Dr inż. Michał Marczyk, Adiunkt
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Nota biograficzna:

•10.2014 – obecnie – adiunkt, Zakład Analizy Eksploracyjnej Danych, Wydział Automatyki, Elektroniki i Informatyki, Politechnika Śląska w Gliwicach

•10.2013 – 09.2014 – asystent z doktoratem, Zakład Analizy Eksploracyjnej Danych, Wydział Automatyki, Elektroniki i Informatyki, Politechnika Śląska w Gliwicach

•09.2013 – Rozprawa doktorska z wyróżnieniem: „Przetwarzanie i klasyfikacja danych uzyskiwanych z użyciem wysokoprzepustowych technik pomiarowych biologii molekularnej”

•2012 – 2013 – Politechnika Śląska w Gliwicach, Wydział Automatyki, Elektroniki i Informatyki: Biocybernetyka i Inżynieria Biomedyczna – stacjonarne studia doktoranckie

•2008 – 2013 – Politechnika Śląska w Gliwicach, Wydział Automatyki, Elektroniki i Informatyki: Automatyka i Robotyka – stacjonarne studia doktoranckie

•2008 – 2009 – Politechnika Śląska w Gliwicach: Bioinformatyka – interdyscyplinarne studia doktoranckie

•09.2008 – Praca magisterska: „Peak alignment in protein spectra”

•2003 – 2008 – Politechnika Śląska w Gliwicach, Wydział Automatyki, Elektroniki i Informatyki: Makrokierunek – interdyscyplinarne studia stacjonarne prowadzone w jęz. angielskim, specjalizacja: Information Processing for Control

Rozwiń/Zwiń



Zainteresowania naukowe:

•Bioinformatyka, biostatystyka, eksploracyjna analiza danych, uczenie maszynowe

•Analiza oligonukleotydowych mikromacierzy DNA

•Przetwarzanie i modelowanie widm masowych typu MALDI-ToF, LC-MS i IMS

•Analiza danych qRT-PCR

•Przetwarzanie i modelowanie map peptydowych z dwuwymiarowej elektroforezy żelowej

Lista publikacji:

1. Marczyk M, Jaksik R, Polanski A, Polanska J: GaMRed – adaptive filtering of high-throughput biological data. IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2019, doi: 10.1109/TCBB.2018.2858825

2. Papiez, Anna, Michal Marczyk, Joanna Polanska, and Andrzej Polanski. "BatchI: Batch effect Identification in high-throughput screening data using a dynamic programming algorithm." Bioinformatics 35, no. 11 (2019): 1885.

3. Ostrowski Marcin, Marczyk Michał, Dziedzic Robert, Jelitto-Górska Małgorzata, Marjański Tomasz, Pisiak Sylwia, Jędrzejczyk Tadeusz, Polańska Joanna, Zdrojewski Tomasz, Wojtyniak Bogdan, Rzyman Witold: Lung cancer and comorbidities in lung cancer screening participants. Five-year follow-up of Gdańsk screening cohort. European Journal of Public Health, 2019, 29(6), p. 1114-7

4. Foldi J, O’Meara T, Marczyk M, Sanft T, Silber A, Pusztai L: Defining Risk of Late Recurrence in Early-Stage Estrogen Receptor–Positive Breast Cancer: Clinical Versus Molecular Tools. Journal of Clinical Oncology 2019, 37(16), p. 1365-69

5. Joanna Zyla; Michal Marczyk; Teresa Domaszewska; Stefan H.E. Kaufmann; Joanna Polanska; January Weiner: Gene set enrichment for reproducible science: comparison of CERNO and eight other algorithms. Bioinformatics, 2019, doi: 10.1093/bioinformatics/btz447

6. Marczyk M, Fu C, Lau R, Du L, Trevarton AJ, Sinn BV, Gould RE, Pusztai L, Hatzis C, Symmans WF: The impact of RNA extraction method on accurate RNA sequencing from formalin-fixed paraffin-embedded tissues. BMC Cancer 2019, 19, 1189

