Jakub Zieliński, PhD

Assistant Professor
Jakub Zieliński, PhD

ORCID 0000-0001-8935-8137

Bio

Jakub Zieliński, PhD is a graduate of the Faculty of Physics at the University of Warsaw. He previously worked at the Department of Biophysics and Human Physiology at the Medical University of Warsaw (MUW). He currently serves as an Assistant Professor at ICM UW.

Professional experience in major research projects

  • member of the team forecasting the spread of the SARS-CoV-2 epidemic in Poland, led by Dr. Franciszek Rakowski (ICM UW).
  • reconstruction of coronary vessels based on CT scans and analysis of blood flow pathophysiology in diseased coronary vessels, within the TRAFIC project (ICM UW)
  • MRI-based analysis of the healing and reconstruction process of the Achilles tendon, within the START project (ICM UW)
  • preparation of scientific reports for the KARDIONET project (ICM UW)
  • statistical analyses in the field of tissue engineering (MUW)

Business projects (NCBR-funded)

  • Development of a Holter monitoring analysis system
  • Implementation of medical algorithms in a pulse oximeter integrated with an ECG machine

Research interest

  • Medical Applications of Statistics & AI: Deep learning in medical imaging and ECG signal processing, machine learning in ECG and laboratory test analysis, and medical statistics.
  • Modeling of Complex Biological Systems: Physical foundations of cardiology and pulmonology (ECG analysis, heart rate variability studies, blood vessel geometry, respiratory biophysics), modeling of the SARS-CoV-2 epidemic, as well as pathophysiology and complications of diabetes.
  • Scientific Visualization & Visual Analytics: Quantitative medical image processing and analysis, CT artifact reduction, and noise reduction.

Awards

  • Rector’s Award for Scientific Achievements, University of Warsaw (2023)
  • 1st Degree Individual Teaching Award of the Rector, Medical University of Warsaw (2008)
Selected Publications: Heart Rate Variability Analysis

  • Heart rate and respiratory rate influence on heart rate variability repeatability: effects of the correction for the prevailing heart rate

    JS Gąsior, J Sacha, PJ Jeleń, J Zieliński, J Przybylski

    Frontiers in physiology 7, 356, 2016

  • Normative values for heart rate variability parameters in school-aged children: simple approach considering differences in average heart rate

    JS Gąsior, J Sacha, M Pawłowski, J Zieliński, et.al.

    Frontiers in physiology 9, 1495, 2018

Selected Publications: Epidemic Modeling

  • Predictive performance of multi-model ensemble forecasts of COVID-19 across European nations

    K Sherratt, et.al.

    Elife 12, e81916, 2023

  • A pre-registered short-term forecasting study of COVID-19 in Germany and Poland during the second wave

    J Bracher, et. al.

    Nature communications 12 (1), 5173, 2021

  • National and subnational short-term forecasting of COVID-19 in Germany and Poland during early 2021

    J Bracher, et. al.

    Communications medicine 2 (1), 136, 2022

  • Forecasting SARS-CoV-2 epidemic dynamic in Poland with the pDyn agent-based model

    K Niedzielewski, et.al.

    Epidemics 49, 100801, 2024

  • A Deep Dive into the Delta Wave: Forecasting SARS-CoV-2 Epidemic Dynamic in Poland with the pDyn Agent-Based Model

    K Niedzielewski, et. al.

    Research Square Company, 2023

  • The overview, design concepts and details protocol of ICM epidemiological model (PDYN 1.5)

    K Niedzielewski, et. al.

    2022

  • The efficiency of dynamic regional lockdown approach in controlling the COVID-19 epidemic. Insights from the agent-based epidemiological model for Poland

    J Zieliński, et. al.

    medRxiv, 2021.09. 06.21263031, 2021

Selected Publications: Respiratory and Cardiovascular Physiology

  • How much water is lost during breathing?

    J Zieliński, J Przybylski

    Advances in Respiratory Medicine 80 (4), 339-342, 2012

  • Finet’s law as a special case of the generalised Murray’s law

    J Zieliński, JM Nowosielski

    SN Computer Science 1 (1), 42, 2020

  • Role of hemoglobin affinity to oxygen in adaptation to hypoxemia

    PJ Kwasiborski, P Kowalczyk, J Zieliński, J Przybylski, A Cwetsch

    Polski Merkuriusz Lekarski, 28 (166), 2010

Selected Publications: Diabetes

  • Allogenic adipose-derived stem cells in diabetic foot ulcer treatment: clinical effectiveness, safety, survival in the wound site, and proteomic impact

    B Mrozikiewicz-Rakowska, et.al.

