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Genetics

D-Index
55
Citations
35059
World Ranking
3531
National Ranking
239

Overview

Mario Stanke is affiliated with the University of Greifswald in Germany. Their research primarily focuses on Biochemistry, Genetics, and Molecular Biology, with a notable specialization in Molecular Biology among subfields. Other areas of work include Plant Science, Genetics, Radiology, Nuclear Medicine and Imaging, and Insect Science.

The scientist has contributed extensively to topics such as:

  • Genomics and Phylogenetic Studies
  • RNA and protein synthesis mechanisms
  • Machine Learning in Bioinformatics
  • Chromosomal and Genetic Variations
  • Genomics and Chromatin Dynamics
  • Genetic diversity and population structure
  • Genetics, Bioinformatics, and Biomedical Research

Research outputs by Mario Stanke include numerous publications, with notable papers such as:

  • BRAKER2: automatic eukaryotic genome annotation with GeneMark-EP+ and AUGUSTUS supported by a protein database, 2021, NAR Genomics and Bioinformatics
  • BRAKER3: Fully automated genome annotation using RNA-seq and protein evidence with GeneMark-ETP, AUGUSTUS, and TSEBRA, 2024, Genome Research
  • TSEBRA: transcript selector for BRAKER, 2021, BMC Bioinformatics
  • BRAKER3: Fully automated genome annotation using RNA-seq and protein evidence with GeneMark-ETP, AUGUSTUS and TSEBRA, 2023, bioRxiv (Cold Spring Harbor Laboratory)
  • BRAKER2: Automatic Eukaryotic Genome Annotation with GeneMark-EP+ and AUGUSTUS Supported by a Protein Database, 2020, bioRxiv (Cold Spring Harbor Laboratory)

Frequent coauthors collaborating with Mario Stanke include:

  • Katharina J. Hoff
  • Tomáš Brůna
  • Lars Gabriel
  • Matthis Ebel
  • Mark Borodovsky

Publication venues where the scientist has frequently published encompass:

  • bioRxiv (Cold Spring Harbor Laboratory)
  • Faculty Opinions - Post-Publication Peer Review of the Biomedical Literature
  • BMC Bioinformatics
  • Bioinformatics
  • Genome Research

Best Publications

  • AUGUSTUS: ab initio prediction of alternative transcripts

    Mario Stanke;Oliver Keller;Irfan Gunduz;Alec Hayes

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

    Mario Stanke;Mark Diekhans;Robert Baertsch;David Haussler

  • Genome Sequence of the Pea Aphid Acyrthosiphon pisum

    Stephen Richards;Richard A. Gibbs;Nicole M. Gerardo;Nancy Moran

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

    Mario Stanke;Burkhard Morgenstern

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

    Mario Stanke;Stephan Waack

  • The genome of the model beetle and pest Tribolium castaneum.

    Stephen Richards;Richard A. Gibbs;George M. Weinstock;Susan J. Brown

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

    Mario Stanke;Oliver Schöffmann;Burkhard Morgenstern;Stephan Waack

  • AUGUSTUS: a web server for gene finding in eukaryotes

    Mario Stanke;Rasmus Steinkamp;Stephan Waack;Burkhard Morgenstern

  • Genome sequence of Aedes aegypti, a major arbovirus vector

    Vishvanath Nene;Jennifer R. Wortman;Daniel Lawson;Brian Haas

  • BRAKER2: automatic eukaryotic genome annotation with GeneMark-EP+ and AUGUSTUS supported by a protein database

    Tomáš Brůna;Katharina J Hoff;Alexandre Lomsadze;Mario Stanke

  • The genome of the blood fluke Schistosoma mansoni

    Matthew Berriman;Brian J. Haas;Brian J. Haas;Philip T. LoVerde;R. Alan Wilson

  • The Amphimedon queenslandica genome and the evolution of animal complexity

    Mansi Srivastava;Oleg Simakov;Oleg Simakov;Jarrod Chapman;Bryony Fahey

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

    Katharina Jasmin Hoff;Simone Lange;Alexandre Lomsadze;Mark Borodovsky

  • Functional and evolutionary insights from the genomes of three parasitoid Nasonia species.

    John H. Werren;Stephen Richards;Christopher A. Desjardins;Oliver Niehuis

  • Draft Genome of the Filarial Nematode Parasite Brugia malayi

    Elodie Ghedin;Elodie Ghedin;Shiliang Wang;David Spiro;Elisabet Caler

  • Whole-Genome Annotation with BRAKER.

    Katharina J Hoff;Alexandre Lomsadze;Mark Borodovsky;Mark Borodovsky;Mario Stanke

  • Draft genome sequence of the oilseed species Ricinus communis

    Agnes P Chan;Jonathan Crabtree;Qi Zhao;Hernan Lorenzi

  • The UCSC Genome Browser Database: 2008 update.

    D. Karolchik;R. M. Kuhn;R. Baertsch;G. P. Barber

  • Sequencing of Culex quinquefasciatus Establishes a Platform for Mosquito Comparative Genomics

    Peter Arensburger;Karine Megy;Robert M Waterhouse;Robert M Waterhouse;Jenica Abrudan

  • A novel hybrid gene prediction method employing protein multiple sequence alignments

    Oliver Keller;Martin Kollmar;Mario Stanke;Stephan Waack

Frequent Co-Authors

Burkhard Morgenstern
Burkhard Morgenstern University of Göttingen
Evgeny M. Zdobnov
Evgeny M. Zdobnov Swiss Institute of Bioinformatics
Thomas M. Keane
Thomas M. Keane European Bioinformatics Institute
Duncan T. Odom
Duncan T. Odom University of Cambridge
Kim C. Worley
Kim C. Worley Baylor College of Medicine
Paul Flicek
Paul Flicek The Jackson Laboratory
Donna M. Muzny
Donna M. Muzny Baylor College of Medicine
Robert M. Waterhouse
Robert M. Waterhouse Swiss Institute of Bioinformatics
Mark Borodovsky
Mark Borodovsky Georgia Institute of Technology
Richard A. Gibbs
Richard A. Gibbs Baylor College of Medicine

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