192 results on '"De Bruyne P"'
Search Results
2. New Tricarboxylate Plasticizers for Use in Polylactic Acid: Synthesis, Thermal Behavior, Mechanical Properties and Durability
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De Bruyne, Anthony, Gómez, Kenneth Cerdán, O’Rourke, Galahad, Denayer, Mats, Vekeman, Jelle, De Proft, Frank, Stuyck, Wouter, Leinders, Jarne, Van Puyvelde, Peter, and De Vos, Dirk
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- 2024
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3. Association Between Automated 3D Measurement of Coronary Luminal Narrowing and Risk of Future Myocardial Infarction
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Candreva, Alessandro, Lodi Rizzini, Maurizio, Calò, Karol, Pagnoni, Mattia, Munhoz, Daniel, Chiastra, Claudio, Aben, Jean-Paul, Fournier, Stephane, Muller, Olivier, De Bruyne, Bernard, Collet, Carlos, Gallo, Diego, and Morbiducci, Umberto
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- 2024
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4. Linear statistics for Coulomb gases: higher order cumulants
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De Bruyne, Benjamin, Doussal, Pierre Le, Majumdar, Satya N., and Schehr, Gregory
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Mathematical Physics ,Condensed Matter - Statistical Mechanics ,Mathematics - Probability - Abstract
We consider $N$ classical particles interacting via the Coulomb potential in spatial dimension $d$ and in the presence of an external trap, at equilibrium at inverse temperature $\beta$. In the large $N$ limit, the particles are confined within a droplet of finite size. We study smooth linear statistics, i.e. the fluctuations of sums of the form ${\cal L}_N = \sum_{i=1}^N f({\bf x}_i)$, where ${\bf x}_i$'s are the positions of the particles and where $f({\bf x}_i)$ is a sufficiently regular function. There exists at present standard results for the first and second moments of ${\cal L}_N$ in the large $N$ limit, as well as associated Central Limit Theorems in general dimension and for a wide class of confining potentials. Here we obtain explicit expressions for the higher order cumulants of ${\cal L}_N$ at large $N$, when the function $f({\bf x})=f(|{\bf x}|)$ and the confining potential are both rotationnally invariant. A remarkable feature of our results is that these higher cumulants depend only on the value of $f'(|{\bf x}|)$ and its higher order derivatives evaluated exactly at the boundary of the droplet, which in this case is a $d$-dimensional sphere. In the particular two-dimensional case $d=2$ at the special value $\beta=2$, a connection to the Ginibre ensemble allows us to derive these results in an alternative way using the tools of determinantal point processes. Finally we also obtain the large deviation form of the full probability distribution function of ${\cal L}_N$., Comment: 19 pages
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- 2023
5. PhD thesis 'Extreme value statistics and optimization problems in stochastic processes'
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De Bruyne, Benjamin
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Condensed Matter - Statistical Mechanics - Abstract
This thesis is devoted to the study of extreme value statistics in stochastic processes and their applications. In the first part, we obtain exact analytical results on the extreme value statistics of both discrete-time and continuous-time random walks. In particular, we focus on the gap statistics of random walks and exhibit their asymptotic universality with respect to the jump distribution in the limit of a large number of steps. In addition, we compute the asymptotic behavior of the expected maximum of random walks in the presence of a bridge constraint and reveal a rich behavior in their finite-size correction. Moreover, we compute the expected length of the convex hull of Brownian motion confined in a disk and show that it converges slowly to the perimeter of the disk with a stretched exponential decay. In the second part, we focus on numerically sampling rare trajectories of stochastic processes. We introduce an efficient method to sample bridge discrete-time random walks. We illustrate it and apply it to various examples. We further extend the method to other stochastic processes, both Markovian and non-Markovian. We apply our method to sample surviving particles in the presence of a periodic trapping environment. Finally, we discuss several optimization problems in stochastic processes involving extreme value statistics. In particular, we introduce a new technique to optimally control dynamical systems undergoing a resetting policy., Comment: 134 pages, 54 figures
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- 2023
6. Innovative label-free lymphoma diagnosis using infrared spectroscopy and machine learning on tissue sections
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Delrue, Charlotte, Hofmans, Mattias, Van Dorpe, Jo, Van der Linden, Malaïka, Van Gaever, Zen, Kerre, Tessa, Speeckaert, Marijn M., and De Bruyne, Sander
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- 2024
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7. AXL as immune regulator and therapeutic target in Acute Myeloid Leukemia: from current progress to novel strategies
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Vandewalle, Niels, De Beule, Nathan, De Becker, Ann, De Bruyne, Elke, Menu, Eline, Vanderkerken, Karin, Breckpot, Karine, Devoogdt, Nick, and De Veirman, Kim
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- 2024
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8. Fueling CARs: metabolic strategies to enhance CAR T-cell therapy
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Van der Vreken, Arne, Vanderkerken, Karin, De Bruyne, Elke, De Veirman, Kim, Breckpot, Karine, and Menu, Eline
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- 2024
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9. Targeting mTOR signaling pathways in multiple myeloma: biology and implication for therapy
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Wang, Yanmeng, Vandewalle, Niels, De Veirman, Kim, Vanderkerken, Karin, Menu, Eline, and De Bruyne, Elke
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- 2024
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10. Combining a prioritization strategy and functional studies nominates 5’UTR variants underlying inherited retinal disease
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Dueñas Rey, Alfredo, del Pozo Valero, Marta, Bouckaert, Manon, Wood, Katherine A, Van den Broeck, Filip, Daich Varela, Malena, Thomas, Huw B, Van Heetvelde, Mattias, De Bruyne, Marieke, Van de Sompele, Stijn, Bauwens, Miriam, Lenaerts, Hanne, Mahieu, Quinten, Josifova, Dragana, Rivolta, Carlo, O’Keefe, Raymond T, Ellingford, Jamie, Webster, Andrew R, Arno, Gavin, Ayuso, Carmen, De Zaeytijd, Julie, Leroy, Bart P, De Baere, Elfride, and Coppieters, Frauke
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- 2024
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11. Innovative label-free lymphoma diagnosis using infrared spectroscopy and machine learning on tissue sections
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Charlotte Delrue, Mattias Hofmans, Jo Van Dorpe, Malaïka Van der Linden, Zen Van Gaever, Tessa Kerre, Marijn M. Speeckaert, and Sander De Bruyne
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Biology (General) ,QH301-705.5 - Abstract
Abstract The diagnosis of lymphomas is challenging due to their diverse histological presentations and clinical manifestations. There is a need for inexpensive tools that require minimal expertise and are accessible for routine laboratories. Contrastingly, current conventional diagnostic methods are often found only in specialized environments. Attenuated total reflection-Fourier transform infrared (ATR-FTIR) spectroscopy offers a nondestructive and user-friendly approach in the analysis of a wide range of samples. In this paper, we determined whether the technique coupled with machine learning can detect and differentiate lymphoma within lymphoid tissue samples. Tissue sections from 295 individuals diagnosed with lymphoma and 389 individuals without the disease were analyzed using ATR-FTIR spectroscopy. The resulting spectral dataset was split using a 70:30 train-test split. Partial least Squares Discriminant Analysis (PLS-DA) models were trained to distinguish non-malignant lymphoid tissue from lymphoma samples and to differentiate between subtypes. On the training set (n = 478), significant spectral differences were mainly identified in the 1800–900 cm–1 region, attributed to fundamental biochemical constituents like proteins, lipids, carbohydrates, and nucleic acids. On the independent test set (n = 206), the trained PLS-DA model achieved a promising AUC of 0.882 (95% CI: 0.881–0.884) in the differentiation between lymphoma and non-malignant lymphoid tissue. In addition, comparative analyses revealed spectral distinctions and notable clustering between the different lymphoma subtypes. This study provides valuable insights into the application of ATR-FTIR spectroscopy and machine learning in the field of lymphoma diagnosis as a non-destructive, rapid and inexpensive tool with the potential to be easily implemented in non-specialized laboratories.