7. Polanski A, Marczyk M, Pietrowska M, Widlak P, Polanska J: Initializing the EM Algorithm for Univariate Gaussian, Multi-Component, Heteroscedastic Mixture Models by Dynamic Programming Partitions, International Journal of Computational Methods, 2018, 15(3): 1850012 (21 pages), doi: 10.1142/S0219876218500123

8. Dziedzic R, Zurek W, Marjanski T, Rudzinski P, Orlowski TM, Sawicka W, Marczyk M, Polanska J, Rzyman W: Stage I non-small cell lung cancer. Long-term results of lobectomy versus sublobar resection from the Polish National Lung Cancer Registry. European Journal of Cardio-Thoracic Surgery, 2017, 52(2):363–369, doi: 10.1093/ejcts/ezx092

9. Marczyk M: Mixture modeling of 2D gel electrophoresis spots enhances the performance of spot detection. IEEE Transactions on Nanobioscience 2017, 16(2), p.91-99

10. Zyla J, Marczyk M, Weiner J, Polanska J: Ranking metrics in Gene Set Enrichment Analysis: do they matter? BMC Bioinformatics, 2017, 18(1):256, doi:10.1186/s12859-017-1674-0

11. Ros-Mazurczyk M, Jelonek K, Marczyk M, Binczyk F, Pietrowska M, Polanska J, Dziadziuszko R, Jassem J, Rzyman W, Widlak P: Serum lipid profile discriminates patients with early lung cancer from healthy controls. Lung Cancer, 2017, 112:69-74; doi:10.1016/j.lungcan.2017.07.036

12. Zyla J., Marczyk M., Polanska J.: Reproducibility of Finding Enriched Gene Sets in Biological Data Analysis. In: Fdez-Riverola F., Mohamad M., Rocha M., De Paz J., Pinto T. (eds) 11th International Conference on Practical Applications of Computational Biology & Bioinformatics. PACBB 2017. Advances in Intelligent Systems and Computing, vol 616. p. 146-154 (2017) Springer, Cham ISBN:978-3-319-60815-0

13. Skrzypski MT, Szymanowska-Narloch A, Jassem E, Marczyk M, Polanska J, Biernat W, Rzyman W, Maciejewska A, Pawlowski R, Jassem J: Prognostic value of NK and T-lymphocytes markers in operable non-small cell lung cancer (NSCLC). Journal of Clinical Oncology 2017, 35(15_suppl), p. 11556. ASCO Annual Meeting, Chicago, USA, June 2-6, 2017

14. Skrzypski MT, Marczyk M, Szymanowska A, Kowalczyk A, Maciejewska A, Pawlowski R, Biernat W, Polanska J, Jassem J: Prognostic value of the expression of NKG2D and CD96 in early stage non-small cell lung cancer (NSCLC). Cancer Research 2017, 77(13 Suppl), p. 3700. American Association for Cancer Research Annual Meeting, Washington, USA, April 1-5, 2017

15. Marczyk M, Polanski A, Polanska J: Improving Peak Detection by Gaussian Mixture Modeling of Mass Spectral Signal. In ISBN: 978-1-5386-1037-4, pp. 39-43, 3rd International Conference on Frontiers of Signal Processing ICFSP 2017, Paris, France, September 6-8, 2017

16. Skrzypski MT, Szymanowska-Narloch A, Kowalczyk A, Maciejewska A, Marczyk M, Polanska J, Biernat W, Rzyman W, Jassem J: Prognostic value of NK and T-lymphocytes markers in operable non-small cell lung cancer (NSCLC). Annals of Oncology 2017, 28(supp. 5), p. 1713P. 42nd European Society for Medical-Oncology Congress (ESMO), Madrid, Spain, September 8-12, 2017

17. Marczyk M: Processing 2D Gel Electrophoresis Images for Efficient Gaussian Mixture Modeling. In 11th International Conference on Practical Applications of Computational Biology & Bioinformatics. PACBB 2017. Advances in Intelligent Systems and Computing, vol 616, Fdez-Riverola F, Mohamad M, Rocha M, De Paz J, Pinto T, editors. Springer, Cham 2017, p. 35-42 (ISBN: 978-3-319-60815-0)

