2023 (1)

• Bray, S., Chilton, J., Bernt, M., Soranzo, N., van den Beek, M., Batut, B., Rasche, H., Čech, M., Cock, P.J.A., Grüning, B., Nekrutenko, A. (2023):
  The Planemo toolkit for developing, deploying, and executing scientific data analyses in Galaxy and beyond
  Genome Res. 33 , 261 - 268
  full text (doi)

2022 (4)

• Fahrner, M., Föll, M.C., Grüning, B.A., Bernt, M., Röst, H., Schilling, O. (2022):
  Democratizing data-independent acquisition proteomics analysis on public cloud infrastructures via the Galaxy framework
  GigaScience 11 , giac005
  full text (doi)
• Ostrovsky, A.E., Mahmoud, A., Lonie, A., Syme, A., Fouilloux, A., Bretaudeau, A., Nekrutenko, A., Kumar, A., Eschenlauer, A.C., DeSanto, A.D., Guerler, A., Serrano-Solano, B., Batut, B., Grüning, B.A., Langhorst, B.W., Carr, B., Blankenberg, D., Goecks, J., Bernt, M., Schatz, M.C., The Galaxy Community (2022):
  The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2022 update
  Nucleic Acids Res. 50 (W1), W345 - W351
  full text (doi)
• Schor, J., Scheibe, P., Bernt, M., Busch, W., Lai, C., Hackermüller, J. (2022):
  AI for predicting chemical-effect associations at the chemical universe level — deepFPlearn
  Brief. Bioinform. 23 (5), bbac257
  full text (doi)
• VijayKrishna, N., Joshi, J., Coraor, N., Hillman-Jackson, J., Bouvier, D., van den Beek, M., Eguinoa, I., Coppens, F., Davis, J., Stolarczyk, M., Sheffield, N.C., Gladman, S., Cuccuru, G., Grüning, B., Soranzo, N., Rasche, H., Langhorst, B.W., Bernt, M., Fornika, D., de Lima Morais, D.A., Barrette, M., van Heusden, P., Petrillo, M., Puertas-Gallardo, A., Patak, A., Hotz, H.-R., Blankenberg, D. (2022):
  Expanding the Galaxy’s reference data
  Bioinform. Adv. 2 (1), vbac030
  full text (doi)

2019 (3)

• Donath, A., Jühling, F., Al-Arab, M., Bernhart, S.H., Reinhardt, F., Stadler, P.F., Middendorf, M., Bernt, M. (2019):
  Improved annotation of protein-coding genes boundaries in metazoan mitochondrial genomes
  Nucleic Acids Res. 47 (20), 10543 - 10552
  full text (doi)
• Hartmann, T., Bernt, M., Middendorf, M. (2019):
  An exact algorithm for sorting by weighted preserving genome rearrangements
  IEEE-ACM Trans. Comput. Biol. Bioinform. 16 (1), 52 - 62
  full text (doi)
• Li, Y., Kocot, K.M., Tassia, M.G., Cannon, J.T., Bernt, M., Halanych, K.M. (2019):
  Mitogenomics reveals a novel genetic code in Hemichordata
  Genome Biol. Evol. 11 (1), 29 - 40
  full text (doi)

2018 (1)

• Hartmann, T., Bernt, M., Middendorf, M. (2018):
  EqualTDRL: illustrating equivalent tandem duplication random loss rearrangements
  BMC Bioinformatics 19 , art. 192
  full text (doi)

2017 (1)

• Al Arab, M., Bernt, M., Höner zu Siederdissen, C., Tout, K., Stadler, P.F. (2017):
  Partially local three-way alignments and the sequence signatures of mitochondrial genome rearrangements
  Algorithms Mol. Biol. 12 , art. 22
  full text (doi)