8,242 results on '"Pierre, J."'
Search Results
2. Mechanistic Modeling of Lipid Nanoparticle Formation for the Delivery of Nucleic Acid Therapeutics
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Inguva, Pavan K., Mukherjee, Saikat, Walker, Pierre J., Kanso, Mona A., Wang, Jie, Wu, Yanchen, Tenberg, Vico, Santra, Srimanta, Singh, Shalini, Kim, Shin Hyuk, Trout, Bernhardt L., Bazant, Martin Z., Myerson, Allan S., and Braatz, Richard D.
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Condensed Matter - Soft Condensed Matter ,Computer Science - Computational Engineering, Finance, and Science ,Physics - Biological Physics ,Physics - Chemical Physics - Abstract
Nucleic acids such as mRNA have emerged as a promising therapeutic modality with the capability of addressing a wide range of diseases. Lipid nanoparticles (LNPs) as a delivery platform for nucleic acids were used in the COVID-19 vaccines and have received much attention. While modern manufacturing processes which involve rapidly mixing an organic stream containing the lipids with an aqueous stream containing the nucleic acids are conceptually straightforward, detailed understanding of LNP formation and structure is still limited and scale-up can be challenging. Mathematical and computational methods are a promising avenue for deepening scientific understanding of the LNP formation process and facilitating improved process development and control. This article describes strategies for the mechanistic modeling of LNP formation, starting with strategies to estimate and predict important physicochemical properties of the various species such as diffusivities and solubilities. Subsequently, a framework is outlined for constructing mechanistic models of reactor- and particle-scale processes. Insights gained from the various models are mapped back to product quality attributes and process insights. Lastly, the use of the models to guide development of advanced process control and optimization strategies is discussed., Comment: 67 pages, 10 figures
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- 2024
3. Establishing an end-to-end workflow for SNSPD fabrication and characterization
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Dong, Shuyu, Koh, Darren Ming Zhi, Martinelli, Filippo, Brosseau, Pierre J. E., Petrović, Milos, Shen, Lijiong, Adamo, Giorgio, Vetlugin, Anton N., Sidorova, Mariia, Kurtsiefer, Christian, and Soci, Cesare
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- 2024
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4. Molecular control via dynamic bonding enables material responsiveness in additively manufactured metallo-polyelectrolytes
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Lee, Seola, Walker, Pierre J., Velling, Seneca J., Chen, Amylynn, Taylor, Zane W., Fiori, Cyrus J.B.M, Gandhi, Vatsa, Wang, Zhen-Gang, and Greer, Julia R.
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- 2024
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5. Author Correction: Molecular control via dynamic bonding enables material responsiveness in additively manufactured metallo-polyelectrolytes
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Lee, Seola, Walker, Pierre J., Velling, Seneca J., Chen, Amylynn, Taylor, Zane W., Fiori, Cyrus J.B.M, Gandhi, Vatsa, Wang, Zhen-Gang, and Greer, Julia R.
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- 2024
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6. MC180295 is a highly potent and selective CDK9 inhibitor with preclinical in vitro and in vivo efficacy in cancer
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Zhang, Hanghang, Huang, Chen, Gordon, John, Yu, Sijia, Morton, George, Childers, Wayne, Abou-Gharbia, Magid, Zhang, Yi, Jelinek, Jaroslav, and Issa, Jean-Pierre J.
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- 2024
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7. Confronting the thermodynamics knowledge gap: A short course on computational thermodynamics in Julia
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Paoli, Luc, Inguva, Pavan K., Haslam, Andrew J., and Walker, Pierre J.
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Physics - Physics Education - Abstract
Computational elements in thermodynamics have become increasingly important in contemporary chemical-engineering research and practice. However, traditional thermodynamics instruction provides little exposure to computational thermodynamics, leaving students ill-equipped to engage with the state-of-the-art deployed in industry and academia. The recent rise of easy-to-use open-source thermodynamic codes presents an opportunity for educators to help bridge this gap. In this work, we present a short course that was developed and rolled-out using the Clapeyron.jl package, the material of which is all openly available on GitHub. The course can serve as a foundation for others to similarly integrate computational material in thermodynamics education. The course is structured into three sections. Section one serves as a refresher and covers core material in numerical methods and thermodynamics. Section two introduces a range of thermodynamic models such as activity-coefficient models and cubic equations of state, outlining their implementation. In section three the focus is moved to deployment, guiding students on how to implement computational-thermodynamics methods covering volume solvers, saturation solvers, chemical-stability analysis and flash problems. In a pilot study conducted with both undergraduate and graduate students, participants found the material engaging and highly relevant to their chemical-engineering education.
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- 2023
8. Confidence Interval and Uncertainty Propagation Analysis of SAFT-type Equations of State
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Walker, Pierre J., Mueller, Simon, and Smirnova, Irina
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Physics - Chemical Physics ,Physics - Data Analysis, Statistics and Probability - Abstract
Thermodynamic models and, in particular, SAFT-type equations are vital in characterizing complex systems. This paper presents a framework for sampling parameter distributions in PC-SAFT and SAFT-VR Mie equations of state to understand parameter confidence intervals and correlations. We identify conserved quantities contributing to significant correlations. Comparing the equations of state, we find that additional parameters introduced in the SAFT-VR Mie equation increase relative uncertainties (1\%-2\% to 3\%-4\%) and introduce more correlations. When incorporating association through additional parameters, relative uncertainties increase, but correlations slightly decrease. We investigate how uncertainties propagate to derived properties and observe small uncertainties for that data with which the parameters were regressed, especially for saturated-liquid volumes. However, extrapolating to saturated-vapour volumes yields larger uncertainties due to the larger isothermal compressibility. Near the critical point, uncertainties in saturated volumes diverge due to increased sensitivity of the isothermal compressibility to parameter uncertainties. This effect significantly impacts bulk properties, particularly isobaric heat capacity, where uncertainties near the critical point become extremely large, even when these uncertainties are small. We emphasize that even small uncertainties near the critical point lead to divergences in predicted properties.
