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Article ; Online: Temporal progression of replacement and interstitial fibrosis in optimally managed dilated cardiomyopathy patients: A prospective study.

Rubiś, Pawel / Banyś, Paweł / Krupiński, Maciej / Mielnik, Małgorzata / Wiśniowska-Śmiałek, Sylwia / Dziewięcka, Ewa / Urbańczyk-Zawadzka, Małgorzata

International journal of cardiology

2024 , Page(s) 131988

Abstract: Background: To prospectively examine the dynamic evolution of fibrotic processes within a one-year in patients with dilated cardiomyopathy (DCM).: Methods: Between May 2019 and September 2020, 102 DCM patients (mean age 45.2 ± 11.8 years, EF 29.9 ± ... ...

Abstract	Background: To prospectively examine the dynamic evolution of fibrotic processes within a one-year in patients with dilated cardiomyopathy (DCM). Methods: Between May 2019 and September 2020, 102 DCM patients (mean age 45.2 ± 11.8 years, EF 29.9 ± 11.6%) underwent cardiac magnetic resonance (CMR-1). After 13.9 ± 2.9 months, 92 of these patients underwent a follow-up CMR (CMR-2). Replacement fibrosis was assessed via late gadolinium enhancement (LGE), quantified in terms of LGE mass and extent. Interstitial fibrosis was evaluated via T1-mapping and expressed as extracellular volume fraction (ECV). This data, along with left ventricular (LV) mass, facilitated the calculation of LV matrix and cellular volumes. Results: At CMR-1, LGE was present in 45 patients (48.9%), whereas at CMR-2 LGE was detected in 46 (50%) (p = 0.88). Although LGE mass remained stable, LGE extent increased from 2.18 ± 4.1% to 2.7 ± 4.6% (p < 0.01). Conversely, ECV remained unchanged [27.7% (25.5-31.3) vs. 26.7% (24.5-29.9); p = 0.19]; however, LV matrix and cell volumes exhibited a noteworthy regression. During a subsequent follow-up of 19.2 ± 9 months (spanning from CMR-2 to April 30th, 2023), the composite primary outcome (all-cause mortality, HTX, LVAD or heart failure worsening) was evident in 18 patients. Only the LV matrix volume index at follow-up was an independent predictor of outcome (OR 1.094; 95%CI 1.004-1.192; p < 0.05). Conclusions: In optimally managed DCM patients, both replacement and interstitial fibrosis remained stable over the course of one year. In contrast, LV matrix and cell volumes displayed significant regression. LV matrix volume index at 12-month follow-up was found to be an independent predictor of outcome in DCM.
Language	English
Publishing date	2024-03-27
Publishing country	Netherlands
Document type	Journal Article
ZDB-ID	779519-1
ISSN	1874-1754 ; 0167-5273
ISSN (online)	1874-1754
ISSN	0167-5273
DOI	10.1016/j.ijcard.2024.131988
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Article ; Online: SC2EGSet: StarCraft II Esport Replay and Game-state Dataset.

Białecki, Andrzej / Jakubowska, Natalia / Dobrowolski, Paweł / Białecki, Piotr / Krupiński, Leszek / Szczap, Andrzej / Białecki, Robert / Gajewski, Jan

Scientific data

2023 Volume 10, Issue 1, Page(s) 600

Abstract: As a relatively new form of sport, esports offers unparalleled data availability. Our work aims to open esports to a broader scientific community by supplying raw and pre-processed files from StarCraft II esports tournaments. These files can be used in ... ...

