List of Selected Publications

2018

  • Draminski M., Koronacki J. (2018). rmcfs: An R Package for Monte Carlo Feature Selection and Interdependency Discovery. Journal of Statistical Software vol. 85(12), doi:10.18637/jss.v085.i12.
  • Dabrowski M.J., Draminski M., Diamanti K., Stepniak K., Mozolewska M.A., Teisseyre P., Koronacki J., Komorowski J., Kaminska B. & Wojtas B. (2018). Unveiling new interdependencies between significant DNA methylation sites, gene expression profiles and glioma patients survival. Scientific Reports vol. 8, Article number: 4390, doi:10.1038/s41598-018-22829-1.

2017

  • Draminski M., Koronacki J. (2017). rmcfs: An R Package for Monte Carlo Feature Selection and Interdependency Discovery. Accepted for publication in Journal of Statistical Software. Available as a vignette to rmcfs package.
  • Karczyńska, A. S., Czaplewski, C., Krupa, P., Mozolewska, M. A., Joo, K., Lee, J., & Liwo, A. (2017). Ergodicity and model quality in template‐restrained canonical and temperature/Hamiltonian replica exchange coarse‐grained molecular dynamics simulations of proteins. Journal of computational chemistry, 38(31), 2730-2746.
  • Ahmed, L., Rasulev, B., Kar, S., Krupa, P., Mozolewska, M. A., & Leszczynski, J. (2017). Inhibitors or toxins? Large library target-specific screening of fullerene-based nanoparticles for drug design purpose. Nanoscale, 9(29), 10263-10276.
  • Baltzer, N., Sundström, K., Nygård, J. F., Dillner, J., & Komorowski, J. (2017). Risk Stratification in Cervical Cancer Screening by Complete Screening History–Applying Bioinformatics to a General Screening Population. International Journal of Cancer.
  • Koronacki, J., Dramiński, M. (2017). Empirical Model Building Revisited. Models and Reality: Festschrift for James Robert Thompson, Chicago, IL: T&NO Company.

2016

  • Umer, H. M., Cavalli, M., Dąbrowski, M. J., Diamanti, K., Kruczyk, M., Pan, G., ... & Wadelius, C. (2016). A Significant Regulatory Mutation Burden at a High‐Affinity Position of the CTCF Motif in Gastrointestinal Cancers. Human mutation, 37(9), 904-913.
  • Khaliq, Z., Leijon, M., Belák, S., & Komorowski, J. (2016). Identification of combinatorial host-specific signatures with a potential to affect host adaptation in influenza A H1N1 and H3N2 subtypes. BMC genomics, 17(1), 529.
  • Diamanti, K., Umer, H. M., Kruczyk, M., Dąbrowski, M. J., Cavalli, M., Wadelius, C., & Komorowski, J. (2016). Maps of context-dependent putative regulatory regions and genomic signal interactions. Nucleic acids research, gkw800.
  • Moghadam, B. T., Dąbrowski, M., Kamińska, B., Grabherr, M. G., & Komorowski, J. (2016). Combinatorial identification of DNA methylation patterns over age in the human brain. BMC bioinformatics, 17(1), 393.
  • Bornelöv, S., & Komorowski, J. (2016). Selection of Significant Features Using Monte Carlo Feature Selection. In Challenges in Computational Statistics and Data Mining (pp. 25-38). Springer International Publishing.
  • Dramiński, M., Dąbrowski, M. J., Diamanti, K., Koronacki, J., & Komorowski, J. (2016). Discovering networks of interdependent features in high-dimensional problems. In Big Data Analysis: New Algorithms for a New Society (pp. 285-304). Springer International Publishing.
  • Mozolewska, M. A., Krupa, P., Zaborowski, B., Liwo, A., Lee, J., Joo, K., & Czaplewski, C. (2016). Use of Restraints from Consensus Fragments of Multiple Server Models To Enhance Protein-Structure Prediction Capability of the UNRES Force Field. Journal of Chemical Information and Modeling, 56(11), 2263-2279.
  • Krupa, P., Mozolewska, M. A., Wiśniewska, M., Yin, Y., He, Y., Sieradzan, A. K., ... & Ślusarz, R. (2016). Performance of protein-structure predictions with the physics-based UNRES force field in CASP11. Bioinformatics, 32(21), 3270-3278.
  • Nowakowska, E., Koronacki, J., & Lipovetsky, S. (2016). Dimensionality reduction for data of unknown cluster structure. Information Sciences, 330, 74-87.
  • Dramiński, M. (2016). ADX Algorithm for Supervised Classification. In Challenges in Computational Statistics and Data Mining (pp. 39-52). Springer International Publishing.

2015

  • Bornelöv, S., Komorowski, J., & Wadelius, C. (2015). Different distribution of histone modifications in genes with unidirectional and bidirectional transcription and a role of CTCF and cohesin in directing transcription. BMC genomics, 16(1), 300.
  • Khaliq, Z., Leijon, M., Belák, S., & Komorowski, J. (2015). A complete map of potential pathogenicity markers of avian influenza virus subtype H5 predicted from 11 expressed proteins. BMC microbiology, 15(1), 128.
  • Dąbrowski, M. J., Bornelöv, S., Kruczyk, M., Baltzer, N., & Komorowski, J. (2015). ‘True’null allele detection in microsatellite loci: a comparison of methods, assessment of difficulties and survey of possible improvements. Molecular ecology resources, 15(3), 477-488.
  • Nowakowska, E., Koronacki, J., & Lipovetsky, S. (2015). Clusterability assessment for Gaussian mixture models. Applied Mathematics and Computation, 256, 591-601.