Integrative systems biology: inferring from massive heterogeneous data



If you have any questions or comments. Please use contacts available at home pages of selected group members.



  • W. Wronowska, A. Charzyńska, K. Nienałtowski, A. Gambin, 2015, Computational modeling of sphingolipid metabolism , BMC Sys Biol, 9(47):1-16.
  • P. Dittwald, D. Valkenborg, J. Claesen, A. L. Rockwood, A. Gambin, 2015, On the fine isotopic distribution and limits to resolution in mass spectrometry , J Am Soc Mass Spectrom., 1:1-14.
  • P. Szymańska, M. Kochańczyk, J. Miękisz, T. Lipniacki, 2015,
    Effective reaction rates in diffusion-limited phosphorylation-dephosphorylation cycles, Phys Rev E Stat Nonlin Soft Matter Phys., 91(2):022702.
  • A. Maj-Kanska, P. Pokarowski, A. Prochenka, 2015,
    Delete or merge regressors for linear model selection, Electronic J of Stat, 9:1749-1778.
  • P. Jaroszynski, N. Dojer, 2015,
    Efficient and error-tolerant sequencing read mapping, Curr Bioinf, 10(2):191-198.
  • M. K. Łącki, B. Miasojedow, 2015,
    State-dependent swap strategies and automatic reduction of number of temperatures in adaptive parallel tempering algorithm, Stat Comput, 1:1-15.


  • P. Dittwald, V.T. Nghia, G.A. Harris, R.M. Caprioli, R. Van de Plas, K. Laukens, A. Gambin, D. Valkenborg, 2014,
    Towards automated discrimination of lipids versus peptides from full scan mass spectra, EuPA Open Proteom., 4:87-100.
  • T. Jetka, A. Charzynska, A. Gambin, M.P. Stumpf, M. Komorowski, 2014, StochDecomp--Matlab package for noise decomposition in stochastic biochemical systems, Bioinformatics, 30(1):137-138.


  • P. Szafranski, A.V. Dharmadhikari, E. Brosens, P. Gurha, K.E. Kolodziejska, O. Zhishuo, P. Dittwald, T. Majewski, K.N. Mohan, B. Chen, R.E. Person, D. Tibboel, A. de Klein, J. Pinner, M. Chopra, G. Malcolm, G. Peters, S. Arbuckle, S.F. 3rd Guiang, V.A. Hustead, J. Jessurun, R. Hirsch, D.P. Witte, I. Maystadt, N. Sebire, R. Fisher, C. Langston, P. Sen, P. Stankiewicz, 2013, Small noncoding differentially methylated copy-number variants, including lncRNA genes, cause a lethal lung developmental disorder, Genome Research, 23(1):23-33. doi: 10.1101/gr.141887.112.
  • P. Dittwald, T. Gambin, P. Szafranski, J. Li, S. Amato, M.Y. Divon, L.X. Rodríguez Rojas, L.E. Elton, D.A. Scott, C.P. Schaaf, W. Torres-Martinez, A.K. Stevens, J.A. Rosenfeld, S. Agadi, D. Francis, S.H. Kang, A. Breman, S.R. Lalani, C.A. Bacino, W. Bi, A. Milosavljevic, A.L. Beaudet, A. Patel, C.A. Shaw, J.R. Lupski, A. Gambin, S.W. Cheung, P. Stankiewicz, 2013, NAHR-mediated copy-number variants in a clinical population: Mechanistic insights into both genomic disorders and Mendelizing traits, Genome Research, 23(9):1395-409. doi: 10.1101/gr.152454.112.
  • Piotr Dittwald, Tomasz Gambin, Claudia Gonzaga-Jauregui, Claudia M. Carvalho, James R. Lupski, Paweł Stankiewicz, Anna Gambin, 2013, Inverted low-copy repeats and genome instability-a genome-wide analysis, Human Mutation, 34(1):210-20. doi: 10.1002/humu.22217
  • E. Szczurek, N. Misra, M. Vingron, 2013, Synthetic sickness or lethality points at candidate combination therapy targets in glioblastoma, Int J Cancer, 133(9):2123-2132. doi: 10.1002/ijc.28235
  • Maciej Sykulski, Tomasz Gambin, Magdalena Bartnik, Katarzyna Derwińska, Barbara Wiśniowiecka-Kowalnik, Paweł Stankiewicz, Anna Gambin, 2013, Multiple samples aCGH analysis for rare CNVs detection, Journal of Clinical Bioinformatics, 3(1):12.
  • Piotr Dittwald, Jürgen Claesen, Tomasz Burzykowski, Dirk Valkenborg, Anna Gambin, 2013, BRAIN: A Universal Tool for High-Throughput Calculations of the Isotopic Distribution for Mass Spectrometry , Analytical Chemistry 85(4): 1991-1994.
  • Han Hu, Piotr Dittwald, Joseph Zaia, Dirk Valkenborg, 2013, Comment on "Computation of Isotopic Peak Center-Mass Distribution by Fourier Transform", Anal Chem. 85(24):12189-92 .
  • Tomasz Gambin, Paweł Stankiewicz, Maciej Sykulski, Anna Gambin, 2013, Functional performance of aCGH design for clinical cytogenetics, Computers in Biology and Medicine, 43(6):775-85.
  • Mikołaj Rybiński, Zuzanna Szymańska, Sławomir Lasota, Anna Gambin, 2013, Modelling the efficacy of hyperthermia treatment, J R Soc Interface. 2013 Aug 28;10(88):20130527, doi: 10.1098/rsif.2013.0527
  • Anna Gambin, Agata Charzyńska, Aleksandra Ellert-Miklaszewska, Mikołaj Rybiński, 2013, Computational models of JAK1/2-STAT1 signaling, JAKSTAT. 2013 Jul 1;2(3):e24672


  • Piotr Dittwald, Jerzy Ostrowski, Jakub Karczmarski, Anna Gambin,
    Inferring serum proteolytic activity from LC-MS/MS data.
    BMC Bioinformatics. 2012 Apr 12;13 Suppl 5:S7.
  • Agata Charzyńska, Anna Nałęcz, Mikołaj Rybiński and Anna Gambin, 2012, Sensitivity analysis of mathematical models of signaling pathways, BioTechnologia, 93(3):291-308.
  • Jürgen Claesen, Piotr Dittwald, Tomasz Burzykowski, Dirk Valkenborg, An efficient method to calculate the aggregated isotopic distribution and exact center-masses. Journal of the American Society for Mass Spectrometry, 2012 Apr;23(4):753-63.