Papers by Mirosław Roman Dudek

  1. Mirosław Roman Dudek, Stanisław Cebrat, Maria Kowalczuk, Paweł Mackiewicz, Aleksandra Nowicka, Dorota Mackiewicz, Małgorzata Dudkiewicz (2007)
    Information weights of nucleotides in DNA sequences. Computational Methods in Science and Technology
    13 () pp. 5-12
  2. Joanna Kiraga, Paweł Mackiewicz, Dorota Mackiewicz, Maria Kowalczuk, Przemysław Biecek, Natalia Polak, Kamila Smolarczyk, Mirosław Roman Dudek, Stanisław Cebrat (2007)
    The relationships between the isoelectric point and: length of proteins, taxonomy and ecology of organisms. BMC Genomics
    8 () pp. 163
  3. Stanisław Cebrat, Mirosław Roman Dudek, Paweł Mackiewicz (2006)
    Modeling gene's length distribution in genomes ''arXiv:q-bio/0607029 [q-bio.GN], Cornell University Library pp. 1-7
  4. Maria Kowalczuk, Dorota Mackiewicz, Paweł Mackiewicz, Natalia Polak, Kamila Smolarczyk, Joanna Kiraga, Mirosław Roman Dudek, Stanisław Cebrat (2005)
    Mutational and selective mechanisms shaping large-scale organization and evolution of chromosomes. Current Topics in Genetics
    1 () pp. 87-101
  5. Małgorzata Dudkiewicz, Paweł Mackiewicz, Dorota Mackiewicz, Maria Kowalczuk, Aleksandra Nowicka, Natalia Polak, Kamila Smolarczyk, Joanna Kiraga, Mirosław Roman Dudek, Stanisław Cebrat (2005)
    Higher mutation rate helps to rescue genes from the elimination by selection. Biosystems
    80 () pp. 192-199
  6. Małgorzata Dudkiewicz, Paweł Mackiewicz, Aleksandra Nowicka, Maria Kowalczuk, Dorota Mackiewicz, Natalia Polak, Kamila Smolarczyk, Joanna Kiraga, Mirosław Roman Dudek, Stanisław Cebrat (2005)
    Correspondence between mutation and selection pressure and the genetic code degeneracy in the gene evolution. Future Generation Computer Systems
    21 () pp. 1033-1039
  7. Aleksandra Nowicka, Artur Duda, Mirosław Roman Dudek (2004)
    Effect of Variable Surrounding on Species Creation. C.R. Biologies
    327 () pp. 283-292
  8. Paweł Mackiewicz, Jolanata Zakrzewska-Czerwińska, Anna Zawilak, Mirosław Roman Dudek, Stanisław Cebrat (2004)
    Where does bacterial replication start? Rules for predicting the oriC region. Nucleic Acids Res.
    32 (13) pp. 3781-3791
  9. Aleksandra Nowicka, Paweł Mackiewicz, Małgorzata Dudkiewicz, Dorota Mackiewicz, Maria Kowalczuk, Joanna Kiraga, Stanisław Cebrat, Mirosław Roman Dudek (2004)
    Representation of mutation pressure and selection pressure by PAM matrices. Applied Bioinformatics
    3 (1) pp. 31-39
  10. Małgorzata Dudkiewicz, Paweł Mackiewicz, Maria Kowalczuk, Dorota Mackiewicz, Aleksandra Nowicka, Natalia Polak, Kamila Smolarczyk, Joanna Kiraga, Mirosław Roman Dudek, Stanisław Cebrat (2004)
    Simulation of gene evolution under directional mutational pressure. Physica A
    336 (1-2) pp. 63-73
  11. Maria Kowalczuk, Agnieszka Łaszkiewicz, Małgorzata Dudkiewicz, Paweł Mackiewicz, Dorota Mackiewicz, Natalia Polak, Kamila Smolarczyk, Joanna Kiraga, Mirosław Roman Dudek, Stanisław Cebrat (2004)
    Using Monte Carlo simulations for the gene and genome evolution Trends in Statistical Physics
    4 () pp. 29-44
  12. Natalia Polak, Joanna Kiraga, Paweł Mackiewicz, Małgorzata Dudkiewicz, Maria Kowalczuk, Dorota Mackiewicz, Kamila Smolarczyk, Aleksandra Nowicka, Mirosław Roman Dudek, Stanisław Cebrat (2004)