18. Marczyk M, Smejkal T: Spatial Feature Selection For Finding Biomarkers Using Imaging Mass Spectrometry Data. In Proceedings of the XXIII National Conference on Applications of Mathematics in Biology and Medicine, p. 123-129 (ISBN: 978-83-932893-3-2)

19. Danielsson D, Brehwens K, Halle M, Marczyk M, Sollazzo A, Polanska J, Munck-Wikland E, Wojcik A, Haghdoost S: Influence of genetic background and stress response on risk of mandibular osteoradionecrosis after radiotherapy of head and neck cancer. Head and Neck, 2016, 38(3):387-93 DOI: 10.1002/hed.23903

20. Widlak P, Pietrowska M, Polanska J, Marczyk M, Ros M, Dziadziuszko R, Jassem J, Rzyman W: Serum mass profile signature as a biomarker of early lung cancer. Lung Cancer, 2016, 99:46-52, http://dx.doi.org/10.1016/j.lungcan.2016.06.011

21. Bobowicz M, Skrzypski M, Czapiewski P, Marczyk M, Maciejewska A, Jankowski M, Szulgo-Paczkowska A, Zegarski W, Pawlowski R, Polanska J, Biernat W, Jaskiewicz J, Jassem J: Prognostic value of 5-microRNA based signature in T2-T3N0 colon cancer. Clinical & Experimental Metastasis, 2016, 33:765–773, DOI 10.1007/s10585-016-9810-1

22. Zyla J, Marczyk M, Polanska J: Sensitivity, Specificity and Prioritization of Gene Set Analysis When Applying Different Ranking Metrics. In 10th International Conference on Practical Applications of Computational Biology & Bioinformatics, PACBB'16, 1-3 June 2016, Sevilla, Spain. Advances in Intelligent Systems and Computing, vol. 477, p.61-69, Eds. M. Saberi Mohamad, P.M. Rocha, F. Fdez-Riverola, J.F. Domínguez Mayo, F.J. De Paz, Springer International Publishing 2016, ISBN: 978-3-319-40125-6

23. Marczyk M: Improved Detection of 2D Gel Electrophoresis Spots by Using Gaussian Mixture Model. In Bioinformatics Research and Applications, A. Bourgeois, P. Skums, X. Wan and A. Zelikovsky, Editors. Springer International Publishing 2016. p. 284-94, ISBN: 978-3-319-38781-9

24. Polanski A, Marczyk M, Pietrowska M, Widlak P, Polanska J: Signal Partitioning Algorithm for Highly Efficient Gaussian Mixture Modeling in Mass Spectrometry. PLOS ONE, 2015, 10(7): e0134256, doi:10.1371/journal.pone.0134256

25. Binczyk F, Marczyk M and Polanska J: Mixture model based efficient method for magnetic resonance spectra quantification. Bioinformatics and Biomedical Engineering, Lecture Notes in Computer Science, vol. 9044, pp.406-417, ISBN 978-3-319-16480-9, Eds. Ortuño, Francisco, Rojas, Ignacio, 3rd International Work-Conference on Bioinformatics and Biomedical Engineering IWBBIO 2015, Granada, Spain, 15-17.04.2015

26. Skrzypski MT, Marczyk M, Bobowicz M, Czapiewski P, Maciejewska A, Pawlowski R, Polanska J, Jassem J: MicroRNA (MiRNA) expression profiles in early colon cancer (CC) and lung adenocarcinoma (AC). Journal of Clinical Oncology 2015, vol. 33 (suppl; abstr e22062). ASCO Annual Meeting, Chicago, USA, May 29-June 2, 2015

27. Marczyk M, Drazek G, Pietrowska M, Widlak P, Polanska J, Polanski A: Modeling of Imaging Mass Spectrometry Data and Testing by Permutation for Biomarkers Discovery in Tissues. Procedia Computer Science 2015, 51, p. 693-702. International Conference On Computational Science, ICCS 2015, Reykjavík, Iceland, June 1-3, 2015

