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ORCIDMarek Kimmel
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2020 – today
- 2022
[c14]Jaroslaw Smieja
, Andrzej Swierniak, Marek Kimmel:
A Minimal Model of Cancer Growth, Metastasis and Treatment. ACIIDS (Companion) 2022: 566-577- 2020
- [j21]Emilia Kozlowska, Rafal Suwinski, Monika Giglok, Andrzej Swierniak, Marek Kimmel:
Mathematical model predicts response to chemotherapy in advanced non-resectable non-small cell lung cancer patients treated with platinum-based doublet. PLoS Comput. Biol. 16(10) (2020)
2010 – 2019
- 2019
- [j20]Tomasz Wojdyla, Hrishikesh Mehta, Taly Glaubach, Roberto Bertolusso, Marta Iwanaszko, Rosemary Braun, Seth J. Corey, Marek Kimmel:
Mutation, drift and selection in single-driver hematologic malignancy: Example of secondary myelodysplastic syndrome following treatment of inherited neutropenia. PLoS Comput. Biol. 15(1) (2019) - [j19]Marzena Mura, Céline Feillet, Roberto Bertolusso, Franck Delaunay, Marek Kimmel:
Mathematical modelling reveals unexpected inheritance and variability patterns of cell cycle parameters in mammalian cells. PLoS Comput. Biol. 15(6) (2019) - 2018
- [j18]Ivan P. Gorlov, Claudio W. Pikielny, Hildreth R. Frost, Stephanie C. Her, Michael D. Cole, Samuel D. Strohbehn, David Wallace-Bradley, Marek Kimmel, Olga Y. Gorlova, Christopher I. Amos:
Gene characteristics predicting missense, nonsense and frameshift mutations in tumor samples. BMC Bioinform. 19(1): 430:1-430:14 (2018) - [j17]Malgorzata Kardynska, Anna Paszek, Jaroslaw Smieja, David G. Spiller, Wieslawa Widlak, Michael R. H. White, Pawel Paszek, Marek Kimmel:
Quantitative analysis reveals crosstalk mechanisms of heat shock-induced attenuation of NF-κB signaling at the single cell level. PLoS Comput. Biol. 14(4) (2018) - 2017
- [j16]Biao Li, Amanda Sierra, Juan Jose Deudero, Fatih Semerci, Andrew Laitman, Marek Kimmel, Mirjana Maletic-Savatic:
Multitype Bellman-Harris branching model provides biological predictors of early stages of adult hippocampal neurogenesis. BMC Syst. Biol. 11(S-5): 90:1-90:16 (2017) - [j15]Thomas O. McDonald, Marek Kimmel:
Multitype infinite-allele branching processes in continuous time. J. Appl. Probab. 54(2): 550-568 (2017) - 2016
- [j14]Navin Rustagi, Oliver A. Hampton, Jie Li, Liu Xi, Richard A. Gibbs, Sharon E. Plon, Marek Kimmel, David A. Wheeler:
ITD assembler: an algorithm for internal tandem duplication discovery from short-read sequencing data. BMC Bioinform. 17: 188 (2016) - [c13]Malgorzata Kardynska, Jaroslaw Smieja, Anna Naumowicz, Patryk Janus, Piotr Widlak, Marek Kimmel:
Sloppy/Stiff Parameters Rankings in Sensitivity Analysis of Signaling Pathways. BIOINFORMATICS 2016: 278-283 - [p1]Marek Kimmel:
On Things Not Seen. Challenges in Computational Statistics and Data Mining 2016: 173-188 - 2015
- [j13]Thomas O. McDonald, Marek Kimmel:
A multitype infinite-allele branching process with applications to cancer evolution. J. Appl. Probab. 52(3): 864-876 (2015) - [c12]Jaroslaw Smieja, Malgorzata Kardynska, Anna Naumowicz, Patryk Janus, Piotr Widlak, Marek Kimmel:
In Silico Analysis of Interactions Between NFkB and HSF Pathways. BIOINFORMATICS 2015: 201-206 - 2014
- [c11]Marta Iwanaszko, Patryk Janus, Tomasz Stokowy, Piotr Widlak, Marek Kimmel:
Changes in heat shock duration influence regulatory schemes of HSF1 activity. IWBBIO 2014: 707-714 - [c10]Marcin Pacholczyk, Karolina Smolinska, Marta Iwanaszko, Marek Kimmel:
Computational approach for modeling and testing NF-kB binding sites. IWBBIO 2014: 1338-1346 - 2013
- [c9]Krzysztof A. Cyran, Marek Kimmel:
Comparison of Connectionist and Rough Set Based Knowledge Discovery Methods in Search for Selection in Genes Implicated in Human Familial Cancer. ICMMI 2013: 163-171 - [c8]Marcin Pacholczyk, Damian Borys, Marek Kimmel:
Finite absorbing Markov chain as a model of small-ligand binding process. IWBBIO 2013: 747-751 - 2012
- [j12]Roberto Bertolusso, Marek Kimmel:
Spatial and Stochastic Effects in a Model of Viral Infection. Fundam. Informaticae 118(4): 327-343 (2012) - 2011