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- 2024
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12. AXL as immune regulator and therapeutic target in Acute Myeloid Leukemia: from current progress to novel strategies
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Niels Vandewalle, Nathan De Beule, Ann De Becker, Elke De Bruyne, Eline Menu, Karin Vanderkerken, Karine Breckpot, Nick Devoogdt, and Kim De Veirman
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AXL ,Immunoregulation ,Therapy ,Acute Myeloid Leukemia ,Diseases of the blood and blood-forming organs ,RC633-647.5 ,Neoplasms. Tumors. Oncology. Including cancer and carcinogens ,RC254-282 - Abstract
Abstract Until recently, treatment options for patients diagnosed with Acute Myeloid Leukemia (AML) were limited and predominantly relied on various combinations, dosages, or schedules of traditional chemotherapeutic agents. Patients with advanced age, relapsed/refractory disease or comorbidities were often left without effective treatment options. Novel advances in the understanding of leukemogenesis at the molecular and genetic levels, alongside recent progress in drug development, have resulted in the emergence of novel therapeutic agents and strategies for AML patients. Among these innovations, the receptor tyrosine kinase AXL has been established as a promising therapeutic target for AML. AXL is a key regulator of several cellular functions, including epithelial-to-mesenchymal transition in tumor cells, immune regulation, apoptosis, angiogenesis and the development of chemoresistance. Clinical studies of AXL inhibitors, as single agents and in combination therapy, have demonstrated promising efficacy in treating AML. Additionally, novel AXL-targeted therapies, such as AXL-specific antibodies or antibody fragments, present potential solutions to overcome the limitations associated with traditional small-molecule AXL inhibitors or multikinase inhibitors. This review provides a comprehensive overview of the structure and biological functions of AXL under normal physiological conditions, including its role in immune regulation. We also summarize AXL’s involvement in cancer, with a specific emphasis on its role in the pathogenesis of AML, its contribution to immune evasion and drug resistance. Moreover, we discuss the AXL inhibitors currently undergoing (pre)clinical evaluation for the treatment of AML.
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- 2024
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13. Impact of coronary CT image quality on the accuracy of the FFRCT Planner
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Andreini, Daniele, Belmonte, Marta, Penicka, Martin, Van Hoe, Lieven, Mileva, Niya, Paolisso, Pasquale, Nagumo, Sakura, Nørgaard, Bjarne L., Ko, Brian, Otake, Hiromasa, Koo, Bon-Kwon, Jensen, Jesper Møller, Mizukami, Takuya, Munhoz, Daniel, Updegrove, Adam, Taylor, Charles, Leipsic, Jonathon, Sonck, Jeroen, De Bruyne, Bernard, and Collet, Carlos
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- 2024
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14. Fueling CARs: metabolic strategies to enhance CAR T-cell therapy
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Arne Van der Vreken, Karin Vanderkerken, Elke De Bruyne, Kim De Veirman, Karine Breckpot, and Eline Menu
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CAR T cells ,Co-stimulus ,Drug repurposing ,Metabolism ,Mitochondria ,Diseases of the blood and blood-forming organs ,RC633-647.5 ,Neoplasms. Tumors. Oncology. Including cancer and carcinogens ,RC254-282 - Abstract
Abstract CAR T cells are widely applied for relapsed hematological cancer patients. With six approved cell therapies, for Multiple Myeloma and other B-cell malignancies, new insights emerge. Profound evidence shows that patients who fail CAR T-cell therapy have, aside from antigen escape, a more glycolytic and weakened metabolism in their CAR T cells, accompanied by a short lifespan. Recent advances show that CAR T cells can be metabolically engineered towards oxidative phosphorylation, which increases their longevity via epigenetic and phenotypical changes. In this review we elucidate various strategies to rewire their metabolism, including the design of the CAR construct, co-stimulus choice, genetic modifications of metabolic genes, and pharmacological interventions. We discuss their potential to enhance CAR T-cell functioning and persistence through memory imprinting, thereby improving outcomes. Furthermore, we link the pharmacological treatments with their anti-cancer properties in hematological malignancies to ultimately suggest novel combination strategies.
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- 2024
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15. OPENPichia: licence-free Komagataella phaffii chassis strains and toolkit for protein expression
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Claes, Katrien, Van Herpe, Dries, Vanluchene, Robin, Roels, Charlotte, Van Moer, Berre, Wyseure, Elise, Vandewalle, Kristof, Eeckhaut, Hannah, Yilmaz, Semiramis, Vanmarcke, Sandrine, Çıtak, Erhan, Fijalkowska, Daria, Grootaert, Hendrik, Lonigro, Chiara, Meuris, Leander, Michielsen, Gitte, Naessens, Justine, van Schie, Loes, De Rycke, Riet, De Bruyne, Michiel, Borghgraef, Peter, and Callewaert, Nico
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- 2024
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16. Blood Flow Energy Identifies Coronary Lesions Culprit of Future Myocardial Infarction
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Lodi Rizzini, Maurizio, Candreva, Alessandro, Mazzi, Valentina, Pagnoni, Mattia, Chiastra, Claudio, Aben, Jean-Paul, Fournier, Stephane, Cook, Stephane, Muller, Olivier, De Bruyne, Bernard, Mizukami, Takuya, Collet, Carlos, Gallo, Diego, and Morbiducci, Umberto
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- 2024
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17. Epidemiology and molecular typing of multidrug-resistant bacteria in tertiary hospitals and nursing homes in Flanders, Belgium
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van Kleef-van Koeveringe, Stefanie, Matheeussen, Veerle, Schuermans, Annette, De Koster, Sien, Perales Selva, Natascha, Jansens, Hilde, De Coninck, Dieter, De Bruyne, Katrien, Mensaert, Klaas, Kluytmans-van den Bergh, Marjolein, Kluytmans, Jan, Goossens, Herman, Dhaeze, Wouter, and Leroux-Roels, Isabel
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- 2024
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18. Targeting mTOR signaling pathways in multiple myeloma: biology and implication for therapy
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Yanmeng Wang, Niels Vandewalle, Kim De Veirman, Karin Vanderkerken, Eline Menu, and Elke De Bruyne
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mTOR ,Multiple myeloma ,Protein synthesis ,Targeted therapy ,Medicine ,Cytology ,QH573-671 - Abstract
Abstract Multiple Myeloma (MM), a cancer of terminally differentiated plasma cells, is the second most prevalent hematological malignancy and is incurable due to the inevitable development of drug resistance. Intense protein synthesis is a distinctive trait of MM cells, supporting the massive production of clonal immunoglobulins or free light chains. The mammalian target of rapamycin (mTOR) kinase is appreciated as a master regulator of vital cellular processes, including regulation of metabolism and protein synthesis, and can be found in two multiprotein complexes, mTORC1 and mTORC2. Dysregulation of these complexes is implicated in several types of cancer, including MM. Since mTOR has been shown to be aberrantly activated in a large portion of MM patients and to play a role in stimulating MM cell survival and resistance to several existing therapies, understanding the regulation and functions of the mTOR complexes is vital for the development of more effective therapeutic strategies. This review provides a general overview of the mTOR pathway, discussing key discoveries and recent insights related to the structure and regulation of mTOR complexes. Additionally, we highlight findings on the mechanisms by which mTOR is involved in protein synthesis and delve into mTOR-mediated processes occurring in MM. Finally, we summarize the progress and current challenges of drugs targeting mTOR complexes in MM.