28. Widlak P, Pietrowska M, Polanska J, Marczyk M, Dziadziuszko R, Rzyman W: Components of Serum Peptidome Can Differentiate between Healthy Controls and Patients with Early Stage Lung Cancer. 16th World Conference on Lung Cancer, 6-9 September 2015, Denver, Colorado, USA. Journal of Thoracic Oncology, 10(9):Suppl.2:S491 ( P1.06-012)

29. Lesniewski-Kmak Krzysztof, Marjanski Tomasz, Zurek Wojciech, Marczyk Michal, Polanska Joanna, Rzyman Witold: Analysis of Factors That Have Impact on Adjuvant Chemotherapy Application in Operated Stage IIA-IV Non-Small Cell Lung Cancer. 16th World Conference on Lung Cancer, 6-9 September 2015, Denver, Colorado, USA. Journal of Thoracic Oncology, 10(9):Suppl.2:S678 (P3.02-033)

30. Polanski A, Marczyk M, Pietrowska M, Widlak P, Polanska J: Least squares estimators of peptide species concentrations based on Gaussian mixture decompositions of protein mass spectra. 12th German-Polish Workshop on Stochastic Models, Statistics and Their Applications, SMSTA 2015, 16-20.02.2015, Wrocław, Poland. Proceedings in Mathematics and Statistics, vol.122, pp 425-432, ISBN 978-3-319-13880-0 Eds. Steland A, Rafajłowicz E, Szajowski K. Springer

31. Jaksik R, Marczyk M, Polanska J, Rzeszowska-Wolny J: Sources of high variance between probe signals in Affymetrix short oligonucleotide microarrays. Sensors, 2014, 14(1):532-548, doi:10.3390/s140100532

32. Jelonek K, Pietrowska M, Ros M, Zagdanski A, Suchwałko A, Polanska J, Marczyk M, Rutkowski T, Składowski K, Clench MR, Widłak P: Radiation-induced changes in serum lipidome of head and neck cancer patients. International Journal of Molecular Sciences, 2014, 15(4), p. 6609-6624, doi:10.3390/ijms15046609

33. Deperas M, Bajinskis A, Marczyk M, Polanska J, Wersall P, Lidbrink E, Ainsbury EA, Guipaud O, Benderitter M, Haghdoost S, Wojcik A: Radiation induced changes in levels of selected proteins in peripheral blood serum of breast cancer patients as a potential triage biodosimeter for large scale radiological emergencies. Health Physics, 2014, 107(6):555-563, doi:10.1097/HP.0000000000000158

34. Marczyk M, Polanska J, Polanski A: Comparison of Algorithms for Profile-Based Alignment of Low Resolution MALDI-ToF Spectra. In Advances in Intelligent Systems and Computing, Vol. 242 of Man-Machine Interactions 3, Gruca A, Czachorski T, Kozielski S, editors. Springer Berlin Heidelberg 2014, p. 193-201 (ISBN: 978-3-319-02308-3), ICMMI 2013, 22-25.10.2013 Brenna, Poland

35. Marczyk M, Polanska J: Methods for quality control of low-resolution MALDI-ToF spectra, Proceedings of 5th International Conference on Bioinformatics Models, Methods and Algorithms p.172-177, ISBN:978-989-758-012-3. BIOSTEC/Bioinformatics 2014, 03-07.03.2014 Angers, FRANCE

36. Foszner P, Gruca A, Polanski A, Marczyk M, Jaksik R, Polanska J: An efficient algorithm for microarray probes re-annotation – the extended version, Transactions on Computational Intelligence XIII, Lecture Notes in Computer Science, Eds. Nguyen NT, Le-Thi HA, vol. 8342:201-218, doi: 10.1007/978-3-642-54455-2_9, 2014, ISBN: 978-3-642-54454-5

37. Marczyk M, Krol L, Polanska J: Automatic detection of outlying microarrays using multi-array quality metrics. Proceedings of International Work-Conference on Bioinformatics and Biomedical Engineering (IWBBIO 2014). vol.1 p.738-746, ISBN:978-84-15814-84-9, 7-9.04.2014, Granada, SPAIN