    How Gene Survival Depends on Their Length. Lecture Notes in Computer Science
    3039 () pp. 694-699
  13. Paweł Mackiewicz, Małgorzata Dudkiewicz, Maria Kowalczuk, Dorota Mackiewicz, Joanna Kiraga, Natalia Polak, Kamila Smolarczyk, Aleksandra Nowicka, Mirosław Roman Dudek, Stanisław Cebrat (2004)
    Differential Gene Survival under Asymmetric Directional Mutational Pressure. Lecture Notes in Computer Science
    3039 () pp. 687-693
  14. Paweł Mackiewicz, Dorota Mackiewicz, Maria Kowalczuk, Małgorzata Dudkiewicz, Mirosław Roman Dudek, Stanisław Cebrat (2003)
    High divergence rate of sequences located on different DNA strands in closely related bacterial genomes. Journal of Applied Genetics
    44 (4) pp. 561-584
  15. Dorota Mackiewicz, Paweł Mackiewicz, Maria Kowalczuk, Małgorzata Dudkiewicz, Mirosław Roman Dudek, Stanisław Cebrat (2003)
    Rearrangements between Differently Replicating DNA strands in Asymmetric Bacterial Genomes. Acta Microbiologica Polonica
    52 (3) pp. 245-261
  16. Aleksandra Nowicka, Paweł Mackiewicz, Małgorzata Dudkiewicz, Dorota Mackiewicz, Maria Kowalczuk, Stanisław Cebrat, Mirosław Roman Dudek (2003)
    Correlation between mutation pressure, selection pressure, and occurrence of amino acids. Lecture Notes in Computer Science
    2658 () pp. 650-657
  17. Małgorzata Dudkiewicz, Paweł Mackiewicz, Aleksandra Nowicka, Maria Kowalczuk, Dorota Mackiewicz, Natalia Polak, Kamila Smolarczyk, Mirosław Roman Dudek, Stanisław Cebrat (2003)
    Properties of Genetic Code under Directional, Asymmetric Mutational Pressure. Lecture Notes in Computer Science
    2657 () pp. 343-350
  18. Paweł Mackiewicz, Maria Kowalczuk, Dorota Mackiewicz, Aleksandra Nowicka, Małgorzata Dudkiewicz, Agnieszka Łaszkiewicz, Mirosław Roman Dudek, Stanisław Cebrat (2002)
    How many protein-coding genes are there in the Saccharomyces cerevisiae genome? Yeast
    19 (7) pp. 619-629
  19. Paweł Mackiewicz, Maria Kowalczuk, Dorota Mackiewicz, Aleksandra Nowicka, Małgorzata Dudkiewicz, Agnieszka Łaszkiewicz, Mirosław Roman Dudek, Stanisław Cebrat (2002)
    Replication associated mutational pressure generating long-range correlation in DNA. Physica A
    314 (1-4) pp. 646-654
  20. Maria Kowalczuk, Paweł Mackiewicz, Dorota Mackiewicz, Aleksandra Nowicka, Małgorzata Dudkiewicz, Mirosław Roman Dudek, Stanisław Cebrat (2001)
    High correlation between the turnover of nucleotides under mutational pressure and the DNA composition, BMC Evolutionary Biology
    1 () pp. 13
  21. Maria Kowalczuk, Paweł Mackiewicz, Dorota Mackiewicz, Aleksandra Nowicka, Małgorzata Dudkiewicz, Mirosław Roman Dudek, Stanisław Cebrat (2001)
    Multiple base substitution corrections in DNA sequence evolution. Int. J. Modern Phys. C
    12 (7) pp. 1043-1053
  22. Maria Kowalczuk, Paweł Mackiewicz, Dorota Mackiewicz, Aleksandra Nowicka, Małgorzata Dudkiewicz, Mirosław Roman Dudek, Stanisław Cebrat (2001)
    DNA Asymmetry and the Replicational Mutational Pressure. Journal of Applied Genetics
    42 (4) pp. 553-577
  23. Dorota Szczepanik, Paweł Mackiewicz, Maria Kowalczuk, Agnieszka Gierlik, Aleksandra Nowicka, Mirosław Roman Dudek, Stanisław Cebrat (2001)
    Evolution rates of genes on leading and lagging DNA strands. J. Mol. Evol.