Abstract	As a relatively new form of sport, esports offers unparalleled data availability. Our work aims to open esports to a broader scientific community by supplying raw and pre-processed files from StarCraft II esports tournaments. These files can be used in statistical and machine learning modeling tasks and compared to laboratory-based measurements. Additionally, we open-sourced and published all the custom tools that were developed in the process of creating our dataset. These tools include PyTorch and PyTorch Lightning API abstractions to load and model the data. Our dataset contains replays from major and premiere StarCraft II tournaments since 2016. We processed 55 "replaypacks" that contained 17930 files with game-state information. Our dataset is one of the few large publicly available sources of StarCraft II data upon its publication. Analysis of the extracted data holds promise for further Artificial Intelligence (AI), Machine Learning (ML), psychological, Human-Computer Interaction (HCI), and sports-related studies in a variety of supervised and self-supervised tasks.
Language	English
Publishing date	2023-09-08
Publishing country	England
Document type	Dataset ; Journal Article
ZDB-ID	2775191-0
ISSN	2052-4463 ; 2052-4463
ISSN (online)	2052-4463
ISSN	2052-4463
DOI	10.1038/s41597-023-02510-7
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Article ; Online: Mechanical Asymmetry of the Cell Wall Predicts Changes in Pavement Cell Geometry.

Majda, Mateusz / Krupinski, Pawel / Jönsson, Henrik / Hamant, Olivier / Robert, Stéphanie

Developmental cell

2019 Volume 50, Issue 1, Page(s) 9–10

MeSH term(s)	Cell Wall ; Plant Cells
Language	English
Publishing date	2019-07-01
Publishing country	United States
Document type	Letter ; Research Support, Non-U.S. Gov't ; Comment
ZDB-ID	2054967-2
ISSN	1878-1551 ; 1534-5807
ISSN (online)	1878-1551
ISSN	1534-5807
DOI	10.1016/j.devcel.2019.06.002
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Article ; Online: Magnetic reversal in perpendicularly magnetized antidot arrays with intrinsic and extrinsic defects.

Krupinski, Michal / Sobieszczyk, Pawel / Zieliński, Piotr / Marszałek, Marta

Scientific reports

2019 Volume 9, Issue 1, Page(s) 13276

Abstract: Defects can significantly affect performance of nanopatterned magnetic devices, therefore their influence on the material properties has to be understood well before the material is used in technological applications. However, this is experimentally ... ...

Abstract	Defects can significantly affect performance of nanopatterned magnetic devices, therefore their influence on the material properties has to be understood well before the material is used in technological applications. However, this is experimentally challenging due to the inability of the control of defect characteristics in a reproducible manner. Here, we construct a micromagnetic model, which accounts for intrinsic and extrinsic defects associated with the polycrystalline nature of the material and with corrugated edges of nanostructures. The predictions of the model are corroborated by the measurements obtained for highly ordered arrays of circular Co/Pd antidots with perpendicular magnetic anisotropy. We found that magnetic properties, magnetic reversal and the evolution of the domain pattern are strongly determined by density of defects, heterogeneity of nanostructures, and edge corrugations. In particular, an increase in the Néel domain walls, as compared to Bloch walls, was observed with a increase of the antidot diameters, suggesting that a neck between two antidots can behave like a nanowire with a width determined by the array period and antidot size. Furthermore, the presence of edge corrugations can lead to the formation of a network of magnetic bubbles, which are unstable in non-patterned flat films.
Language	English
Publishing date	2019-09-16
Publishing country	England
Document type	Journal Article
ZDB-ID	2615211-3
ISSN	2045-2322 ; 2045-2322
ISSN (online)	2045-2322
ISSN	2045-2322
DOI	10.1038/s41598-019-49869-5
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Article: Ranging behaviour and habitat use in Montagu’s Harrier Circus pygargus in extensive farmland of Eastern Poland

Krupiński, Dominik / Kotowska, Dorota / Recio, Mariano R / Żmihorski, Michał / Obłoza, Przemysław / Mirski, Paweł

Journal of ornithology. 2021 Apr., v. 162, no. 2

2021

Abstract: Agriculture intensification drives changes in bird populations but also in the space use by farmland species. Agriculture in Eastern Europe still follows an extensive farming model, but due to policy shifts aimed at rural restructuring and implementation ...