38. Deperas-Kaminska M, Bajinskis A, Marczyk M, Polanska J, Wersall P, Lidbrink E, Ainsbury EA, Guipaud O, Benderitter M, Haghdoost S, Wojcik A: Radiation induced changes in levels of selected proteins in peripheral blood serum of breast cancer patients as a potential triage biodosimeter for large scale radiological emergencies. 41st Annual Meeting of the European Radiation Research Society, ERR2014, September 14-19, 2014, Rhodes, Greece

39. Marczyk M, Jaksik R, Polanski A, Polanska J: Adaptive filtering of microarray expression data based on Gaussian mixture decomposition. BMC Bioinformatics 2013, 14(1):101 doi:10.1186/1471-2105-14-101

40. Pietrowska M, Polanska J, Suwinski R, Widel M, Rutkowski T, Marczyk M, Dominczyk I, Ponge L, Marczak L, Polanski A, Widlak P: Comparison of peptide cancer signatures identified by mass spectrometry in serum of patients with head and neck, lung and colorectal cancers: Association with tumor progression. International Journal of Oncology 2012, 40(1):148-156

41. Widlak P. Pietrowska M. Wojtkiewicz K. Rutkowski T. Wygoda A. Marczak Ł. Marczyk M. Polanska J. Walaszczyk A. Dominczyk I. Składowski K. Stobiecki M. Polanski A: Radiation-related changes in serum proteome profiles detected by mass spectrometry in blood of patients treated with radiotherapy due to larynx cancer. Journal of Radiation Research 2011, 52(5):575-581

42. Pietrowska M. Polanska J. Walaszczyk A. Wygoda A. Rutkowski T. Skladowski K. Marczak L. Stobiecki M. Marczyk M. Polanski A. Widlak P: Association between plasma proteome profiles analyzed by mass spectrometry, a lymphocyte-based DNA-break repair assay and radiotherapy-induced acute mucosal reaction in head and neck cancer patients. International Journal of Radiation Biology 2011, 87(7):711-719

43. Marczyk M: Evaluation of available protein mass spectra pre-processing algorithms. Bio-Algorithms and Med-Systems 2011, 7(2):25-30

44. Foszner P. Gruca A. Polanski A. Marczyk M. Jaksik R. Polanska J: Efficient algorithm for microarray probes re-annotation. 3rd International Conference on Computational Collective Intelligence Technologies and Applications ICCCI 2011, Special Session on Computational Collective Intelligence in Bioinformatics, CCIB 2011. 21-23 September 2011, Gdynia, Poland, published in Lecture Notes in Computer Science. Eds. Jedrzejowicz P, Nguyen NT, Hoang K, vol. 6923/2011: 281-289

45. Marczyk M. Jaksik R. Polanski A. Polanska J: Affymetrix Chip Definition Files construction based on custom probe set annotation database. In Eds. R.Katarzyniak, TF.Chiu, CF.Hong, NT.Nguyen, Wydawnictwo Springer Verlag 2011, seria Studies in Computational Intelligence, vol. 381, 2011 “Semantic Methods for Knowledge Management and Communication” , p.135-144. 3rd International Conference on Computational Collective Intelligence Technologies and Applications ICCCI 2011

46. Widlak P. Pietrowska M. Rutkowski T. Wygoda A. Skladowski K. Wojtkiewicz K. Marczyk M. Polanska J: Radiation-related Changes in Serum Proteome Profiles Detected by Mass Spectrometry in Blood of Patients Treated with Radiotherapy Due to Larynx Cancer. International Journal of Radiation Oncology & Biology & Physics 2011, 81(2):S161-162. 53rd Annual ASTRO Meeting Miami, USA

47. Wojtkiewicz K. Marczyk M. Polanska J. Polanski A. Marczak Ł. Stobiecki M. Pietrowska M. Domińczyk I. Behrendt K. Nowicka E. Tarnawski R. Widlak P: Wykorzystanie spektrometrii mas do analizy proteomu surowicy chorych na raka piersi. Onkologia Info 2010, 7(2):40-47