    52 (5) pp. 426-433
  24. Paweł Mackiewicz, Dorota Szczepanik, Agnieszka Gierlik, Maria Kowalczuk, Aleksandra Nowicka, Małgorzata Dudkiewicz, Mirosław Roman Dudek, Stanisław Cebrat (2001)
    The differential killing of genes by inversions in prokaryotic genomes. J. Mol. Evol.
    53 (6) pp. 615-621
  25. Aleksandra Nowicka, Mirosław Roman Dudek, Stanisław Cebrat, Maria Kowalczuk, Paweł Mackiewicz, Małgorzata Dudkiewicz, Dorota Szczepanik (2000)
    Long-tail feature of DNA words over- and under-representation in coding sequences. Computational Methods in Science and Technology
    6 () pp. 65-71
  26. Artur Duda, Aleksandra Nowicka, Paweł Dyś, Mirosław Roman Dudek (2000)
    Effect of inherited genetic information on stochastic predator-prey model. Int. J. Modern Phys. C
    11 (8) pp. 1527-1538
  27. Agnieszka Gierlik, Maria Kowalczuk, Paweł Mackiewicz, Mirosław Roman Dudek, Stanisław Cebrat (2000)
    Is There a Replication-Associated Mutational Pressure in the Saccharomyces cerevisae Genome? Journal of Theoretical Biology
    202 (4) pp. 305-314
  28. Paweł Mackiewicz, Maria Kowalczuk, Agnieszka Gierlik, Dorota Szczepanik, Aleksandra Nowicka, Mirosław Roman Dudek, Stanisław Cebrat (2000)
    No mystery of ORFans in genomics - generation of ORFans in the antisense of coding sequences. Proceedings of the Second International Conference on Bioinformatics of Genome Regulation and Structure, BGRS'2000, Novosybirsk, Russia, August 7-11, 2000
    (2) pp. 38-41
  29. Stanisław Cebrat, Mirosław Roman Dudek, Agnieszka Gierlik, Maria Kowalczuk, Paweł Mackiewicz (1999)
    Effect of replication on the third base of codons. Physica A
    265 (1-2) pp. 78-84
  30. Stanisław Cebrat, Mirosław Roman Dudek (1999)
    Periodyczność w zdolnościach kodujących DNA. ''w: Symetrie, systemy, ewolucja. (red. A. Nobis, A. Ogorzałek), Studium Generale, Wydawnictwo Uniwersytetu Wroclawskiego, Wroclaw pp. 69-92
  31. Stanisław Cebrat, Paweł Mackiewicz, Mirosław Roman Dudek (1999)
    Kodujące palindromy. ''w: Symetrie, systemy, ewolucja. (red. A. Nobis, A. Ogorzałek), Studium Generale, Wydawnictwo Uniwersytetu Wroclawskiego, Wroclaw pp. 93-114
  32. Agnieszka Gierlik, Paweł Mackiewicz, Maria Kowalczuk, Mirosław Roman Dudek, Stanisław Cebrat (1999)
    Some hints on Open Reading Frame statistics - how ORF length depends on selection. Int. J. Modern Phys. C
    10 (4) pp. 635-643
  33. Paweł Mackiewicz, Agnieszka Gierlik, Maria Kowalczuk, Mirosław Roman Dudek, Stanisław Cebrat (1999)
    Asymmetry of nucleotide composition of prokaryotic chromosomes. Journal of Applied Genetics
    40 (1) pp. 1-14
  34. Paweł Mackiewicz, Maria Kowalczuk, Agnieszka Gierlik, Mirosław Roman Dudek, Stanisław Cebrat (1999)
    Origin and properties of noncoding ORFs in the yeast genome. Nucleic Acids Res.