Abstract	Agriculture intensification drives changes in bird populations but also in the space use by farmland species. Agriculture in Eastern Europe still follows an extensive farming model, but due to policy shifts aimed at rural restructuring and implementation of government subsidies for farmers, it is being rapidly intensified. Here, we aimed to document the ranging behaviour and habitat use of a declining farmland bird of prey—Montagu’s Harrier—and to compare it to findings from Western Europe. In 2011–2018, 50 individuals were followed with GPS loggers in Eastern Poland to study species spatial ecology. We found home ranges (kernel 90%) to be considerably large: 67.3 (± 42.3) km² in case of males, but only 4.9 (± 6.1) km² in females. Home ranges overlapped by 40%, on average, with other males in colonies and by 61%, on average, between consecutive breeding seasons of a particular male. The average daily distance travelled by males and females reached, respectively, 94.5 and 45.3 km, covering a daily home range of 32.3 and 3.1 km². Individuals foraged up to 35 km from nests (3.5 km on average). Daily distance travelled and daily home ranges varied across the breeding season, in case of females being shortest in July, but sharply increasing in August. Also, individuals with breeding success had higher daily distance travelled but smaller daily home ranges. Average harriers’ distance to nest was generally increasing over the season, but was also changing over time of day: birds were closest to nest during night time, but at the end of the season, males roosted up to 16 km from the nest. While foraging males slightly preferred grasslands, higher elevation and smaller land-use patches, they avoided slopes and proximity of roads. We conclude that the surprisingly large home ranges of breeding harriers may suggest reduced prey availability or high fragmentation of hunting areas, both driving birds to utilise large areas and potentially contributing to population decline.
Keywords	Circus pygargus ; agricultural land ; birds ; home range ; issues and policy ; land use ; males ; models ; nests ; ornithology ; population dynamics ; Eastern European region ; Poland ; Western European region
Language	English
Dates of publication	2021-04
Size	p. 325-337.
Publishing place	Springer Berlin Heidelberg
Document type	Article
Note	NAL-AP-2-clean
ZDB-ID	2134595-8
ISSN	2193-7206 ; 2193-7192
ISSN (online)	2193-7206
ISSN	2193-7192
DOI	10.1007/s10336-020-01837-x
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Article ; Online: Extracellular volume is an independent predictor of arrhythmic burden in dilated cardiomyopathy.

Rubiś, Pawel P / Dziewięcka, Ewa M / Banyś, Paweł / Urbańczyk-Zawadzka, Małgorzata / Krupiński, Maciej / Mielnik, Małgorzata / Łach, Jacek / Ząbek, Andrzej / Wiśniowska-Śmiałek, Sylwia / Podolec, Piotr / Karabinowska, Aleksandra / Holcman, Katarzyna / Garlitski, Ann C

Scientific reports

2021 Volume 11, Issue 1, Page(s) 24000

Abstract: The current stratification of arrhythmic risk in dilated cardiomyopathy (DCM) is sub-optimal. Cardiac fibrosis is involved in the pathology of arrhythmias; however, the relationship between cardiovascular magnetic resonance (CMR) derived extracellular ... ...