    International Journal of Molecular Sciences 24 (2), 1472, 2023

  • Sirtuin 1, visfatin and IL-27 serum levels of type 1 diabetic females in relation to cardiovascular parameters and autoimmune thyroid disease

    M Łukawska-Tatarczuk. et. al.

    Biomolecules 11 (8), 1110, 2021

  • Breakdown of diabetic foot ulcer care during the first year of the pandemic in Poland: a retrospective national cohort study

    M Kleibert, et. al.

    International Journal of Environmental Research and Public Health 19 (7), 3827, 2022

  • Is thyroid autoimmunity associated with subclinical atherosclerosis in young women with type 1 diabetes mellitus?

    MM Łukawska-Tatarczuk, et. al.

    Endokrynologia Polska 73 (2), 2022

  • Association of antithyroid peroxidase antibodies with cardiac function in euthyroid women with type 1 diabetes mellitus—assessment with two-dimensional speckle‑tracking echocardiography

    MM Łukawska-Tatarczuk, et. al.

    Endokrynologia Polska 73 (5), 2022

  • The phenomenon of metformin in COVID-19 pandemic among Polish patients with type 2 diabetes mellitus

    B Mrozikiewicz-Rakowska, D Bałut, PM Bąk, M Kleibert, J Zieliński

    American Heart Journal 242, 173, 2021

Selected Publications: Achilles Tendon MRI

  • Monitoring of the Achilles tendon healing process: can artificial intelligence be helpful?

    N Kapiński, J Zieliński, et. al.

    Acta of Bioengineering and Biomechanics 21 (1), 2019

  • Estimating Achilles tendon healing progress with convolutional neural networks

    N Kapinski, J Zielinski, et. al.

    International Conference on Medical Image Computing and Computer-Assisted Intervention 949-957, Springer International Publishing, 2018

  • MRI-based deep learning for in-situ monitoring of Achilles tendon regeneration process

    N. Kapiński, J. Zieliński, B. Borucki, K. Nowiński

    International Journal of Computer Assisted Radiology and Surgery 12, 57-58, 2017

  • Multidimensional Harlick’s feature space analysis for assessment of the Achilles tendon in MR imaging

    J Nowosielski, J Zieliński, B Borucki, K Nowiński

    International Journal of Computer Assisted Radiology and Surgery 12, 218-220, 2017

Selected Publications: T2 Map MRI Sequence

  • Multi-step segmentation algorithm for quantitative magnetic resonance imaging T2 mapping of ruptured Achilles tendons

    PA Regulski, J Zieliński

    IEEE Access 8, 199995-200004, 2020

  • Temporomandibular disk dislocation impacts the stomatognathic system: Comparative study based on biexponential quantitative T2 maps

    PA Regulski, J Zielinski, KT Szopinski

    Journal of Clinical Medicine 11 (6), 1621, 2022

  • Comparison of noise reducing T2-map reconstruction methods in MRI imaging of Achilles tendon

    PA Regulski, J Zieliński, BA Borucki, KS Nowiński

    Int. J. Comput. Assist. Radiol. Surg 12, S15-S16, 2017

  • A Weighted Stochastic Conjugate Direction Algorithm for Quantitative Magnetic Resonance Images—A Pattern in Ruptured Achilles Tendon T2-Mapping Assessment

    PA Regulski, J Zieliński, B Borucki, K Nowiński

    Healthcare 10 (5), 784, 2022

Selected Publications: Denoising

  • Multi-step anisotropic denoiser scheme applied for cardiac non-contrast CT images

    Jakub Zieliński, Krzysztof Nowiński

    International Journal of Computer Assisted Radiology and Surgery, 9, Suppl. 1, 2014

  • Assessment of anisotropic denoiser enhanced cone beam CT for patient dose reduction

    PA Regulski, J Zieliński, B Borucki, K Nowiński

    Int. J. Comput. Assist. Radiol. Surg 10, 295-296, 2015

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