ZMB Member Simo Kitanovski

ZMB Member
Simo Kitanovski

Next ZMB-Member
Simo Simo Kitanovski portrait
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Dr. Simo Kitanovski

Junior Group

Computational Immunology

Faculty of Biology
University of Duisburg-Essen
Universitätsstr. 2
45141 Essen

Research Overview

The adaptive immune system relies on an extraordinary diversity of B- and T-cell receptors to recognize and respond to threats. By combining computational biology, probabilistic modeling, and high-throughput sequencing, we seek to uncover the principles governing the organization and dynamics of immune receptor repertoires and adaptive immune responses.

Selected Publications

    Journal articles

  • Kitanovski, Simo; Wollek, Kai; Hoffmann, Daniel
    Uncertainty-aware quantitative analysis of the structure and dynamics of T cell receptor repertoires
    In: eLife, Vol. 15, 2026, RP112537
    DOI (Open Access)
  • Kitanovski, Simo; Wollek, Kai; Hoffmann, Daniel
    Quantitative Visualisierung von HTseq-Daten
    In: Biospektrum, Vol. 31, 2025, Nr. 1, pp. 49 – 51
    DOI (Open Access)
  • Srinivas, Nalini; Spassova, Ivelina; Lei, Kuan Cheok; Gao, Jiwei; Pino, María José; Giglio, Giovanni; Kitanovski, Simo; Dalkoohi, Mazdak; Livingstone, Elisabeth; Leiter, Ulrike; Mohr, Peter; Gambichler, Thilo; Stoffels, Ingo; Ugurel, Selma; Cheung, Phyllis Fung-Yi; Engblom, Camilla; Lui, Weng-Onn; Becker, Jürgen Christian
    Tertiary lymphoid structures in Merkel cell carcinoma facilitate naïve and central memory T-cell infiltration linked to immunotherapy response
    In: Journal for ImmunoTherapy of Cancer, Vol. 13, 2025, Nr. 9, pp. e012224
    DOI, Online Full Text (Open Access)
  • Wang, Jun; Li, Qian; Qiu, Yuanwang; Kitanovski, Simo; Wang, Chen; Zhang, Chenxia; Li, Fahong; Li, Xiaoguang; Zhang, Zhenfeng; Huang, Lihua; Zhang, Jiming; Hoffmann, Daniel; Lu, Mengji; Lu, Hongzhou
    Cell-type-specific expression analysis of liver transcriptomics with clinical parameters to decipher the cause of intrahepatic inflammation in chronic hepatitis B
    In: iMeta, Vol. 3, 2024, Nr. 4, e221
    DOI (Open Access)
  • Li, Qian; Wang, Cheng; Gou, Jizhou; Kitanovski, Simo; Tang, XiangYi; Cai, Yixuan; Zhang, Chenxia; Zhang, Xiling; Zhang, Zhenfeng; Qiu, Yuanwang; Zhao, Fang; Lu, Mengji; He, Yun; Wang, Jun; Lu, Hongzhou
    Deciphering lung granulomas in HIV & TB co-infection : unveiling macrophages aggregation with IL6R/STAT3 activation
    In: Emerging Microbes & Infections, Vol. 13, 2024, Nr. 1, 2366359
    DOI (Open Access)
  • Kitanovski, Simo; Cao, Yingying; Ttoouli, Dimitris; Farahpour, Farnoush; Wang, Jun; Hoffmann, Daniel
    scBubbletree: computational approach for visualization of single cell RNA-seq data
    In: BMC Bioinformatics, Vol. 25, 2024, Nr. 1, 302
    DOI, Online Full Text (Open Access)
  • Waterkamp, Christoph; von Kortzfleisch, V T; Neu, Ch; Kitanovski, Simo; Richter, S H; Hoffmann, Daniel
    Increasing information gain in animal research by improving statistical model accuracy
    In: Journal of Physics: Conference Series (JPCONF), Vol. 2514, 2023, Nr. 1, 012021
    DOI (Open Access)
  • Wülling, Manuela; Neu, Christoph; Thiesen, Andrea M.; Kitanovski, Simo; Cao, Yingying; Lange, Anja; Westendorf, Astrid; Hoffmann, Daniel; Vortkamp, Andrea
    Epigenetic mechanisms mediating cell state transitions in chondrocytes
    In: Journal of Bone and Mineral Research (JBMR), Vol. 36, 2021, Nr. 5, pp. 968 – 985
    DOI, Online Full Text (Open Access)
  • Duhan, Vikas; Khairnar, Vishal; Kitanovski, Simo; Hamdan, Thamer A.; Klein, Andrés D.; Lang, Judith; Ali, Murtaza; Adomati, Tom; Bhat, Hilal; Friedrich, Sarah-Kim; Li, Fanghui; Krebs, Philippe; Futerman, Anthony H.; Addo, Marylyn M.; Hardt, Cornelia; Hoffmann, Daniel; Lang, Philipp A.; Lang, Karl S.
    Integrin Alpha E (CD103) Limits Virus-Induced IFN-I Production in Conventional Dendritic Cells
    In: Frontiers in Immunology, Vol. 11, 2021, 607889
    DOI, Online Full Text (Open Access)
  • Kitanovski, Simo; Horemheb-Rubio, Gibran; Adams, Ortwin; Gärtner, Barbara; Lengauer, Thomas; Hoffmann, Daniel; Kaiser, Rolf
    Rhinovirus prevalence as indicator for efficacy of measures against SARS-CoV-2
    In: BMC Public Health, Vol. 21, 2021, Nr. 1, 1178
    DOI, Online Full Text (Open Access)
  • Cao, Yingying; Kitanovski, Simo; Küppers, Ralf; Hoffmann, Daniel
    UMI or not UMI, that is the question for scRNA-seq zero-inflation
    In: Nature Biotechnology, Vol. 39, 2021, Nr. 2, pp. 158 – 159
    DOI, Online Full Text (Open Access)
  • Kitanovski, Simo; Hoffmann, Daniel
    IgGeneUsage : differential gene usage in immune repertoires
    In: Bioinformatics, Vol. 36, 2020, Nr. 11, pp. 3590 – 3591
    DOI
  • Cao, Yingying; Kitanovski, Simo; Hoffmann, Daniel
    intePareto : an R package for integrative analyses of RNA-Seq and ChIP-Seq data
    International Conference on Intelligent Biology and Medicine (ICIBM 2020), 9.-10.08.2020, Virtual,
    In: BMC Genomics, Vol. 21, 2020, Nr. Supplement 11, pp. 802
    DOI (Open Access)
  • Tucci, Felicia A.; Kitanovski, Simo; Johansson, Patricia; Klein-Hitpaß, Ludger; Kahraman, Alisan; Dürig, Jan; Hoffmann, Daniel; Küppers, Ralf
    Biased IGH VDJ gene repertoire and clonal expansions in B cells of chronically hepatitis C virus–infected individuals
    In: Blood, Vol. 131, 2018, Nr. 5, pp. 546 – 557
    DOI (Open Access)