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- 2024
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19. Transport properties of diffusive particles conditioned to survive in trapping environments
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Pozzoli, Gaia and De Bruyne, Benjamin
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Condensed Matter - Statistical Mechanics ,Mathematics - Probability - Abstract
We consider a one-dimensional Brownian motion with diffusion coefficient $D$ in the presence of $n$ partially absorbing traps with intensity $\beta$, separated by a distance $L$ and evenly spaced around the initial position of the particle. We study the transport properties of the process conditioned to survive up to time $t$. We find that the surviving particle first diffuses normally, before it encounters the traps, then undergoes a period of transient anomalous diffusion, after which it reaches a final diffusive regime. The asymptotic regime is governed by an effective diffusion coefficient $D_\text{eff}$, which is induced by the trapping environment and is typically different from the original one. We show that when the number of traps is \emph{finite}, the environment enhances diffusion and induces an effective diffusion coefficient that is systematically equal to $D_\text{eff}=2D$, independently of the number of the traps, the trapping intensity $\beta$ and the distance $L$. On the contrary, when the number of traps is \emph{infinite}, we find that the environment inhibits diffusion with an effective diffusion coefficient that depends on the traps intensity $\beta$ and the distance $L$ through a non-trivial scaling function $D_\text{eff}=D \mathcal{F}(\beta L/D)$, for which we obtain a closed-form. Moreover, we provide a rejection-free algorithm to generate surviving trajectories by deriving an effective Langevin equation with an effective repulsive potential induced by the traps. Finally, we extend our results to other trapping environments., Comment: 28 pages, 10 figures
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- 2022
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20. Enhancing pediatric attention-deficit hyperactivity disorder treatment: exploring the gut microbiota effects of French maritime pine bark extract and methylphenidate intervention
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Anne-Sophie Weyns, Sarah Ahannach, Tim Van Rillaer, Tess De Bruyne, Sarah Lebeer, and Nina Hermans
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polyphenols ,French maritime pine bark extract ,attention-deficit hyperactivity disorder ,methylphenidate ,gut microbiome ,prebiotics ,Nutrition. Foods and food supply ,TX341-641 - Abstract
IntroductionThe pathogenesis of Attention-Deficit Hyperactivity Disorder (ADHD) is thought to be multifactorial, with a potential role for the bidirectional communication between the gut microbiome and brain development and function. Since the “golden-standard” medication therapy with methylphenidate (MPH) is linked to multiple adverse effects, there is a need for alternative treatment options such as dietary polyphenols. These secondary plant metabolites exert antioxidant and anti-inflammatory effects, but much less is known about their impact on the gut microbiota. Since polyphenols are believed to modulate gut microbial composition, interventions might be advantageous in ADHD therapy. Therefore, intervention studies with polyphenols in ADHD therapy investigating the gut microbial composition are highly relevant.MethodsBesides the primary research questions addressed previously, this study explored a potential prebiotic effect of the polyphenol-rich French Maritime Pine Bark Extract (PBE) compared to MPH and a placebo in pediatric ADHD patients by studying their impact on the gut microbiota via amplicon sequencing of the full length 16S rRNA gene ribosomal subunit (V1-V9).ResultsOne interesting finding was the high relative abundance of Bifidobacteria among all patients in our study cohort. Moreover, our study has identified that treatment (placebo, MPH and PBE) explains 3.94% of the variation in distribution of microbial taxa (adjusted p-value of 0.011).DiscussionOur small sample size (placebo: n = 10; PBE: n = 13 and MPH: n = 14) did not allow to observe clear prebiotic effects in the patients treated with PBE. Notwithstanding this limitation, subtle changes were noticeable and some limited compositional changes could be observed.Clinical Trial Registrationdoi: 10.1186/S13063-017-1879-6
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- 2024
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21. Universal order statistics for random walks & L\'evy flights
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De Bruyne, Benjamin, Majumdar, Satya N., and Schehr, Gregory
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Condensed Matter - Statistical Mechanics ,Mathematics - Probability - Abstract
We consider one-dimensional discrete-time random walks (RWs) of $n$ steps, starting from $x_0=0$, with arbitrary symmetric and continuous jump distributions $f(\eta)$, including the important case of L\'evy flights. We study the statistics of the gaps $\Delta_{k,n}$ between the $k^\text{th}$ and $(k+1)^\text{th}$ maximum of the set of positions $\{x_1,\ldots,x_n\}$. We obtain an exact analytical expression for the probability distribution $P_{k,n}(\Delta)$ valid for any $k$ and $n$, and jump distribution $f(\eta)$, which we then analyse in the large $n$ limit. For jump distributions whose Fourier transform behaves, for small $q$, as $\hat f (q) \sim 1 - |q|^\mu$ with a L\'evy index $0< \mu \leq 2$, we find that, the distribution becomes stationary in the limit of $n\to \infty$, i.e. $\lim_{n\to \infty} P_{k,n}(\Delta)=P_k(\Delta)$. We obtain an explicit expression for its first moment $\mathbb{E}[\Delta_{k}]$, valid for any $k$ and jump distribution $f(\eta)$ with $\mu>1$, and show that it exhibits a universal algebraic decay $ \mathbb{E}[\Delta_{k}]\sim k^{1/\mu-1} \Gamma\left(1-1/\mu\right)/\pi$ for large $k$. Furthermore, for $\mu>1$, we show that in the limit of $k\to\infty$ the stationary distribution exhibits a universal scaling form $P_k(\Delta) \sim k^{1-1/\mu} \mathcal{P}_\mu(k^{1-1/\mu}\Delta)$ which depends only on the L\'evy index $\mu$, but not on the details of the jump distribution. We compute explicitly the limiting scaling function $\mathcal{P}_\mu(x)$ in terms of Mittag-Leffler functions. For $1< \mu <2$, we show that, while this scaling function captures the distribution of the typical gaps on the scale $k^{1/\mu-1}$, the atypical large gaps are not described by this scaling function since they occur at a larger scale of order $k^{1/\mu}$., Comment: 40 pages, 11 figures
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- 2022
22. EMILIN1 deficiency causes arterial tortuosity with osteopenia and connects impaired elastogenesis with defective collagen fibrillogenesis.
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Adamo, Christin S, Beyens, Aude, Schiavinato, Alvise, Keene, Douglas R, Tufa, Sara F, Mörgelin, Matthias, Brinckmann, Jürgen, Sasaki, Takako, Niehoff, Anja, Dreiner, Maren, Pottie, Lore, Muiño-Mosquera, Laura, Gulec, Elif Yilmaz, Gezdirici, Alper, Braghetta, Paola, Bonaldo, Paolo, Wagener, Raimund, Paulsson, Mats, Bornaun, Helen, De Rycke, Riet, De Bruyne, Michiel, Baeke, Femke, Devine, Walter P, Gangaram, Balram, Tam, Allison, Balasubramanian, Meena, Ellard, Sian, Moore, Sandra, Symoens, Sofie, Shen, Joseph, Cole, Stacey, Schwarze, Ulrike, Holmes, Kathryn W, Hayflick, Susan J, Wiszniewski, Wojciech, Nampoothiri, Sheela, Davis, Elaine C, Sakai, Lynn Y, Sengle, Gerhard, and Callewaert, Bert
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Animals ,Humans ,Mice ,Bone Diseases ,Metabolic ,Cutis Laxa ,Collagen ,Elastin ,Extracellular Matrix Proteins ,EFEMP2 ,EMILIN1 ,LOX ,aortic aneurysm ,arterial tortuosity ,collagen ,cutis laxa ,elastic fiber ,extracellular matrix ,fracture ,Rare Diseases ,Pediatric ,Congenital Structural Anomalies ,1.1 Normal biological development and functioning ,2.1 Biological and endogenous factors ,Underpinning research ,Aetiology ,Biological Sciences ,Medical and Health Sciences ,Genetics & Heredity - Abstract
EMILIN1 (elastin-microfibril-interface-located-protein-1) is a structural component of the elastic fiber network and localizes to the interface between the fibrillin microfibril scaffold and the elastin core. How EMILIN1 contributes to connective tissue integrity is not fully understood. Here, we report bi-allelic EMILIN1 loss-of-function variants causative for an entity combining cutis laxa, arterial tortuosity, aneurysm formation, and bone fragility, resembling autosomal-recessive cutis laxa type 1B, due to EFEMP2 (FBLN4) deficiency. In both humans and mice, absence of EMILIN1 impairs EFEMP2 extracellular matrix deposition and LOX activity resulting in impaired elastogenesis, reduced collagen crosslinking, and aberrant growth factor signaling. Collagen fiber ultrastructure and histopathology in EMILIN1- or EFEMP2-deficient skin and aorta corroborate these findings and murine Emilin1-/- femora show abnormal trabecular bone formation and strength. Altogether, EMILIN1 connects elastic fiber network with collagen fibril formation, relevant for both bone and vascular tissue homeostasis.