    27 (17) pp. 3503-3509
  35. Paweł Mackiewicz, Agnieszka Gierlik, Maria Kowalczuk, Mirosław Roman Dudek, Stanisław Cebrat (1999)
    How does replication-associated mutational pressure influence amino acid composition of proteins? Genome Research
    9 (5) pp. 409-416
  36. Maria Kowalczuk, Paweł Mackiewicz, Agnieszka Gierlik, Mirosław Roman Dudek, Stanisław Cebrat (1999)
    Total Number of Coding Open Reading Frames in the Yeast Genome. Yeast
    15 () pp. 1031-1034
  37. Maria Kowalczuk, Agnieszka Gierlik, Paweł Mackiewicz, Stanisław Cebrat, Mirosław Roman Dudek (1999)
    Optimization of Gene Sequences under Constant Mutational Pressure and Selection. Physica A
    273 () pp. 116-131
  38. Paweł Mackiewicz, Agnieszka Gierlik, Maria Kowalczuk, Dorota Szczepanik, Mirosław Roman Dudek, Stanisław Cebrat (1999)
    Mechanisms generating correlation in nucleotide composition in Borrelia burgdorferi genome. Physica A
    273 () pp. 103-115
  39. Stanisław Cebrat, Mirosław Roman Dudek, Paweł Mackiewicz (1998)
    Sequence asymmetry as a parameter indicating coding sequence in Saccharomyces cerevisiae genome. Theory in Biosciences
    117 () pp. 78-89
  40. Stanisław Cebrat, Mirosław Roman Dudek (1998)
    The effect of DNA phase structure on DNA walks. The European Physical Journal B
    3 () pp. 271-276
  41. Stanisław Cebrat, Paweł Mackiewicz, Mirosław Roman Dudek (1998)
    The role of the genetic code in generating new coding sequences inside existing genes. Biosystems
    45 (2) pp. 165-176
  42. Stanisław Cebrat, Mirosław Roman Dudek, Paweł Mackiewicz (1997)
    Is there any mystery of ORPHANs? Journal of Applied Genetics
    38 (4) pp. 365-372
  43. Stanisław Cebrat, Mirosław Roman Dudek, Paweł Mackiewicz, Maria Kowalczuk, Małgorzata Fita (1997)
    Asymmetry of coding versus non-coding strand in coding sequences of different genomes. Microbial & Comparative Genomics
    2 (4) pp. 259-268
  44. Stanisław Cebrat, Mirosław Roman Dudek, Adelina Rogowska (1997)
    Asymmetry in nucleotide composition of sense and antisense strands as a parameter for discriminating open reading frames as protein coding sequences. Journal of Applied Genetics
    38 (1) pp. 1-9
  45. Stanisław Cebrat, Mirosław Roman Dudek (1996)
    Generation of overlapping reading frames Trends in Genetics
    12 () pp. 12
  46. Stanisław Cebrat, Mirosław Roman Dudek (1996)
    Symmetry in chromosome fractal organization and DNA domain structure. preprint, Instytut Fizyki Teoretycznej, Uniwersytet Wrocławski
    904/96 ()
  47. Stanisław Cebrat, Mirosław Roman Dudek (1996)
    Symmetry in chromosome fractal organization and DNA domain structure. ''Proceedings of the 8th Joint EPS-APS Int. Conference on Physics Computing ‘96, eds. P. Borchards, M. Bubak, A. Maksymowicz (Academic Computer Center, CYFRONET-KRAKÓW) pp. 371-374
  48. Mirosław Roman Dudek, Stanisław Cebrat (1995)
    Stochastic DNA in the presence of the coding bias. preprint, Instytut Fizyki Teoretycznej, Uniwersytet Wrocławski
    897/95 ()
  49. Stanisław Cebrat, Mirosław Roman Dudek (1995)
    Coding rhythm of DNA strands. preprint, Instytut Fizyki Teoretycznej, Uniwersytet Wrocławski
    893/95 ()

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