# Publications

### spectral graph theory, complex networks

**Eigenvector-based identification of bipartite subgraphs**

**Paul, D.** and StevanoviÄ‡, D., 2019. Eigenvector-based identification of bipartite subgraphs. *Discrete Applied Mathematics* 269, pp.146-158.

**Bipartite subgraphs and the signless Laplacian matrix**

Kirkland, S. and **Paul, D.**, 2011. Bipartite subgraphs and the signless Laplacian matrix. *Applicable Analysis and Discrete Mathematics* 5(1), pp.1-13.

### Mathematical modeling, systems biology, systems theory, stochastic simulation, biomimetics

**The role of stochastic sequestration dynamics for intrinsic noise filtering in signaling network motifs**

**Paul, D.**, and Radde, N., 2018. The role of stochastic sequestration dynamics for intrinsic noise filtering in signaling network motifs. *Journal of Theoretical Biology* 455, pp.86-96.

**Robustness and filtering properties of ubiquitous signaling network motifs**

**Paul, D.**, and Radde, N., 2016. Robustness and filtering properties of ubiquitous signaling network motifs. *IFAC-PapersOnLine* 49(26), pp.120-127.

**Structural Design with Biological Methods: Optimality, Multi-functionality and Robustness**

**Paul, D.**, Dehkordi, L.K.F., von Scheven, M., Bischoff, M. and Radde, N., 2016. Structural Design with Biological Methods: Optimality, Multi-functionality and Robustness. *In Biomimetic Research for Architecture and Building Construction* pp. 341-360. Springer, Cham.

### structural bioinformatics, computational geometry

**A volumetric method for representing and comparing regions of electrostatic focusing in molecular structure**

Chen, B.Y. and **Paul, D.**, 2012. A volumetric method for representing and comparing regions of electrostatic focusing in molecular structure. * In Proceedings of the ACM Conference on Bioinformatics, Computational Biology and Biomedicine* pp.242-249 (Acceptance rate: 20.7%).

### immunopeptidomics, Bayesian inference, MCMC

**An in silico -in vitro pipeline identifying an HLA-A*02:01+ KRAS G12V+ spliced epitope candidate for a broad tumor-immune response in cancer patients**

Mishto, M.,Mansurkhodzhaev, A.,Ying, G.,Bitra, A.,Cordfunke, A R.,Henze, S., **Paul, D.**,Sidney, J.,Urlaub, H.,Neefjes, J., Sette, A.,Dirk, Z.,Liepe, J., 2019. An in silico-in vitro pipeline identifying an HLA-A*02:01+ KRAS G12V+spliced epitope candidate for a broad tumor-immune response in cancer patients. *Frontiers Immunology.* Accepted for publication.