Abstract	The current stratification of arrhythmic risk in dilated cardiomyopathy (DCM) is sub-optimal. Cardiac fibrosis is involved in the pathology of arrhythmias; however, the relationship between cardiovascular magnetic resonance (CMR) derived extracellular volume (ECV) and arrhythmic burden (AB) in DCM is unknown. This study sought to evaluate the presence and extent of replacement and interstitial fibrosis in DCM and to compare the degree of fibrosis between DCM patients with and without AB. This is a prospective, single-center, observational study. Between May 2019 and September 2020, 102 DCM patients underwent CMR T1 mapping. 99 DCM patients (88 male, mean age 45.2 ± 11.8 years, mean EF 29.7 ± 10%) composed study population. AB was defined as the presence of VT or a high burden of PVCs. There were 41 (41.4%) patients with AB and 58 (58.6%) without AB. Replacement fibrosis was assessed with late gadolinium enhancement (LGE), whereas interstitial fibrosis with ECV. Overall, LGE was identified in 41% of patients. There was a similar distribution of LGE (without AB 50% vs. with AB 53.7%; p = 0.8) and LGE extent (without AB 4.36 ± 5.77% vs. with AB 4.68 ± 3.98%; p = 0.27) in both groups. ECV at nearly all myocardial segments and a global ECV were higher in patients with AB (global ECV: 27.9 ± 4.9 vs. 30.3 ± 4.2; p < 0.02). Only indexed left ventricular end-diastolic diameter (HR 1.1, 95%CI 1.0-1.2; p < 0.02) and global ECV (HR 1.12, 95%CI 1.0-1.25; p < 0.02) were independently associated with AB. The global ECV cut-off value of 31.05% differentiated both groups (AUC 0.713; 95%CI 0.598-0.827; p < 0.001). Neither qualitative nor quantitative LGE-based assessment of replacement fibrosis allowed for the stratification of DCM patients into low or high AB. Interstitial fibrosis, expressed as ECV, was an independent predictor of AB in DCM. Incorporation of CMR parametric indices into decision-making processes may improve arrhythmic risk stratification in DCM.
MeSH term(s)	Adult ; Arrhythmias, Cardiac/diagnostic imaging ; Arrhythmias, Cardiac/physiopathology ; Cardiomyopathy, Dilated/diagnostic imaging ; Cardiomyopathy, Dilated/physiopathology ; Contrast Media/administration & dosage ; Female ; Fibrosis ; Humans ; Magnetic Resonance Imaging, Cine ; Male ; Middle Aged ; Myocardium ; Prospective Studies
Chemical Substances	Contrast Media
Language	English
Publishing date	2021-12-14
Publishing country	England
Document type	Clinical Trial ; Journal Article ; Observational Study ; Research Support, Non-U.S. Gov't
ZDB-ID	2615211-3
ISSN	2045-2322 ; 2045-2322
ISSN (online)	2045-2322
ISSN	2045-2322
DOI	10.1038/s41598-021-03452-z
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Article ; Online: Link between fibrosis-specific biomarkers and interstitial fibrosis in hypertrophic cardiomyopathy.

Karabinowska-Małocha, Aleksandra / Dziewięcka, Ewa / Szymańska, Magdalena / Banyś, Paweł / Urbańczyk-Zawadzka, Małgorzata / Krupiński, Maciej / Mielnik, Małgorzata / Wiśniowska-Śmiałek, Sylwia / Podolec, Piotr / Budkiewicz, Aleksandra / Żydzik, Łukasz / Wypasek, Ewa / Rubiś, Paweł

Kardiologia polska

2023 Volume 81, Issue 7-8, Page(s) 692–699

Abstract: Background: Cardiac fibrosis is a hallmark of hypertrophic cardiomyopathy (HCM) and has confirmed unfavorable clinical significance. Replacement fibrosis is better known and has already been studied on a larger scale, whereas interstitial fibrosis is ... ...

Abstract	Background: Cardiac fibrosis is a hallmark of hypertrophic cardiomyopathy (HCM) and has confirmed unfavorable clinical significance. Replacement fibrosis is better known and has already been studied on a larger scale, whereas interstitial fibrosis is less explored. Aims: We aimed to analyze the relationship between serum biomarkers and interstitial fibrosis, as assessed with cardiac magnetic resonance (CMR) in HCM patients. Methods: We performed 3T CMR scans in 50 HCM patients to assess interstitial fibrosis as expressed by extracellular volume (ECV). In all patients, we determined levels of serum cardiac-specific (troponin T [TnT], N-terminal prohormone of brain natriuretic peptide [NT-proBNP]) and fibrosis-specific (procollagen I C-terminal propeptide, procollagen III N-terminal propeptide, transforming growth factor β1, galectin-3) biomarkers. Patients were divided based on their median value of ECV. Results: The final study population included 49 patients. The median value of ECV in our cohort was 28.1%. Patients stratified according to median ECV differed in terms of several variables: body mass index, late gadolinium extent, NT-proBNP, and galectin-3 levels (all P <0.05). Cardiac biomarkers (TnT and NT-proBNP) and galectin-3 were significantly correlated with ECV (rS = 0.34; P = 0.02; rS = 0.39; P = 0.006; rS = 0.43; P = 0.002, respectively). Galectin-3 and body mass index were found to be independent predictors of ECV (odds ratio [OR], 2.29 [1.07-4.91]; P = 0.03; OR, 0.81 [0.68-0.97]; P = 0.02, respectively). Conclusions: Galectin-3 was an independent predictor of interstitial fibrosis in HCM patients expressed as elevated ECV values. The other measured fibrosis-specific biomarkers were not useful in detecting interstitial fibrosis in HCM. In addition, there was a positive correlation between classical cardiac biomarkers and interstitial fibrosis in HCM patients.
MeSH term(s)	Humans ; Galectin 3 ; Procollagen ; Cardiomyopathy, Hypertrophic/diagnosis ; Biomarkers ; Fibrosis ; Myocardium/pathology ; Contrast Media ; Predictive Value of Tests
Chemical Substances	Galectin 3 ; Procollagen ; Biomarkers ; Contrast Media
Language	English
Publishing date	2023-07-11
Publishing country	Poland
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	411492-9
ISSN	1897-4279 ; 0022-9032
ISSN (online)	1897-4279
ISSN	0022-9032
DOI	10.33963/KP.a2023.0103
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Zs.MO 474: Show issues