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- 2022
23. Combining a prioritization strategy and functional studies nominates 5’UTR variants underlying inherited retinal disease
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Alfredo Dueñas Rey, Marta del Pozo Valero, Manon Bouckaert, Katherine A Wood, Filip Van den Broeck, Malena Daich Varela, Huw B Thomas, Mattias Van Heetvelde, Marieke De Bruyne, Stijn Van de Sompele, Miriam Bauwens, Hanne Lenaerts, Quinten Mahieu, Dragana Josifova, Genomics England Research Consortium, Carlo Rivolta, Raymond T O’Keefe, Jamie Ellingford, Andrew R Webster, Gavin Arno, Carmen Ayuso, Julie De Zaeytijd, Bart P Leroy, Elfride De Baere, and Frauke Coppieters
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5’untranslated region (5’UTR) ,Upstream open reading frame (uORF) ,Non-coding variation ,Whole genome sequencing (WGS) ,Whole exome sequencing (WES) ,In silico prioritization ,Medicine ,Genetics ,QH426-470 - Abstract
Abstract Background 5’ untranslated regions (5’UTRs) are essential modulators of protein translation. Predicting the impact of 5’UTR variants is challenging and rarely performed in routine diagnostics. Here, we present a combined approach of a comprehensive prioritization strategy and functional assays to evaluate 5’UTR variation in two large cohorts of patients with inherited retinal diseases (IRDs). Methods We performed an isoform-level re-analysis of retinal RNA-seq data to identify the protein-coding transcripts of 378 IRD genes with highest expression in retina. We evaluated the coverage of their 5’UTRs by different whole exome sequencing (WES) kits. The selected 5’UTRs were analyzed in whole genome sequencing (WGS) and WES data from IRD sub-cohorts from the 100,000 Genomes Project (n = 2397 WGS) and an in-house database (n = 1682 WES), respectively. Identified variants were annotated for 5’UTR-relevant features and classified into seven categories based on their predicted functional consequence. We developed a variant prioritization strategy by integrating population frequency, specific criteria for each category, and family and phenotypic data. A selection of candidate variants underwent functional validation using diverse approaches. Results Isoform-level re-quantification of retinal gene expression revealed 76 IRD genes with a non-canonical retina-enriched isoform, of which 20 display a fully distinct 5’UTR compared to that of their canonical isoform. Depending on the probe design, 3–20% of IRD genes have 5’UTRs fully captured by WES. After analyzing these regions in both cohorts, we prioritized 11 (likely) pathogenic variants in 10 genes (ARL3, MERTK, NDP, NMNAT1, NPHP4, PAX6, PRPF31, PRPF4, RDH12, RD3), of which 7 were novel. Functional analyses further supported the pathogenicity of three variants. Mis-splicing was demonstrated for the PRPF31:c.-9+1G>T variant. The MERTK:c.-125G>A variant, overlapping a transcriptional start site, was shown to significantly reduce both luciferase mRNA levels and activity. The RDH12:c.-123C>T variant was found in cis with the hypomorphic RDH12:c.701G>A (p.Arg234His) variant in 11 patients. This 5’UTR variant, predicted to introduce an upstream open reading frame, was shown to result in reduced RDH12 protein but unaltered mRNA levels. Conclusions This study demonstrates the importance of 5’UTR variants implicated in IRDs and provides a systematic approach for 5’UTR annotation and validation that is applicable to other inherited diseases.
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- 2024
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24. First-Passage-Driven Boundary Recession
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De Bruyne, B., Randon-Furling, J., and Redner, S.
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Condensed Matter - Statistical Mechanics ,Mathematics - Probability - Abstract
We investigate a moving boundary problem for a Brownian particle on the semi-infinite line in which the boundary moves by a distance proportional to the time between successive collisions of the particle and the boundary. Phenomenologically rich dynamics arises. In particular, the probability for the particle to first reach the moving boundary for the $n^\text{th}$ time asymptotically scales as $t^{-(1+2^{-n})}$. Because the tail of this distribution becomes progressively fatter, the typical time between successive first passages systematically gets longer. We also find that the number of collisions between the particle and the boundary scales as $\ln\ln t$, while the time dependence of the boundary position varies as $t/\ln t$., Comment: 11 pages, 4 figure, for a special issue of JPA on resetting processes
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- 2022
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25. Optimal Resetting Brownian Bridges
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De Bruyne, Benjamin, Majumdar, Satya N., and Schehr, Gregory
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Condensed Matter - Statistical Mechanics ,Mathematics - Probability - Abstract
We introduce a resetting Brownian bridge as a simple model to study search processes where the total search time $t_f$ is finite and the searcher returns to its starting point at $t_f$. This is simply a Brownian motion with a Poissonian resetting rate $r$ to the origin which is constrained to start and end at the origin at time $t_f$. We first provide a rejection-free algorithm to generate such resetting bridges in all dimensions by deriving an effective Langevin equation with an explicit space-time dependent drift $\tilde \mu({\bf x},t)$ and resetting rate $\tilde r({\bf x}, t)$. We also study the efficiency of the search process in one-dimension by computing exactly various observables such as the mean-square displacement, the hitting probability of a fixed target and the expected maximum. Surprisingly, we find that there exists an optimal resetting rate $r^*$ that maximizes the search efficiency, even in the presence of a bridge constraint. We show however that the physical mechanism responsible for this optimal resetting rate for bridges is entirely different from resetting Brownian motions without the bridge constraint., Comment: Main text: 6 pages + 3 figs, Supp. Mat.: 9 pages + 3 figs
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- 2022
26. Resetting in Stochastic Optimal Control
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De Bruyne, Benjamin and Mori, Francesco
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Condensed Matter - Statistical Mechanics ,Mathematics - Optimization and Control - Abstract
``When in a difficult situation, it is sometimes better to give up and start all over again''. While this empirical truth has been regularly observed in a wide range of circumstances, quantifying the effectiveness of such a heuristic strategy remains an open challenge. In this paper, we combine the notions of optimal control and stochastic resetting to address this problem. The emerging analytical framework allows not only to measure the performance of a given restarting policy but also to obtain the optimal strategy for a wide class of dynamical systems. We apply our technique to a system with a final reward and show that the reward value must be larger than a critical threshold for resetting to be effective. Our approach, analogous to the celebrated Hamilton-Jacobi-Bellman paradigm, provides the basis for the investigation of realistic restarting strategies across disciplines. As an application, we show that the framework can be applied to an epidemic model to predict the optimal lockdown policy., Comment: 11 pages, 7 figures
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- 2021
27. Statistics of the maximum and the convex hull of a Brownian motion in confined geometries
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De Bruyne, Benjamin, Bénichou, Olivier, Majumdar, Satya N., and Schehr, Gregory
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Condensed Matter - Statistical Mechanics ,Mathematics - Probability - Abstract
We consider a Brownian particle with diffusion coefficient $D$ in a $d$-dimensional ball of radius $R$ with reflecting boundaries. We study the maximum $M_x(t)$ of the trajectory of the particle along the $x$-direction at time $t$. In the long time limit, the maximum converges to the radius of the ball $M_x(t) \to R$ for $t\to \infty$. We investigate how this limit is approached and obtain an exact analytical expression for the distribution of the fluctuations $\Delta(t) = [R-M_x(t)]/R$ in the limit of large $t$ in all dimensions. We find that the distribution of $\Delta(t)$ exhibits a rich variety of behaviors depending on the dimension $d$. These results are obtained by establishing a connection between this problem and the narrow escape time problem. We apply our results in $d=2$ to study the convex hull of the trajectory of the particle in a disk of radius $R$ with reflecting boundaries. We find that the mean perimeter $\langle L(t)\rangle$ of the convex hull exhibits a slow convergence towards the perimeter of the circle $2\pi R$ with a stretched exponential decay $2\pi R-\langle L(t)\rangle \propto \sqrt{R}(Dt)^{1/4} \,e^{-2\sqrt{2Dt}/R}$. Finally, we generalise our results to other confining geometries, such as the ellipse with reflecting boundaries. Our results are corroborated by thorough numerical simulations., Comment: 19 pages, 7 figures
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- 2021
28. Targeting S100A9 protein affects mTOR-ER stress signaling and increases venetoclax sensitivity in Acute Myeloid Leukemia
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Rong Fan, Hatice Satilmis, Niels Vandewalle, Emma Verheye, Elke De Bruyne, Eline Menu, Nathan De Beule, Ann De Becker, Gamze Ates, Ann Massie, Tessa Kerre, Marie Törngren, Helena Eriksson, Karin Vanderkerken, Karine Breckpot, Ken Maes, and Kim De Veirman
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Neoplasms. Tumors. Oncology. Including cancer and carcinogens ,RC254-282 - Abstract
Abstract Acute Myeloid Leukemia (AML) is a heterogeneous disease with limited treatment options and a high demand for novel targeted therapies. Since myeloid-related protein S100A9 is abundantly expressed in AML, we aimed to unravel the therapeutic impact and underlying mechanisms of targeting both intracellular and extracellular S100A9 protein in AML cell lines and primary patient samples. S100A9 silencing in AML cell lines resulted in increased apoptosis and reduced AML cell viability and proliferation. These therapeutic effects were associated with a decrease in mTOR and endoplasmic reticulum stress signaling. Comparable results on AML cell proliferation and mTOR signaling could be observed using the clinically available S100A9 inhibitor tasquinimod. Interestingly, while siRNA-mediated targeting of S100A9 affected both extracellular acidification and mitochondrial metabolism, tasquinimod only affected the mitochondrial function of AML cells. Finally, we found that S100A9-targeting approaches could significantly increase venetoclax sensitivity in AML cells, which was associated with a downregulation of BCL-2 and c-MYC in the combination group compared to single agent therapy. This study identifies S100A9 as a novel molecular target to treat AML and supports the therapeutic evaluation of tasquinimod in venetoclax-based regimens for AML patients.
