Marek Kimmel

37 papers B 1C 3Misc 1Journal 21Unranked 9
YearRankTypeTitle / Venue / Authors
2022 — conf
A Minimal Model of Cancer Growth, Metastasis and Treatment.
ACIIDS (Companion)
Jaroslaw Smieja, Andrzej Swierniak, Marek Kimmel
2020 J jnl
Mathematical model predicts response to chemotherapy in advanced non-resectable non-small cell lung cancer patients treated with platinum-based doublet.
PLoS Comput. Biol.
Emilia Kozlowska, Rafal Suwinski, Monika Giglok, Andrzej Swierniak, Marek Kimmel
2019 J jnl
Mathematical modelling reveals unexpected inheritance and variability patterns of cell cycle parameters in mammalian cells.
PLoS Comput. Biol.
Marzena Mura, Céline Feillet, Roberto Bertolusso, Franck Delaunay, Marek Kimmel
2019 J jnl
Mutation, drift and selection in single-driver hematologic malignancy: Example of secondary myelodysplastic syndrome following treatment of inherited neutropenia.
PLoS Comput. Biol.
Tomasz Wojdyla, Hrishikesh Mehta, Taly Glaubach, Roberto Bertolusso, Marta Iwanaszko, Rosemary Braun, Seth J. Corey, Marek Kimmel
2018 J jnl
Gene characteristics predicting missense, nonsense and frameshift mutations in tumor samples.
BMC Bioinform.
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
2018 J jnl
Quantitative analysis reveals crosstalk mechanisms of heat shock-induced attenuation of NF-κB signaling at the single cell level.
PLoS Comput. Biol.
Malgorzata Kardynska, Anna Paszek, Jaroslaw Smieja, David G. Spiller, Wieslawa Widlak, Michael R. H. White, Pawel Paszek, Marek Kimmel
2017 J jnl
Multitype Bellman-Harris branching model provides biological predictors of early stages of adult hippocampal neurogenesis.
BMC Syst. Biol.
Biao Li, Amanda Sierra, Juan Jose Deudero, Fatih Semerci, Andrew Laitman, Marek Kimmel, Mirjana Maletic-Savatic
2017 J jnl
Multitype infinite-allele branching processes in continuous time.
J. Appl. Probab.
Thomas O. McDonald, Marek Kimmel
2016 J jnl
ITD assembler: an algorithm for internal tandem duplication discovery from short-read sequencing data.
BMC Bioinform.
Navin Rustagi, Oliver A. Hampton, Jie Li, Liu Xi, Richard A. Gibbs, Sharon E. Plon, Marek Kimmel, David A. Wheeler
2016 — ch.
On Things Not Seen.
Challenges in Computational Statistics and Data Mining
Marek Kimmel
2016 — conf
Sloppy/Stiff Parameters Rankings in Sensitivity Analysis of Signaling Pathways.
BIOINFORMATICS
Malgorzata Kardynska, Jaroslaw Smieja, Anna Naumowicz, Patryk Janus, Piotr Widlak, Marek Kimmel
2015 J jnl
A multitype infinite-allele branching process with applications to cancer evolution.
J. Appl. Probab.
Thomas O. McDonald, Marek Kimmel
2015 — conf
In Silico Analysis of Interactions Between NFkB and HSF Pathways.
BIOINFORMATICS
Jaroslaw Smieja, Malgorzata Kardynska, Anna Naumowicz, Patryk Janus, Piotr Widlak, Marek Kimmel
2014 — conf
Changes in heat shock duration influence regulatory schemes of HSF1 activity.
IWBBIO
Marta Iwanaszko, Patryk Janus, Tomasz Stokowy, Piotr Widlak, Marek Kimmel
2014 — conf
Computational approach for modeling and testing NF-kB binding sites.
IWBBIO
Marcin Pacholczyk, Karolina Smolinska, Marta Iwanaszko, Marek Kimmel
2013 — conf
Comparison of Connectionist and Rough Set Based Knowledge Discovery Methods in Search for Selection in Genes Implicated in Human Familial Cancer.
ICMMI
Krzysztof A. Cyran, Marek Kimmel
2013 — conf
Finite absorbing Markov chain as a model of small-ligand binding process.
IWBBIO
Marcin Pacholczyk, Damian Borys, Marek Kimmel
2012 J jnl
Spatial and Stochastic Effects in a Model of Viral Infection.
Fundam. Informaticae
Roberto Bertolusso, Marek Kimmel
2011 J jnl
Exploring the Landscape of Protein-Ligand Interaction Energy Using Probabilistic Approach.