- [j11]Marcin Pacholczyk, Marek Kimmel:
Exploring the Landscape of Protein-Ligand Interaction Energy Using Probabilistic Approach. J. Comput. Biol. 18(6): 843-850 (2011)
2000 – 2009
- 2009
- [c7]Andrzej Polanski, Rafal Pokrzywa, Marek Kimmel:
A Survey of Text Processing Tools for the Automatic Analysis of Molecular Sequences. Aspects of Natural Language Processing 2009: 359-378 - [c6]Marek Kimmel:
Stochastic Effects in Signaling Pathways in Cells: Interaction between Visualization and Modeling. ICMMI 2009: 11-21 - 2008
- [j10]Jaroslaw Smieja, Mohammad Jamaluddin, Allan R. Brasier, Marek Kimmel:
Model-based analysis of interferon-beta induced signaling pathway. Bioinform. 24(20): 2363-2369 (2008) - [j9]David M. Kristensen, R. Matthew Ward, Andreas Martin Lisewski, Serkan Erdin, Brian Y. Chen, Viacheslav Fofanov, Marek Kimmel, Lydia E. Kavraki, Olivier Lichtarge:
Prediction of enzyme function based on 3D templates of evolutionarily important amino acids. BMC Bioinform. 9 (2008) - 2007
- [b1]Andrzej Polanski, Marek Kimmel:
Bioinformatics. Springer 2007, pp. I-XVII, 1-376 - [j8]Tomasz Lipniacki, Krzysztof Puszynski, Pawel Paszek, Allan R. Brasier, Marek Kimmel:
Single TNFalpha trimers mediating NF-kappaB activation: stochastic robustness of NF-kappaB signaling. BMC Bioinform. 8 (2007) - [j7]Brian Y. Chen, Drew H. Bryant, Viacheslav Fofanov, David M. Kristensen, Amanda E. Cruess, Marek Kimmel, Olivier Lichtarge, Lydia E. Kavraki:
Cavity Scaling: Automated Refinement of Cavity-Aware motifs in protein Function Prediction. J. Bioinform. Comput. Biol. 5(2a): 353-382 (2007) - [j6]Brian Y. Chen, Viacheslav Fofanov, Drew H. Bryant, Bradley D. Dodson, David M. Kristensen, Andreas Martin Lisewski, Marek Kimmel, Olivier Lichtarge, Lydia E. Kavraki:
The MASH Pipeline for Protein Function Prediction and an Algorithm for the Geometric Refinement of 3D Motifs. J. Comput. Biol. 14(6): 791-816 (2007) - [j5]Krzysztof Fujarewicz, Marek Kimmel, Tomasz Lipniacki, Andrzej Swierniak:
Adjoint Systems for Models of Cell Signaling Pathways and their Application to Parameter Fitting. IEEE ACM Trans. Comput. Biol. Bioinform. 4(3): 322-335 (2007) - 2006
- [c5]Brian Y. Chen, Viacheslav Fofanov, Drew H. Bryant, Bradley D. Dodson, David M. Kristensen, Andreas Martin Lisewski, Marek Kimmel, Olivier Lichtarge, Lydia E. Kavraki:
Geometric Sieving: Automated Distributed Optimization of 3D Motifs for Protein Function Prediction. RECOMB 2006: 500-515 - 2005
- [j4]Bo Peng, Marek Kimmel:
simuPOP: a forward-time population genetics simulation environment. Bioinform. 21(18): 3686-3687 (2005) - [j3]Anna K. Marciniak-Czochra, Marek Kimmel:
Mathematical model of tumor invasion along linear or tubular structures. Math. Comput. Model. 41(10): 1097-1108 (2005) - [c4]Brian Y. Chen, Viacheslav Fofanov, David M. Kristensen, Marek Kimmel, Olivier Lichtarge, Lydia E. Kavraki:
Algorithms for Structural Comparison and Statistical Analysis of 3D Protein Motifs. Pacific Symposium on Biocomputing 2005 - 2004
- [j2]Krzysztof Simek, Krzysztof Fujarewicz, Andrzej Swierniak, Marek Kimmel, Barbara Jarzab, Malgorzata Wiench, Joanna Rzeszowska:
Using SVD and SVM methods for selection, classification, clustering and modeling of DNA microarray data. Eng. Appl. Artif. Intell. 17(4): 417-427 (2004) - 2002
- [c3]Marek Kimmel, Olga Y. Gorlova:
Stochastic models of progression of cancer and their use in controlling cancer-related mortality. ACC 2002: 3443-3448 - [c2]Andrzej Swierniak, Andrzej Polanski, Jaroslaw Smieja, Marek Kimmel, Joanna Rzeszowska-Wolny:
Control theoretic approach to random branching walk models arising in molecular biology. ACC 2002: 3449-3453 - [c1]Andrzej Polanski, Marek Kimmel:
Methods for estimation of demographic parameters from DNA sequence samples. ACC 2002: 3472-3477
1990 – 1999
- 1993
- [j1]Ovide Arino, Marek Kimmel:
Comparison of Approaches to Modeling of Cell Population Dynamics. SIAM J. Appl. Math. 53(5): 1480-1504 (1993)
Coauthor Index
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