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- 2023
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29. Comparative efficacy of materials used in patients undergoing pulpotomy or direct pulp capping in carious teeth: A systematic review and meta‐analysis
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Athanasios Fasoulas, Georgios Keratiotis, Loukia Spineli, Nikos Pandis, Mieke A. A. De Bruyne, Roeland J.G. De Moor, and Maarten A. Meire
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Biodentine ,calcium hydroxide ,direct pulp capping ,MTA ,pulpotomy ,vital pulp treatment ,Dentistry ,RK1-715 - Abstract
Abstract Objectives Different materials have been used for capping the pulp after exposure during caries removal in permanent teeth. The purpose of this study was to collate and analyze all pertinent evidence from randomized controlled trials (RCTs) on different materials used in patients undergoing pulpotomy or direct pulp capping in carious teeth. Materials and Methods Trials comparing two or more capping agents used for direct pulp capping (DPC) or pulpotomy were considered eligible. An electronic search of four databases and two clinical trial registries was carried out up to February 28, 2021 using a search strategy properly adapted to the PICO framework. Screening, data extraction, and risk of bias (RoB) assessment of primary studies were performed in duplicate and independently. The primary outcome was clinical and radiological success; secondary outcomes included continued root formation, tooth discoloration, and dentin bridge formation. Results 21 RCTs were included in the study. The RoB assessment indicated a moderate risk among the studies. Due to significant clinical and statistical heterogeneity among the studies, performing network meta‐analysis (NMA) was not possible. An ad hoc subgroup analysis revealed strong evidence of a higher success of DPC with Mineral Trioxide Aggregate (MTA) compared to calcium hydroxide (CH) (odds ratio [OR] = 3.10, 95% confidence interval [CI]: 1.66−5.79). MTA performed better than CH in pulp capping (both DPC and pulpotomy) of mature compared to immature teeth (OR = 3.34, 95% CI: 1.81−6.17). The GRADE assessment revealed moderate strength of evidence for DPC and mature teeth, and low to very low strength of evidence for the remaining subgroups. Conclusions Considerable clinical and statistical heterogeneity among the trials did not allow NMA. The ad hoc subgroup analysis indicated that the clinical and radiographic success of MTA was higher than that of CH but only in mature teeth and DPC cases where the strength of evidence was moderate. PROSPERO Registration: number CRD42020127239.
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- 2023
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30. Illness-related parental stress and quality of life in children with kidney diseases
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De Bruyne, Elke, Willem, Lore, Van Hoeck, Koen, Reynaert, Sarah, Vankerckhove, Sylvie, Adams, Brigitte, Leroi, Stéphanie, Collard, Laure, Michaux, Aline, Godefroid, Nathalie, Mekahli, Djalila, Knops, Noël, Eloot, Sunny, Raes, Ann, Walle, Johan Vande, Van Hoecke, Eline, Snauwaert, Evelien, and Levtchenko, Elena
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- 2023
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31. Long-Term Respiratory Outcome of Children with Empyema
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Jalunis, Mohamed Mustakim, Hng, Shih Ying, Eg, Kah Peng, Gowdh, Nadia Fareeda Muhammad, Sanmugam, Anand, Nah, Shireen Anne, Nathan, Anna Marie, and de Bruyne, Jessie Anne
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- 2024
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32. Implementando la vía clínica ANOCA
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Thabo Mahendiran and Bernard De Bruyne
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Internal medicine ,RC31-1245 - Abstract
En pocas palabras, el objetivo de la coronariografía diagnóstica es diferenciar el origen del dolor torácico de un paciente entre 1 de 4 endotipos: a) estenosis epicárdica; b) espasmo coronario; c) enfermedad microvascular coronaria (EMC); y d) igualmente importante, dolor torácico no coronario. Resulta imperativo señalar que este último es un diagnóstico por descarte y, por lo tanto, no puede confirmarse sin realizar una valoración formal de los demás mecanismos implicados (figura 1). A pesar de esta verdad palmaria, la interpretación de la mayoría de las coronariografías se limita a la mera «observación» de un «sombragrama». Un abordaje con un bajo rendimiento diagnóstico, ya que el 40% de los pacientes no presentan estenosis epicárdicas significativas, una entidad conocida como angina sin enfermedad coronaria obstructiva (ANOCA)1. A pesar de la presencia de angina típica o de la evidencia de isquemia durante las pruebas no invasivas, estos pacientes suelen quedar descartados sin más sin un diagnóstico formal. Figura 1. Se debe realizar un cateterismo con coronariografía a los pacientes que presentan dolor torácico intenso, recurrente y debilitante y, cuando sea necesario, pruebas de la función coronaria para averiguar el mecanismo desencadenante del dolor. El dolor torácico de origen no coronario es un diagnóstico...
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- 2024
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33. Implementing an ANOCA clinic
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Thabo Mahendiran and Bernard De Bruyne
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Medicine - Abstract
Simply stated, the goal of diagnostic coronary angiography is to distinguish the cause of a patient’s chest pain from 1 of 4 endotypes: a) epicardial stenosis; b) coronary spasm; c) coronary microvascular disease (CMD); and d) —equally important—noncoronary chest pain. Crucially, the latter is a diagnosis of exclusion and consequently cannot be confirmed without formal assessment of the other mechanisms (figure 1). Despite this truism, the interpretation of most coronary angiograms is limited to simple “eyeballing” of an epicardial “shadowgram”. This approach has a low diagnostic yield with 40% of patients found to have no significant epicardial stenoses—an entity known as angina with no obstructive coronary arteries (ANOCA).1 Despite the presence of typical angina or evidence of ischemia during noninvasive testing, these patients, are frequently nonchalantly dismissed without a formal diagnosis. Figure 1. Patients with compelling, recurring, and debilitating chest pain should undergo catheterization with coronary angiography and—when needed—coronary function testing to unravel the mechanism of their pain. Noncoronary chest pain is a diagnosis of exclusion and consequently can only be confirmed if the 3 other mechanisms have been assessed. FFR, fractional flow reserve; PPG, pullback pressure gradient. This very large group of patients is heterogeneous, and establishing the underlying cause of...
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- 2024
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34. Central nervous system manifestations of LRBA deficiency: case report of two siblings and literature review
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T. C. Mangodt, K. Vanden Driessche, K. K. Norga, N. Moes, M. De Bruyne, F. Haerynck, V. Bordon, A. C. Jansen, and A. I. Jonckheere
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Central nervous system ,LRBA deficiency ,Neurological ,Hearing loss ,Case report ,MRI ,Pediatrics ,RJ1-570 - Abstract
Abstract Background LPS-responsive beige-like anchor protein (LRBA) deficiency is a primary immunodeficiency disease (PID) characterized by a regulatory T cell defect resulting in immune dysregulation and autoimmunity. We present two siblings born to consanguineous parents of North African descent with LRBA deficiency and central nervous system (CNS) manifestations. As no concise overview of these manifestations is available in literature, we compared our patient’s presentation with a reviewed synthesis of the available literature. Case presentations The younger brother presented with enteropathy at age 1.5 years, and subsequently developed Evans syndrome and diabetes mellitus. These autoimmune manifestations led to the genetic diagnosis of LRBA deficiency through whole exome sequencing with PID gene panel. At 11 years old, he had two tonic–clonic seizures. Brain MRI showed multiple FLAIR-hyperintense lesions and a T2-hyperintense lesion of the cervical medulla. His sister presented with immune cytopenia at age 9 years, and developed diffuse lymphadenopathy and interstitial lung disease. Genetic testing confirmed the same mutation as her brother. At age 13 years, a brain MRI showed multiple T2-FLAIR-hyperintense lesions. She received an allogeneic hematopoietic stem cell transplantation (allo-HSCT) 3 months later. Follow-up MRI showed regression of these lesions. Conclusions Neurological disease is documented in up to 25% of patients with LRBA deficiency. Manifestations range from cerebral granulomas to acute disseminating encephalomyelitis, but detailed descriptions of neurological and imaging phenotypes are lacking. LRBA deficiency amongst other PIDs should be part of the differential diagnosis in patients with inflammatory brain lesions. We strongly advocate for a more detailed description of CNS manifestations in patients with LRBA deficiency, when possible with MR imaging. This will aid clinical decision concerning both anti-infectious and anti-inflammatory therapy and in considering the indication for allo-HSCT.
