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Center for Computational and Theoretical Biology

Ankenbrand, Markus (Dr.)

Dr. Markus Ankenbrand

PostDoc - ESF ZDEX

Tel: 0931 31-85754

eMail: markus.ankenbrand@uni-wuerzburg.de

Research

I'm PostDoc at the Center for Computational and Theoretical Biology (CCTB).
I studied Biology und Informatics at the University of Würzburg and did my PhD in the Graduate School of Life Sciences.

My research interests are the development and application of algorithms, tools and workflows to generate knowledge from biological data.
Currently my focus is on model interpretability in machine learning.
As part of the ESF ZDEX project I also aim to improve knowledge transfer between the university and companies.

Publications

[ 2021 ] [ 2018 ] [ 2016 ] [ 2015 ] [ 2013 ]

2021 [ nach oben ]

  • Inferring core genome phylogenies for bacteria. Keller, Alexander; Ankenbrand, Markus J in Bacterial Pangenomics (in press), A. Mengoni, M. Fondi, G. Bacci (reds.) (2021).
     

2018 [ nach oben ]

  • Wild bees and their nests host Paenibacillus bacteria with functional potential of avail. Keller, Alexander; Brandel, Annette; Becker, Mira C.; Balles, Rebecca; Abdelmohlsen, Usama R.; Ankenbrand, Markus J.; Sickel, Wiebke in Microbiome (2018). (6) 229.
     
  • FENNEC - Functional Exploration of Natural Networks and Ecological Communities. Ankenbrand, Markus J.; Hohlfeld, Sonja C. Y.; Foerster, Frank; Keller, Alexander in Methods in Ecology and Evolution (2018). 2028–2033.
     
  • Draft Genome Sequence of Paraburkholderia sp. Strain C35, Isolated from a Malaysian Tropical Peat Swamp Forest. Too, Chin Chin; Ong, Kuan Shion; Ankenbrand, Markus J; Lee, Sui Mae; Yule, Catherine M; Keller, Alexander in Genome announcements (2018). 6(25) e00561–18.
     
  • Draft Genome Sequence of Klebsiella sp. Strain C31 Isolated from a Malaysian Tropical Peat Swamp Forest. Too, Chin Chin; Ong, Kuan Shion; Ankenbrand, Markus J; Lee, Sui Mae; Yule, Catherine M; Keller, Alexander in Genome announcements (2018). 6(25) e00560–18.
     
  • chloroExtractor: extraction and assembly of the chloroplast genome from whole genome shotgun data. Ankenbrand, Markus J; Pfaff, Simon; Terhoeven, Niklas; Qureischi, Musga; Gündel, Maik; Weiß, Clemens L.; Hackl, Thomas; Förster, Frank in The Journal of Open Source Software (2018). 3(21) 464.
     

2016 [ nach oben ]

  • Venus flytrap carnivorous lifestyle builds on herbivore defense strategies. Bemm, F.; Becker, D.; Larisch, C.; Kreuzer, I.; Escalante-Perez, M.; Schulze, W. X.; Ankenbrand, M.; Van de Weyer, A. L.; Krol, E.; Al-Rasheid, K. A.; Mithofer, A.; Weber, A. P.; Schultz, J.; Hedrich, R. in Genome Res. (2016). 26(6) 812–825.
     
  • TBro: visualization and management of de novo transcriptomes. Ankenbrand, Markus J.; Weber, Lorenz; Becker, Dirk; Förster, Frank; Bemm, Felix in Database (2016). 2016
     
  • DNA-Metabarcoding – ein neuer Blick auf organismische Diversität. Keller, Alexander; Grimmer, Gudrun; Sickel, Wiebke; Ankenbrand, Markus J in BioSpektrum (2016). 22 147–150.
     
  • biojs-io-biom, a BioJS component for handling data in Biological Observation Matrix (BIOM) format. Ankenbrand, Markus J.; Terhoeven, Niklas; Hohlfeld, Sonja; Förster, Frank; Keller, Alexander in F1000Research (2016). 5 2348.
     
  • bcgTree: automatized phylogenetic tree building from bacterial core genomes. Ankenbrand, Markus J; Keller, Alexander in Genome (2016). 59 783–791.
     

2015 [ nach oben ]

  • ITS2 Database V: Twice as Much. Ankenbrand, M. J.; Keller, A.; Wolf, M.; Schultz, J.; Forster, F. in Mol. Biol. Evol. (2015). 32(11) 3030–3032.
     
  • ITS2 Database V: Twice as Much. Ankenbrand, Markus J.; Keller, Alexander; Wolf, Matthias; Schultz, Jörg; Förster, Frank in Molecular Biology and Evolution (2015). 32(11) 3030–3032.
     
  • Increased efficiency in identifying mixed pollen samples by meta-barcoding with a dual-indexing approach. Sickel, Wiebke; Ankenbrand, Markus; Grimmer, Gudrun; Holzschuh, Andrea; Härtel, Stephan; Lanzen, Jonathan; Steffan-Dewenter, Ingolf; Keller, Alexander in BMC Ecology (2015). 15 20.
     
  • Evaluating multiplexed next-generation sequencing as a method in palynology for mixed pollen samples. Keller, Alexander; Danner, Nadja; Grimmer, Gudrun; Ankenbrand, Markus; von der Ohe, Katharina; von der Ohe, Werner; Rost, Simone; Härtel, Stephan; Steffan-Dewenter, Ingolf in Plant Biology (2015). 17 558–566.
     

2013 [ nach oben ]

  • Compensatory Base Changes in ITS2 Secondary Structures Correlate with the Biological Species Concept Despite Intragenomic Variability in ITS2 Sequences textendash A Proof of Concept. Wolf, Matthias; Chen, Shilin; Song, Jingyuan; Ankenbrand, Markus; Müller, Tobias in PLoS ONE, (J. E. Stajich, red.) (2013). 8(6) e66726.