Research

Links: Google Scholar, ORCID, Research Gate.

Pre-prints

Coming soon.

Journal publications

Yordanov, P., & Stelling, J. (2020). Efficient manipulation and generation of Kirchhoff polynomials for the analysis of non-equilibrium biochemical reaction networks. J. R. Soc. Interface, 17, 20190828. DOI: 10.1098/rsif.2019.0828, pre-print: 10.1101/868323.

Yordanov, P., Stelling, J., & Otero-Muras, I. (2020). BioSwitch: a tool for the detection of bistability and multi-steady state behaviour in signalling and gene regulatory networks. Bioinformatics, 36(5), 1640–1641 . DOI: 10.1093/bioinformatics/btz746.

Yordanov, P., & Stelling, J. (2018). Steady-state differential dose response in biological systems. Biophysical journal, 114(3), 723-736. DOI: 10.1016/j.bpj.2017.11.3780.

Otero-Muras, I., Yordanov, P., & Stelling, J. (2017). Chemical Reaction Network Theory elucidates sources of multistability in interferon signaling. PLoS computational biology, 13(4), e1005454. DOI: 10.1371/journal.pcbi.1005454.

Otero-Muras, I., Yordanov, P., & Stelling, J. (2014). A method for inverse bifurcation of biochemical switches: inferring parameters from dose response curves. BMC systems biology, 8(1), 114. DOI: 10.1186/s12918-014-0114-2.

Yordanov, P., Tyanova, S., Huett, M. T., & Lesne, A. (2011). Asymmetric Transition and Time-Scale Separation in Interlinked Positive Feedback Loops. International Journal of Bifurcation and Chaos, 21(07), 1895-1905. DOI: 10.1142/S0218127411029483, pdf.

Conference publications

Mihalák, M., Uznański, P., & Yordanov, P. (2016). Prime factorization of the Kirchhoff polynomial: Compact enumeration of arborescences. In 2016 Proceedings of the Thirteenth Workshop on Analytic Algorithmics and Combinatorics (ANALCO) (pp. 93-105). Society for Industrial and Applied Mathematics. DOI: 10.1137/1.9781611974324.10 , pre-print: arXiv:1507.07727.

Otero-Muras, I., Yordanov, P., & Stelling, J. (2012). Advances in chemical reaction network theory for the identification of kinetic models. IFAC Proceedings Volumes, 45(16), 1713-1718. DOI: 10.3182/20120711-3-BE-2027.00399.

Software

KirchPy – a Python library for efficient manipulation and compact generation of Kirchhoff polynomials of directed graphs. Source code.

BioSwitch – a Matlab software tool for the detection of multi-steady state behaviour in biochemical reaction networks. Website, source code.

Theses

Yordanov, P. (2017). Perturbation theory for steady-state Laplacian models of biological systems (Doctoral dissertation, ETH Zurich). DOI: 10.3929/ethz-b-000000205.

Yordanov, P. (2011). Gene regulatory networks assembled from network motifs (MSc dissertation, Jacobs University Bremen).

Yordanov, P. (2009). The topology of rare reactions in E. coli metabolism (BSc dissertation, Jacobs University Bremen).

Presentations

Coming soon.