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- 2023
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35. Intravascular Imaging Findings After PCI in Patients With Focal and Diffuse Coronary Artery Disease
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Hirofumi Ohashi, Takuya Mizukami, Jeroen Sonck, Frederic Bouisset, Brian Ko, Bjarne L. Nørgaard, Michael Mæng, Jesper Møller Jensen, Koshiro Sakai, Hirohiko Ando, Tetsuya Amano, Nicolas Amabile, Ziad Ali, Bernard De Bruyne, Bon‐Kwon Koo, Hiromasa Otake, and Carlos Collet
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coronary artery disease ,fractional flow reserve ,optical coherence tomography ,pullback pressure gradient ,Diseases of the circulatory (Cardiovascular) system ,RC666-701 - Abstract
Background Following percutaneous coronary intervention (PCI), optical coherence tomography provides prognosis information. The pullback pressure gradient is a novel index that discriminates focal from diffuse coronary artery disease based on fractional flow reserve pullbacks. We sought to investigate the association between coronary artery disease patterns, defined by coronary physiology, and optical coherence tomography after stent implantation in stable patients undergoing PCI. Methods and Results This multicenter, prospective, single‐arm study was conducted in 5 countries (NCT03782688). Subjects underwent motorized fractional flow reserve pullbacks evaluation followed by optical coherence tomography‐guided PCI. Post‐PCI optical coherence tomography minimum stent area, stent expansion, and the presence of suboptimal findings such as incomplete stent apposition, stent edge dissection, and irregular tissue protrusion were compared between patients with focal versus diffuse disease. Overall, 102 patients (105 vessels) were included. Fractional flow reserve before PCI was 0.65±0.14, pullback pressure gradient was 0.66±0.14, and post‐PCI fractional flow reserve was 0.88±0.06. The mean minimum stent area was 5.69±1.99 mm2 and was significantly larger in vessels with focal disease (6.18±2.12 mm2 versus 5.19±1.72 mm2, P=0.01). After PCI, incomplete stent apposition, stent edge dissection, and irregular tissue protrusion were observed in 27.6%, 10.5%, and 51.4% of the cases, respectively. Vessels with focal disease at baseline had a lower prevalence of incomplete stent apposition (11.3% versus 44.2%, P=0.002) and more irregular tissue protrusion (69.8% versus 32.7%, P
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- 2024
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36. Antiviral Wolbachia strains associate with Aedes aegypti endoplasmic reticulum membranes and induce lipid droplet formation to restrict dengue virus replication
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Robson K. Loterio, Ebony A. Monson, Rachel Templin, Jyotika T. de Bruyne, Heather A. Flores, Jason M. Mackenzie, Georg Ramm, Karla J. Helbig, Cameron P. Simmons, and Johanna E. Fraser
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Wolbachia ,Aedes aegypti ,dengue ,flavivirus ,antiviral ,arbovirus ,Microbiology ,QR1-502 - Abstract
ABSTRACT Wolbachia are a genus of insect endosymbiotic bacteria which includes strains wMel and wAlbB that are being utilized as a biocontrol tool to reduce the incidence of Aedes aegypti-transmitted viral diseases like dengue. However, the precise mechanisms underpinning the antiviral activity of these Wolbachia strains are not well defined. Here, we generated a panel of Ae. aegypti-derived cell lines infected with antiviral strains wMel and wAlbB or the non-antiviral Wolbachia strain wPip to understand host cell morphological changes specifically induced by antiviral strains. Antiviral strains were frequently found to be entirely wrapped by the host endoplasmic reticulum (ER) membrane, while wPip bacteria clustered separately in the host cell cytoplasm. ER-derived lipid droplets (LDs) increased in volume in wMel- and wAlbB-infected cell lines and mosquito tissues compared to cells infected with wPip or Wolbachia-free controls. Inhibition of fatty acid synthase (required for triacylglycerol biosynthesis) reduced LD formation and significantly restored ER-associated dengue virus replication in cells occupied by wMel. Together, this suggests that antiviral Wolbachia strains may specifically alter the lipid composition of the ER to preclude the establishment of dengue virus (DENV) replication complexes. Defining Wolbachia’s antiviral mechanisms will support the application and longevity of this effective biocontrol tool that is already being used at scale.IMPORTANCEAedes aegypti transmits a range of important human pathogenic viruses like dengue. However, infection of Ae. aegypti with the insect endosymbiotic bacterium, Wolbachia, reduces the risk of mosquito to human viral transmission. Wolbachia is being utilized at field sites across more than 13 countries to reduce the incidence of viruses like dengue, but it is not well understood how Wolbachia induces its antiviral effects. To examine this at the subcellular level, we compared how different strains of Wolbachia with varying antiviral strengths associate with and modify host cell structures. Strongly antiviral strains were found to specifically associate with the host endoplasmic reticulum and induce striking impacts on host cell lipid droplets. Inhibiting Wolbachia-induced lipid redistribution partially restored dengue virus replication demonstrating this is a contributing role for Wolbachia's antiviral activity. These findings provide new insights into how antiviral Wolbachia strains associate with and modify Ae. aegypti host cells.
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- 2024
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37. Flow cytometry interference in patients treated with tafasitamab: Unraveling the diagnostic maze
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Lisa Proost, Stijn Lambrecht, Mattias Hofmans, Ciel De Vriendt, Marijn Speeckaert, Carolien Bonroy, Barbara Denys, and Sander De Bruyne
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Diseases of the blood and blood-forming organs ,RC633-647.5 - Published
- 2024
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38. Targeting S100A9 protein affects mTOR-ER stress signaling and increases venetoclax sensitivity in Acute Myeloid Leukemia
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Fan, Rong, Satilmis, Hatice, Vandewalle, Niels, Verheye, Emma, De Bruyne, Elke, Menu, Eline, De Beule, Nathan, De Becker, Ann, Ates, Gamze, Massie, Ann, Kerre, Tessa, Törngren, Marie, Eriksson, Helena, Vanderkerken, Karin, Breckpot, Karine, Maes, Ken, and De Veirman, Kim
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- 2023
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39. Central nervous system manifestations of LRBA deficiency: case report of two siblings and literature review
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Mangodt, T. C., Vanden Driessche, K., Norga, K. K., Moes, N., De Bruyne, M., Haerynck, F., Bordon, V., Jansen, A. C., and Jonckheere, A. I.
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- 2023
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40. ‘A radical operation’ – a thematic analysis of newspaper framing of bariatric surgery in adolescents
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Lefere, Sander, Verghote, Kato, De Bruyne, Ruth, Provoost, Veerle, and Satalkar, Priya P.
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- 2023
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41. Correction to: ‘A radical operation’ – a thematic analysis of newspaper framing of bariatric surgery in adolescents
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Lefere, Sander, Verghote, Kato, De Bruyne, Ruth, Provoost, Veerle, and Satalkar, Priya P.