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Article ; Online: Magnetic reversal in perpendicularly magnetized antidot arrays with intrinsic and extrinsic defects

Michal Krupinski / Pawel Sobieszczyk / Piotr Zieliński / Marta Marszałek

Scientific Reports, Vol 9, Iss 1, Pp 1-

2019 Volume 11

Abstract: Abstract Defects can significantly affect performance of nanopatterned magnetic devices, therefore their influence on the material properties has to be understood well before the material is used in technological applications. However, this is ... ...

Abstract	Abstract Defects can significantly affect performance of nanopatterned magnetic devices, therefore their influence on the material properties has to be understood well before the material is used in technological applications. However, this is experimentally challenging due to the inability of the control of defect characteristics in a reproducible manner. Here, we construct a micromagnetic model, which accounts for intrinsic and extrinsic defects associated with the polycrystalline nature of the material and with corrugated edges of nanostructures. The predictions of the model are corroborated by the measurements obtained for highly ordered arrays of circular Co/Pd antidots with perpendicular magnetic anisotropy. We found that magnetic properties, magnetic reversal and the evolution of the domain pattern are strongly determined by density of defects, heterogeneity of nanostructures, and edge corrugations. In particular, an increase in the Néel domain walls, as compared to Bloch walls, was observed with a increase of the antidot diameters, suggesting that a neck between two antidots can behave like a nanowire with a width determined by the array period and antidot size. Furthermore, the presence of edge corrugations can lead to the formation of a network of magnetic bubbles, which are unstable in non-patterned flat films.
Keywords	Medicine ; R ; Science ; Q
Subject code	530
Language	English
Publishing date	2019-09-01T00:00:00Z
Publisher	Nature Publishing Group
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Extracellular volume is an independent predictor of arrhythmic burden in dilated cardiomyopathy

Pawel P. Rubiś / Ewa M. Dziewięcka / Paweł Banyś / Małgorzata Urbańczyk-Zawadzka / Maciej Krupiński / Małgorzata Mielnik / Jacek Łach / Andrzej Ząbek / Sylwia Wiśniowska-Śmiałek / Piotr Podolec / Aleksandra Karabinowska / Katarzyna Holcman / Ann C. Garlitski

Scientific Reports, Vol 11, Iss 1, Pp 1-

2021 Volume 10

Abstract: Abstract The current stratification of arrhythmic risk in dilated cardiomyopathy (DCM) is sub-optimal. Cardiac fibrosis is involved in the pathology of arrhythmias; however, the relationship between cardiovascular magnetic resonance (CMR) derived ... ...

