodira, Ursula Kües, Doris M. Kupfer, Hoi Shan Kwan, Alexandre Lomsadze, Weixi Li, Walt W. Lilly, Li‐Jun Ma, Aaron J. Mackey, Gerard Manning, Francis Martin, Hajime Muraguchi, Donald O. Natvig, Heather J Palmerini, Marilee A. Ramesh, Cathy J. Rehmeyer, Bruce A. Roe, Narmada Shenoy, Mario Stanke, Vardges Ter-Hovhannisyan, Anders Tunlid, Rajesh Velagapudi, Todd Vision, Qiandong Zeng, Miriam E. Zolan, Patricia J. Pukkila - National Academy of Sciences, Proceedings of the National Academy of Sciences 2010 cited by 425