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- 2023
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42. Anaesthetist prediction of postoperative opioid use: a multicentre prospective cohort study
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Kieran Taylor, Mihika De Bruyne, Christine Li, Marcus Yip, Dominique Grant, Xinci Tang, Sarah Laing, Braden Preston, Kavinay Chand, Anurika De Silva, Kate Leslie, and Jai N. Darvall
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anaesthesia ,opioid ,postoperative nausea and vomiting ,risk prediction ,risk score ,Anesthesiology ,RD78.3-87.3 - Abstract
Background: The Apfel simplified risk score includes four risk factors: female sex, non-smoking status, postoperative nausea and vomiting or motion sickness history, and postoperative opioid use. The score is calculated preoperatively, so postoperative opioid use must be predicted. We aimed to determine whether anaesthetists can predict patients' postoperative opioid use and dose. Methods: Specialist anaesthetists from eight hospitals preoperatively predicted opioid use and dose in the post-anaesthesia care unit (PACU) and for the first 24 h postoperatively, which was compared with actual opioid use and dose. Opioid doses were converted to oral morphine equivalents (MEQ). Correlations between predicted and actual opioid use and dose were analysed with Spearman's rho and linear regression. Results: A total of 487 anaesthetist–patient pairs were included. Anaesthetists overpredicted opioid use (398 [82%] predicted vs 251 [52%] actual patients requiring opioids in the PACU; 396 [81%] predicted vs 291 [60%] actual in the first 24 h) (Spearman's rho [95% confidence interval] 0.24 [0.16–0.33], P
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- 2023
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43. Coronary CT Angiography in the Cath Lab: Leveraging Artificial Intelligence to Plan and Guide Percutaneous Coronary Intervention
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Hirofumi Ohashi, Frédéric Bouisset, Dimitri Buytaert, Ruiko Seki, Jeroen Sonck, Koshiro Sakai, Marta Belmonte, Pieter Kitslaar, Adam Updegrove, Tetsuya Amano, Daniele Andreini, Bernard De Bruyne, and Carlos Collet
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Surgery ,RD1-811 ,Diseases of the circulatory (Cardiovascular) system ,RC666-701 - Abstract
The role of coronary CT angiography for the diagnosis and risk stratification of coronary artery disease is well established. However, its potential beyond the diagnostic phase remains to be determined. The current review focuses on the insights that coronary CT angiography can provide when planning and performing percutaneous coronary interventions. We describe a novel approach incorporating anatomical and functional pre-procedural planning enhanced by artificial intelligence, computational physiology and online 3D CT guidance for percutaneous coronary interventions. This strategy allows the individualisation of patient selection, optimisation of the revascularisation strategy and effective use of resources.
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- 2023
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44. RNA-sequencing based first choice of treatment and determination of risk in multiple myeloma
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Martina Emde-Rajaratnam, Susanne Beck, Vladimir Benes, Hans Salwender, Uta Bertsch, Christoph Scheid, Mathias Hänel, Katja Weisel, Thomas Hielscher, Marc S. Raab, Hartmut Goldschmidt, Anna Jauch, Ken Maes, Elke De Bruyne, Eline Menu, Kim De Veirman, Jérôme Moreaux, Karin Vanderkerken, Anja Seckinger, and Dirk Hose
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multiple myeloma ,immunotherapeutic targets ,personalized treatment ,risk-adapted treatment ,RNA-sequencing ,survival ,Immunologic diseases. Allergy ,RC581-607 - Abstract
BackgroundImmunotherapeutic targets in multiple myeloma (MM) have variable expression height and are partly expressed in subfractions of patients only. With increasing numbers of available compounds, strategies for appropriate choice of targets (combinations) are warranted. Simultaneously, risk assessment is advisable as patient’s life expectancy varies between months and decades.MethodsWe first assess feasibility of RNA-sequencing in a multicenter trial (GMMG-MM5, n=604 patients). Next, we use a clinical routine cohort of untreated symptomatic myeloma patients undergoing autologous stem cell transplantation (n=535, median follow-up (FU) 64 months) to perform RNA-sequencing, gene expression profiling (GEP), and iFISH by ten-probe panel on CD138-purified malignant plasma cells. We subsequently compare target expression to plasma cell precursors, MGUS (n=59), asymptomatic (n=142) and relapsed (n=69) myeloma patients, myeloma cell lines (n=26), and between longitudinal samples (MM vs. relapsed MM). Data are validated using the independent MMRF CoMMpass-cohort (n=767, FU 31 months).ResultsRNA-sequencing is feasible in 90.8% of patients (GMMG-MM5). Actionable immune-oncological targets (n=19) can be divided in those expressed in all normal and >99% of MM-patients (CD38, SLAMF7, BCMA, GPRC5D, FCRH5, TACI, CD74, CD44, CD37, CD79B), those with expression loss in subfractions of MM-patients (BAFF-R [81.3%], CD19 [57.9%], CD20 [82.8%], CD22 [28.4%]), aberrantly expressed in MM (NY-ESO1/2 [12%], MUC1 [12.7%], CD30 [4.9%], mutated BRAF V600E/K [2.1%]), and resistance-conveying target-mutations e.g., against part but not all BCMA-directed treatments. Risk is assessable regarding proliferation, translated GEP- (UAMS70-, SKY92-, RS-score) and de novo (LfM-HRS) defined risk scores. LfM-HRS delineates three groups of 40%, 38%, and 22% of patients with 5-year and 12-year survival rates of 84% (49%), 67% (18%), and 32% (0%). R-ISS and RNA-sequencing identify partially overlapping patient populations, with R-ISS missing, e.g., 30% (22/72) of highly proliferative myeloma.ConclusionRNA-sequencing based assessment of risk and targets for first choice treatment is possible in clinical routine.
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- 2023
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45. Artisanal fisheries catch highlights hotspot for threatened sharks and rays in the Republic of the Congo
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Philip D. Doherty, Godefroy De Bruyne, Baudelaire Dissondet Moundzoho, Emmanuel Dilambaka, Gaston Ngassiki Okondza, Benoit C. Atsango, Appolinaire Ngouembe, Tite R. Akendze, Richard J. Parnell, Morgane Cournarie, Richard Malonga, Antoine Missamou, Brendan J. Godley, and Kristian Metcalfe
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Africa ,Atlantic Ocean ,bycatch ,conservation ,elasmobranch ,management ,Ecology ,QH540-549.5 ,General. Including nature conservation, geographical distribution ,QH1-199.5 - Abstract
Abstract Global catch rates of sharks and rays from artisanal fisheries are underreported, leading to a lack of data on population status. This forms a major barrier to developing effective management plans, such is the case in Central and West Africa. Over 3 years, we undertook the first systematic quantitative assessment of sharks and rays landed by an artisanal fishery in the Republic of the Congo. During 507 sampling days (mean 14 surveys per month), we recorded 73,268 individuals. These comprised 42 species, of which 81% are considered at an elevated risk of extinction. Landings were dominated by immature individuals, especially for species of conservation concern. Presence of species thought to have largely disappeared from the region such as the African wedgefish (Rhynchobatus luebberti) and smoothback angelshark (Squatina oculata) suggest Congolese waters are a potential stronghold for these species—warranting increased protection. We identified seasonality of catch within years, but not across years. Both inter‐ and intra‐annual trends varied by species, signifying annual fluctuations in catch of each species but consistent catch of all species year‐on‐year. Analysis showed increased catch between the short‐wet and the long‐wet, and the long‐dry seasons (January–February and August–September). Lowest catch was shown to occur during the short‐wet and the short‐dry seasons (October–December), which may provide an opportunity for seasonal closures or gear restrictions.
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- 2023
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46. The impact of eye gaze on social interactions of females in virtual reality: The mediating role of the uncanniness of avatars and the moderating role of task type
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Aleksandra Zheleva, Julie Hardeman, Wouter Durnez, Charlotte Vanroelen, Jonas De Bruyne, Dennis Osei Tutu, Jessica Morton, Jamil Joundi, Jelle Saldien, and Klaas Bombeke
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Virtual reality ,Eye tracking ,Multi-agent ,Avatar uncanniness ,Communication ,Collaboration ,Science (General) ,Q1-390 ,Social sciences (General) ,H1-99 - Abstract
The introduction of the Metaverse and the rise of social virtual reality platforms such as VRChat has led to increased communication and collaboration in virtual reality. As interactions in social virtual reality take place through avatars, the behaviour, and in particular the eye gaze of an avatar can have an impact on the user experience. However, it is still unclear which features of the user experience are most influenced. Therefore, this study used data from 44 female participants to investigate how avatar gaze behaviour (static eyes vs. real-time tracked eyes) affects their perceived quality of communication and the amount of one-sided eye contact participants make during a communicative or collaborative task in virtual reality. In addition, the study investigated the mediating role of perceived avatar “uncanniness” (i.e., the finding that humanoid objects that imperfectly resemble real people evoke feelings of discomfort) in this relationship and the moderation effect of two multi-user scenarios (collaboration vs. communication). The results showed that uncanniness directly affected the perceived quality of communication. However, it did not significantly mediate the relationship between avatar eye gaze behaviour and the quality of communication or the amount of one-sided eye contact. Finally, there were no significant differences in user experience between the two scenarios. From this, we can conclude that the uncanniness of an avatar being interacted with in VR is not enough to hinder communication and collaboration in an immersive medium. And even if an avatar is perceived as uncanny, normative communication cues such as eye contact are still present. Notably, due to sample availability, the results of this study are based on a female-only sample. Thus, future research can benefit from exploring the outlined effects in a more gender-balanced sample.