Abstract	Abstract The current stratification of arrhythmic risk in dilated cardiomyopathy (DCM) is sub-optimal. Cardiac fibrosis is involved in the pathology of arrhythmias; however, the relationship between cardiovascular magnetic resonance (CMR) derived extracellular volume (ECV) and arrhythmic burden (AB) in DCM is unknown. This study sought to evaluate the presence and extent of replacement and interstitial fibrosis in DCM and to compare the degree of fibrosis between DCM patients with and without AB. This is a prospective, single-center, observational study. Between May 2019 and September 2020, 102 DCM patients underwent CMR T1 mapping. 99 DCM patients (88 male, mean age 45.2 ± 11.8 years, mean EF 29.7 ± 10%) composed study population. AB was defined as the presence of VT or a high burden of PVCs. There were 41 (41.4%) patients with AB and 58 (58.6%) without AB. Replacement fibrosis was assessed with late gadolinium enhancement (LGE), whereas interstitial fibrosis with ECV. Overall, LGE was identified in 41% of patients. There was a similar distribution of LGE (without AB 50% vs. with AB 53.7%; p = 0.8) and LGE extent (without AB 4.36 ± 5.77% vs. with AB 4.68 ± 3.98%; p = 0.27) in both groups. ECV at nearly all myocardial segments and a global ECV were higher in patients with AB (global ECV: 27.9 ± 4.9 vs. 30.3 ± 4.2; p < 0.02). Only indexed left ventricular end-diastolic diameter (HR 1.1, 95%CI 1.0–1.2; p < 0.02) and global ECV (HR 1.12, 95%CI 1.0–1.25; p < 0.02) were independently associated with AB. The global ECV cut-off value of 31.05% differentiated both groups (AUC 0.713; 95%CI 0.598–0.827; p < 0.001). Neither qualitative nor quantitative LGE-based assessment of replacement fibrosis allowed for the stratification of DCM patients into low or high AB. Interstitial fibrosis, expressed as ECV, was an independent predictor of AB in DCM. Incorporation of CMR parametric indices into decision-making processes may improve arrhythmic risk stratification in DCM.
Keywords	Medicine ; R ; Science ; Q
Subject code	610 ; 630
Language	English
Publishing date	2021-12-01T00:00:00Z
Publisher	Nature Portfolio
Document type	Article ; Online
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Article ; Online: Multi-scale Dynamical Modeling of T Cell Development from an Early Thymic Progenitor State to Lineage Commitment.

Olariu, Victor / Yui, Mary A / Krupinski, Pawel / Zhou, Wen / Deichmann, Julia / Andersson, Emil / Rothenberg, Ellen V / Peterson, Carsten

Cell reports

2021 Volume 34, Issue 2, Page(s) 108622

Abstract: Intrathymic development of committed progenitor (pro)-T cells from multipotent hematopoietic precursors offers an opportunity to dissect the molecular circuitry establishing cell identity in response to environmental signals. This transition encompasses ... ...

Abstract	Intrathymic development of committed progenitor (pro)-T cells from multipotent hematopoietic precursors offers an opportunity to dissect the molecular circuitry establishing cell identity in response to environmental signals. This transition encompasses programmed shutoff of stem/progenitor genes, upregulation of T cell specification genes, proliferation, and ultimately commitment. To explain these features in light of reported cis-acting chromatin effects and experimental kinetic data, we develop a three-level dynamic model of commitment based upon regulation of the commitment-linked gene Bcl11b. The levels are (1) a core gene regulatory network (GRN) architecture from transcription factor (TF) perturbation data, (2) a stochastically controlled chromatin-state gate, and (3) a single-cell proliferation model validated by experimental clonal growth and commitment kinetic assays. Using RNA fluorescence in situ hybridization (FISH) measurements of genes encoding key TFs and measured bulk population dynamics, this single-cell model predicts state-switching kinetics validated by measured clonal proliferation and commitment times. The resulting multi-scale model provides a mechanistic framework for dissecting commitment dynamics.
MeSH term(s)	Cell Differentiation ; Cell Lineage/genetics ; Humans ; Stem Cells/metabolism ; T-Lymphocytes/physiology ; Thymus Gland/metabolism
Language	English
Publishing date	2021-01-13
Publishing country	United States
Document type	Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
ZDB-ID	2649101-1
ISSN	2211-1247 ; 2211-1247
ISSN (online)	2211-1247
ISSN	2211-1247
DOI	10.1016/j.celrep.2020.108622
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