Dipl. Phys. Tim Johann

PHD STUDENT

Image analysis and multiscale tissue modeling

johann@izbi.uni-leipzig.de

+49 (0) 341 - 97 16628

Room: 447.1

ACADEMIC CAREER

  • University of Leipzig, Bioinformatics, Hoehme Lab Research Group for multicellular systems biology, image analysis and multiscale liver models
  • Modelling of Biological Processes Group, BioQuant, University of Heidelberg
  • EML Research gGmbH, Heidelberg (now HITS)
  • Astronomisches Rechen-Institut (Institute for Astronomical Computations), Heidelberg
  • Kirchhoff Institute of Physics, University of Heidelberg
  • Schrodinger Inc. Anterio Research, Mannheim

SCIENTIFIC INTERESTS

  • Software engineering / Architecture

PUBLICATIONS

2021 (1)

  • Johannes Wolf, Edith Willscher, Henry Loeffler-Wirth, Maria Schmidt, Gunter Flemming, Marlen Zurek, Holm H. Uhlig, Norman Händel, Hans Binder. Deciphering the Transcriptomic Heterogeneity of Duodenal Coeliac Disease Biopsies. International Journal of Molecular Sciences. 2021. 22: 2551.

2018 (2)

  • S. N. Grobner, B. C. Worst, J. Weischenfeldt, I. Buchhalter, K. Kleinheinz, V. A. Rudneva, P. D. Johann, G. P. Balasubramanian, M. Segura-Wang, S. Brabetz, S. Bender, B. Hutter, D. Sturm, E. Pfaff, D. Hubschmann, G. Zipprich, M. Heinold, J. Eils, C. Lawerenz, S. Erkek, S. Lambo, S. Waszak, C. Blattmann, A. Borkhardt, M. Kuhlen, A. Eggert, S. Fulda, M. Gessler, J. Wegert, R. Kappler, D. Baumhoer, S. Burdach, R. Kirschner-Schwabe, U. Kontny, A. E. Kulozik, D. Lohmann, S. Hettmer, C. Eckert, S. Bielack, M. Nathrath, C. Niemeyer, G. H. Richter, J. Schulte, R. Siebert, F. Westermann, J. J. Molenaar, G. Vassal, H. Witt, B. Burkhardt, C. P. Kratz, O. Witt, C. M. van Tilburg, C. M. Kramm, G. Fleischhack, U. Dirksen, S. Rutkowski, M. Fruhwald, K. von Hoff, S. Wolf, T. Klingebiel, E. Koscielniak, P. Landgraf, J. Koster, A. C. Resnick, J. Zhang, Y. Liu, X. Zhou, A. J. Waanders, D. A. Zwijnenburg, P. Raman, B. Brors, U. D. Weber, P. A. Northcott, K. W. Pajtler, M. Kool, R. M. Piro, J. O. Korbel, M. Schlesner, R. Eils, D. T. W. Jones, P. Lichter, L. Chavez, M. Zapatka, S. M. Pfister. Author Correction: The landscape of genomic alterations across childhood cancers. Nature. 2018. 559: E10.
  • M. Kunz, H. Loffler-Wirth, M. Dannemann, E. Willscher, G. Doose, J. Kelso, T. Kottek, B. Nickel, L. Hopp, J. Landsberg, S. Hoffmann, T. Tuting, P. Zigrino, C. Mauch, J. Utikal, M. Ziemer, H. J. Schulze, M. Holzel, A. Roesch, S. Kneitz, S. Meierjohann, A. Bosserhoff, H. Binder, M. Schartl. RNA-seq analysis identifies different transcriptomic types and developmental trajectories of primary melanomas. Oncogene. 2018. 37: 6136-6151.

2015 (1)

  • A. Friebel, J. Neitsch, T. Johann, S. Hammad, J. G. Hengstler, D. Drasdo, S. Höhme. TiQuant: software for tissue analysis, quantification and surface reconstruction. Bioinformatics. 2015. 31: 3234-6.

2014 (1)

  • S. Hammad, S. Höhme, A. Friebel, I. von Recklinghausen, A. Othman, B. Begher-Tibbe, R. Reif, P. Godoy, T. Johann, A. Vartak, K. Golka, P. O. Bucur, E. Vibert, R. Marchan, B. Christ, S. Dooley, C. Meyer, I. Ilkavets, U. Dahmen, O. Dirsch, J. Bottger, R. Gebhardt, D. Drasdo, J. G. Hengstler. Protocols for staining of bile canalicular and sinusoidal networks of human, mouse and pig livers, three-dimensional reconstruction and quantification of tissue microarchitecture by image processing and analysis. Arch Toxicol. 2014. 88: 1161-83.

2009 (1)

  • J. Erlecke, I. Hartmann, M. Hoffmann, T. Kroll, H. Starke, A. Heller, A. Gloria, H. G. Sayer, T. Johannes, U. Claussen, T. Liehr, I. F. Loncarevic. Automated detection of residual cells after sex-mismatched stem-cell transplantation - evidence for presence of disease-marker negative residual cells. Mol Cytogenet. 2009. 2: 12.
 

MISCELLANEOUS