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- 2023
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47. ‘A radical operation’ – a thematic analysis of newspaper framing of bariatric surgery in adolescents
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Sander Lefere, Kato Verghote, Ruth De Bruyne, Veerle Provoost, and Priya P. Satalkar
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Childhood obesity ,News media ,Sensationalism ,Health disparities ,Stigma ,Public aspects of medicine ,RA1-1270 - Abstract
Abstract Background Obesity in adolescents is a growing public health issue. Bariatric surgery is an effective, yet controversial treatment option for adolescents. The moral acceptability of this procedure by health-care professionals as well as the general public can be influenced by its portrayal in the news media. Our objective was to analyze how newspaper articles portrayed adolescent bariatric surgery, with attention to the language used and moral arguments made. Methods Using an inductive thematic analysis approach, we analyzed 26 UK and 12 US newspaper articles (2014–2022) on adolescent bariatric surgery for implicit or explicit moral evaluations and use of normative language. Coding was performed after immersive reading, assisted by NVivo. Themes were identified and refined iteratively through consecutive auditing cycles to enrich the depth and rigor of our analysis. Results The major themes identified related to (1) defining the burden of adolescent obesity, (2) sparking moral outrage, (3) sensation-seeking, and (4) raising ethical issues. The articles employed moral language, specifically non-neutral and negative discourse regarding surgery. Blame was attributed to adolescents or their parents. Sensationalist wording often reinforced the normative content, drawing the attention of the reader and contributing to stigmatization of adolescents with severe obesity as lacking will power and being lazy. Further moral issues that stood out were the challenges in obtaining an informed consent, and the unequal access to surgery for socially disadvantaged groups. Conclusions Our findings provide insights into how adolescent bariatric surgery is represented in the print news media. Despite frequent citing of experts and studies on the efficacy, safety and unmet need for bariatric surgery, obesity and surgery in adolescents are often stigmatized and sensationalized, with (prospective) patients depicted as looking for an easy way out in the form of a solution brought by others (health systems, society, tax payers). This may increase the stigma surrounding adolescent obesity, and therefore limit the acceptability of specific treatments such as bariatric surgery.
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- 2023
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48. Improvement of fitness and biocontrol properties of Pseudomonas putida via an extracellular heme peroxidase
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Saray Santamaría‐Hernando, Lieselotte De Bruyne, Monica Höfte, and María‐Isabel Ramos‐González
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Biotechnology ,TP248.13-248.65 - Abstract
Abstract The extracellular 373‐kDa PehA heme peroxidase of Pseudomonas putida KT2440 has two enzymatic domains which depend on heme cofactor for their peroxidase activity. A null pehA mutant was generated to examine the impact of PehA in rhizosphere colonization competence and the induction of plant systemic resistance (ISR). This mutant was not markedly hampered in colonization efficiency. However, increase in pehA dosage enhanced colonization fitness about 30 fold in the root and 900 fold in the root apex. In vitro assays with purified His‐tagged enzymatic domains of PehA indicated that heme‐dependent peroxidase activity was required for the enhancement of root tip colonization. Evaluation of live/dead cells confirmed that overexpression of pehA had a positive effect on bacterial cell viability. Following root colonization of rice plants by KT2440 strain, the incidence of rice blast caused by Magnaporthe oryzae was reduced by 65% and the severity of this disease was also diminished in comparison to non‐treated plants. An increase in the pehA dosage was also beneficial for the control of rice blast as compared with gene inactivation. The results suggest that PehA helps P. putida to cope with the plant‐imposed oxidative stress leading to enhanced colonization ability and concomitant ISR‐elicitation.
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- 2022
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49. Clinical and Vessel Characteristics Associated With Hard Outcomes After PCI and Their Combined Prognostic Implications
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Seokhun Yang, Doyeon Hwang, Jinlong Zhang, Jiesuck Park, Jun Pil Yun, Joo Myung Lee, Chang‐Wook Nam, Eun‐Seok Shin, Joon‐Hyung Doh, Shao‐Liang Chen, Tsunekazu Kakuta, Gabor G. Toth, Zsolt Piroth, Nils P. Johnson, Abdul Hakeem, Barry F Uretsky, Yohei Hokama, Nobuhiro Tanaka, Hong‐Seok Lim, Tsuyoshi Ito, Akiko Matsuo, Lorenzo Azzalini, Massoud A. Leesar, Tara Neleman, Nicolas M van Mieghem, Roberto Diletti, Joost Daemen, Damien Collison, Carlos Collet, Bernard De Bruyne, and Bon‐Kwon Koo
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drug‐eluting stent ,fractional flow reserve ,risk stratification ,Diseases of the circulatory (Cardiovascular) system ,RC666-701 - Abstract
Background Cardiac death or myocardial infarction still occurs in patients undergoing contemporary percutaneous coronary intervention (PCI). We aimed to identify adverse clinical and vessel characteristics related to hard outcomes after PCI and to investigate their individual and combined prognostic implications. Methods and Results From an individual patient data meta‐analysis of 17 cohorts of patients who underwent post‐PCI fractional flow reserve measurement after drug‐eluting stent implantation, 2081 patients with available clinical and vessel characteristics were analyzed. The primary outcome was cardiac death or target‐vessel myocardial infarction at 2 years. The mean age of patients was 64.2±10.2 years, and the mean angiographic percent diameter stenosis was 63.9%±14.3%. Among 11 clinical and 8 vessel features, 4 adverse clinical characteristics (age ≥65 years, diabetes, chronic kidney disease, and left ventricular ejection fraction
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- 2023
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50. Comparison of SARS-CoV-2 seroconversion in children with chronic diseases with healthy children and adults during the first waves of the COVID-19 pandemic
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Levi Hoste, Agnieszka Prytula, Jo Dehoorne, Ruth De Bruyne, Stephanie Van Biervliet, Kathleen De Waele, Evelyn Maes, Victoria Bordon, Arnaud Vanlander, Karlien Claes, Johan Vande Walle, Petra Schelstraete, Sabine Van daele, and Filomeen Haerynck
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SARS-CoV-2 ,COVID-19 ,serology ,tertiary care pediatric patients ,chronic diseases ,Pediatrics ,RJ1-570 - Abstract
BackgroundInfection with severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is clinically diverse, and children have a low risk of developing severe coronavirus disease 2019 (COVID-19). However, children with chronic diseases have a potentially increased risk.MethodsWe performed a prospective surveillance study with longitudinal serum SARS-CoV-2 anti-nucleocapsid antibody quantification and questionnaires in pediatric tertiary care patients during the first waves of the COVID-19 pandemic (November 2020–September 2021). The results were compared with those of healthy children and adults from the same geographic area.ResultsWe obtained 525 samples from 362 patients (M/F ratio of 1.3:1; median age of 11.1 years) comprising children with immune-suppressive or immune-modulating drugs (32.9%), inborn errors of immunity (23.5%), type 1 diabetes mellitus (15.2%), and rheumatic diseases (11.9%). A total of 51 (9.7%) samples were seropositive among 37/351 children (10.5%). Seropositivity increased from 5.8% in November–December 2020 to 21.6% in July–September 2021. Compared with adults, a longitudinal analysis revealed reduced seroprevalence but similar kinetics as in children from the same country. Demographic or social variables and disease characteristics did not correlate with seropositivity. Being obese and household contact with COVID-19-infected individuals significantly increased the odds of infection. The majority of seropositive patients had mild symptoms (21/37). One-third were asymptomatic and/or unaware of having COVID-19 (10/37). Four patients (4/37) needed hospitalization, with good clinical outcomes.ConclusionsAlthough harboring a chronic disease, we observed a low SARS-CoV-2 incidence in a cohort of pediatric tertiary care patients, comparable with healthy children during the first year of the pandemic. Infection was mostly associated with mild symptoms.
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- 2023
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