J. Comput. Biol.
Marcin Pacholczyk, Marek Kimmel
2009 — conf
A Survey of Text Processing Tools for the Automatic Analysis of Molecular Sequences.
Aspects of Natural Language Processing
Andrzej Polanski, Rafal Pokrzywa, Marek Kimmel
2009 — conf
Stochastic Effects in Signaling Pathways in Cells: Interaction between Visualization and Modeling.
ICMMI
Marek Kimmel
2008 J jnl
Model-based analysis of interferon-beta induced signaling pathway.
Bioinform.
Jaroslaw Smieja, Mohammad Jamaluddin, Allan R. Brasier, Marek Kimmel
2008 J jnl
Prediction of enzyme function based on 3D templates of evolutionarily important amino acids.
BMC Bioinform.
David M. Kristensen, R. Matthew Ward, Andreas Martin Lisewski, Serkan Erdin, Brian Y. Chen, Viacheslav Fofanov, Marek Kimmel, Lydia E. Kavraki, Olivier Lichtarge
2007 J jnl
Adjoint Systems for Models of Cell Signaling Pathways and their Application to Parameter Fitting.
IEEE ACM Trans. Comput. Biol. Bioinform.
Krzysztof Fujarewicz, Marek Kimmel, Tomasz Lipniacki, Andrzej Swierniak
2007 — book
Bioinformatics.
Andrzej Polanski, Marek Kimmel
2007 J jnl
Cavity Scaling: Automated Refinement of Cavity-Aware motifs in protein Function Prediction.
J. Bioinform. Comput. Biol.
Brian Y. Chen, Drew H. Bryant, Viacheslav Fofanov, David M. Kristensen, Amanda E. Cruess, Marek Kimmel, Olivier Lichtarge, Lydia E. Kavraki
2007 J jnl
Single TNF
BMC Bioinform.
Tomasz Lipniacki, Krzysztof Puszynski, Pawel Paszek, Allan R. Brasier, Marek Kimmel
2007 J jnl
The MASH Pipeline for Protein Function Prediction and an Algorithm for the Geometric Refinement of 3D Motifs.
J. Comput. Biol.
Brian Y. Chen, Viacheslav Fofanov, Drew H. Bryant, Bradley D. Dodson, David M. Kristensen, Andreas Martin Lisewski, Marek Kimmel, Olivier Lichtarge, Lydia E. Kavraki
2006 B conf
Geometric Sieving: Automated Distributed Optimization of 3D Motifs for Protein Function Prediction.
RECOMB
Brian Y. Chen, Viacheslav Fofanov, Drew H. Bryant, Bradley D. Dodson, David M. Kristensen, Andreas Martin Lisewski, Marek Kimmel, Olivier Lichtarge, Lydia E. Kavraki
2005 Misc conf
Algorithms for Structural Comparison and Statistical Analysis of 3D Protein Motifs.
Pacific Symposium on Biocomputing
Brian Y. Chen, Viacheslav Fofanov, David M. Kristensen, Marek Kimmel, Olivier Lichtarge, Lydia E. Kavraki
2005 J jnl
Mathematical model of tumor invasion along linear or tubular structures.
Math. Comput. Model.
Anna K. Marciniak-Czochra, Marek Kimmel
2005 J jnl
simuPOP: a forward-time population genetics simulation environment.
Bioinform.
Bo Peng, Marek Kimmel
2004 J jnl
Using SVD and SVM methods for selection, classification, clustering and modeling of DNA microarray data.
Eng. Appl. Artif. Intell.
Krzysztof Simek, Krzysztof Fujarewicz, Andrzej Swierniak, Marek Kimmel, Barbara Jarzab, Malgorzata Wiench, Joanna Rzeszowska
2002 C conf
Control theoretic approach to random branching walk models arising in molecular biology.
ACC
Andrzej Swierniak, Andrzej Polanski, Jaroslaw Smieja, Marek Kimmel, Joanna Rzeszowska-Wolny
2002 C conf
Methods for estimation of demographic parameters from DNA sequence samples.
ACC
Andrzej Polanski, Marek Kimmel
2002 C conf
Stochastic models of progression of cancer and their use in controlling cancer-related mortality.
ACC
Marek Kimmel, Olga Y. Gorlova
1993 J jnl
Comparison of Approaches to Modeling of Cell Population Dynamics.
SIAM J. Appl. Math.
Ovide Arino, Marek Kimmel