Mario Stanke

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Burkhard MorgensternProfessor of Bioinformatics, University of GöttingenVerified email at gwdg.de
Katharina HoffPrivatdozentin at University of GreifswaldVerified email at uni-greifswald.de
Stephan WaackProfessor für Informatik, Universität GöttingenVerified email at informatik.uni-goettingen.de
Mark BorodovskyRegents' Professor, Georgia TechVerified email at gatech.edu
Mark DiekhansUniversity of California, Santa Cruz; UC Santa Cruz Genomics InstituteVerified email at soe.ucsc.edu
David HausslerScientific Director, UC Santa Cruz Genomics Institute, University of California, Santa CruzVerified email at soe.ucsc.edu
Alex LomsadzeSenior Research Scientist, The Wallace H. Coulter Department of Biomedical Engineering at GeorgiaVerified email at gatech.edu
Bette KorberLos Alamos National LaboratoryVerified email at lanl.gov
Ming ZhangUniversity of GeorgiaVerified email at uga.edu
Thomas LeitnerLos Alamos National LaboratoryVerified email at lanl.gov
Jakob Skou PedersenProfessor at Department of Molecular Medicine, Aarhus UniversityVerified email at ki.au.dk
W James KentUC Santa Cruz Genomics Institute, University of California Santa Cruz, UCSC Genome BrowserVerified email at soe.ucsc.edu
Hiram ClawsonUC Santa Cruz Genomics Institute, UCSC Genome BrowserVerified email at ucsc.edu
Kate RosenbloomUC Santa Cruz Genomics Institute, UCSC Genome BrowserVerified email at soe.ucsc.edu
Robert KuhnUC Santa Cruz Genomics Institute, UCSC Genome BrowserVerified email at soe.ucsc.edu
Brooke RheadStaff Scientist, AncestryVerified email at berkeley.edu
Ann ZweigUCSC Genome Browser, UC Santa Cruz Genomics InstituteVerified email at ucsc.edu
Galt BarberUC Santa Cruz Genomics Institute, UCSC Genome BrowserVerified email at folkplanet.com
Brian RaneyUniversity of California, Santa Cruz, UC Santa Cruz Genomics Institute, UCSC Genome BrowserVerified email at ucsc.edu
Angie S. HinrichsUC Santa Cruz Genomics Institute, UCSC Genome BrowserVerified email at soe.ucsc.edu

Mario Stanke

Professor of Bioinformatics, University of Greifswald

Verified email at uni-greifswald.de - Homepage

gene prediction comparative genome analysis machine learning probabilistical graphical models molecular evolution


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Gene prediction with a hidden Markov model and a new intron submodel M Stanke, S Waack Bioinformatics 19 (suppl_2), ii215-ii225, 2003	1345	2003
The genome of the model beetle and pest Tribolium castaneum. S Richards, RA Gibbs, GM Weinstock, SJ Brown, R Denell, RW Beeman, ... Nature 452 (7190), 949-955, 2008	1300	2008
AUGUSTUS: ab initio prediction of alternative transcripts M Stanke, O Keller, I Gunduz, A Hayes, S Waack, B Morgenstern Nucleic acids research 34 (suppl_2), W435-W439, 2006	1254	2006
Genome sequence of Aedes aegypti, a major arbovirus vector V Nene, JR Wortman, D Lawson, B Haas, C Kodira, ZJ Tu, B Loftus, Z Xi, ... Science, 2007	1220	2007
Using native and syntenically mapped cDNA alignments to improve de novo gene finding M Stanke, M Diekhans, R Baertsch, D Haussler Bioinformatics 24 (5), 637-644, 2008	1150	2008
The genome of the blood fluke Schistosoma mansoni M Berriman, BJ Haas, PT LoVerde, RA Wilson, GP Dillon, GC Cerqueira, ... Nature 460 (7253), 352-358, 2009	1127	2009
AUGUSTUS: a web server for gene prediction in eukaryotes that allows user-defined constraints M Stanke, B Morgenstern Nucleic acids research 33 (suppl_2), W465-W467, 2005	1009	2005
The Amphimedon queenslandica genome and the evolution of animal complexity M Srivastava, O Simakov, J Chapman, B Fahey, MEA Gauthier, T Mitros, ... Nature 466 (7307), 720-726, 2010	1004	2010
AUGUSTUS: a web server for gene finding in eukaryotes M Stanke, R Steinkamp, S Waack, B Morgenstern Nucleic acids research 32 (suppl_2), W309-W312, 2004	1003	2004
Genome Sequence of the Pea Aphid Acyrthosiphon pisum International Aphid Genomics Consortium PLoS biology 8 (2), e1000313, 2010	890	2010
Functional and Evolutionary Insights from the Genomes of Three Parasitoid Nasonia Species JH Werren, S Richards, CA Desjardins, O Niehuis, J Gadau, ... Science 327 (5963), 343-348, 2010	845	2010
Gene prediction in eukaryotes with a generalized hidden Markov model that uses hints from external sources M Stanke, O Schöffmann, B Morgenstern, S Waack BMC bioinformatics 7 (1), 1-11, 2006	826	2006
Draft genome of the filarial nematode parasite Brugia malayi E Ghedin, S Wang, D Spiro, E Caler, Q Zhao, J Crabtree, JE Allen, ... Science 317 (5845), 1756-1760, 2007	678	2007
BRAKER1: unsupervised RNA-Seq-based genome annotation with GeneMark-ET and AUGUSTUS KJ Hoff, S Lange, A Lomsadze, M Borodovsky, M Stanke Bioinformatics 32 (5), 767-769, 2016	671	2016
Assessment of transcript reconstruction methods for RNA-seq T Steijger, JF Abril, PG Engström, F Kokocinski, TJ Hubbard, R Guigó, ... Nature methods 10 (12), 1177-1184, 2013	641	2013
The UCSC genome browser database: 2008 update D Karolchik, RM Kuhn, R Baertsch, GP Barber, H Clawson, M Diekhans, ... Nucleic acids research 36 (suppl_1), D773-D779, 2007	590	2007
Draft genome sequence of the oilseed species Ricinus communis AP Chan, J Crabtree, Q Zhao, H Lorenzi, J Orvis, D Puiu, ... Nature biotechnology 28 (9), 951-956, 2010	520	2010
Sequencing of Culex quinquefasciatus Establishes a Platform for Mosquito Comparative Genomics P Arensburger, K Megy, RM Waterhouse, J Abrudan, P Amedeo, B Antelo, ... Science 330 (6000), 86-88, 2010	485	2010
Insights into evolution of multicellular fungi from the assembled chromosomes of the mushroom Coprinopsis cinerea (Coprinus cinereus) JE Stajich, SK Wilke, D Ahrén, CH Au, BW Birren, M Borodovsky, C Burns, ... Proceedings of the National Academy of Sciences 107 (26), 11889-11894, 2010	429	2010
Gene transfer from bacteria and archaea facilitated evolution of an extremophilic eukaryote G Schönknecht, WH Chen, CM Ternes, GG Barbier, RP Shrestha, ... Science 339 (6124), 1207-1210, 2013	424	2013

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