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- 2023
9. Risk-limiting Financial Audits via Weighted Sampling without Replacement
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Shekhar, Shubhanshu, Xu, Ziyu, Lipton, Zachary C., Liang, Pierre J., and Ramdas, Aaditya
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Statistics - Methodology ,Computer Science - Artificial Intelligence ,Computer Science - Machine Learning ,Mathematics - Statistics Theory ,Statistics - Applications ,Statistics - Machine Learning - Abstract
We introduce the notion of a risk-limiting financial auditing (RLFA): given $N$ transactions, the goal is to estimate the total misstated monetary fraction~($m^*$) to a given accuracy $\epsilon$, with confidence $1-\delta$. We do this by constructing new confidence sequences (CSs) for the weighted average of $N$ unknown values, based on samples drawn without replacement according to a (randomized) weighted sampling scheme. Using the idea of importance weighting to construct test martingales, we first develop a framework to construct CSs for arbitrary sampling strategies. Next, we develop methods to improve the quality of CSs by incorporating side information about the unknown values associated with each item. We show that when the side information is sufficiently predictive, it can directly drive the sampling. Addressing the case where the accuracy is unknown a priori, we introduce a method that incorporates side information via control variates. Crucially, our construction is adaptive: if the side information is highly predictive of the unknown misstated amounts, then the benefits of incorporating it are significant; but if the side information is uncorrelated, our methods learn to ignore it. Our methods recover state-of-the-art bounds for the special case when the weights are equal, which has already found applications in election auditing. The harder weighted case solves our more challenging problem of AI-assisted financial auditing., Comment: 23 pages, 8 figures, to appear in the Proceedings of Uncertainty in Artificial Intelligence (UAI) 2023
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- 2023
10. The genus Coleus (Lamiaceae) in Central Africa (Democratic Republic of the Congo, Rwanda, Burundi), with the description of 15 new species
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Pierre J. Meerts and Alan J. Paton
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Botany ,QK1-989 - Abstract
The genus Coleus is revised for DR. Congo, Rwanda, Burundi, based on herbarium taxonomy. Ninety-five taxa are reported (89 species, 1 subspecies, 5 varieties). Fifteen new species and one new variety are described (Coleus duvigneaudii, C. esculentus var. kolweziensis, C. hildei, C. kaminaensis, C. kundelunguensis, C. linarioides, C. lisowskii, C. marunguensis, C. minusculus, C. mitwabaensis, C. mystax, C. pengbelensis, C. piscatorum, C. pseudoschizophyllus, C. ruziziensis and C. zigzag). Fourteen species are newly recorded in DR. Congo and two species are newly recorded in Burundi. Four new combinations are made (Coleus betonicifolius var. kasomenensis, C. esculentus var. densus, C. esculentus var. primulinus and C. parvifolius). Ten names are lectotypified. One name is neotypified. Thirteen new synonyms are reported. Particular attention is paid to the Coleus bojeri complex. Three names are resurrected to accommodate the extensive variation patterns in Central Africa (C. chevalieri, C. collinus and C. heterotrichus); their distribution in Africa is outlined and the circumscription of C. bojeri is amended accordingly. Fifteen taxa are endemic to the study region. A determination key is provided.
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- 2024
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11. Toxic risk assessment of selected metals in infant formula milk commercially available in Lebanon: A novel approach based on feeding parameters versus toxicity
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Pierre J. Obeid, Bilal El Khoury, and John Hanna El-Nakat
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Infant formula milk (IFM) ,Health risk assessment ,Newborn feeding ,Scoops ,Metal toxicity ,Feeding parameters ,Environmental pollution ,TD172-193.5 - Abstract
Infant formula milk (IFM) is increasingly utilized as a substitute for natural breastfeeding despite the fact that breast milk has been always recognized as the optimal nourishment method. While IFMs are fortified with essential nutrients that are crucial for proper growth, they can also harbor non-essential toxic metal contaminants from various sources during the production process. Given the heightened vulnerability of newborns to such contaminants, it is imperative to thoroughly analyze, evaluate, and minimize the toxicity associated with the consumption of such IFMs. However, classical approaches to date, have been always adopted for assessing such risks by finding first the analytical concentration of metals in the IFMs followed by multiplying it by the average daily powder intake (ADI) then dividing by the average infant weight. The outcome is then compared to an established standard such a PTWI to assess the extent of toxicity. The drawback with such studies is the use of a fixed ADI for all samples as if all samples have the same and exact preparation directions while using somewhat different infant masses.Accordingly, this study aims at assessing the toxic risk amongst newborns from IFM consumption through the identification and application of various highly important and toxicity-contributing parameters from each IFM and its directions of preparation label separately which are discussed here for the first time while providing comparisons between the classical approach versus our new approach to highlight its importance.Seventy-three IFMs (0–6 months) were analyzed for lead (Pb), cadmium (Cd), arsenic (As), and aluminum (Al) levels and unlike previous studies, this work incorporated various feeding parameters from each IFM for calculating the intakes thus, revealing potential toxicity risks even in IFMs that are considered safe by the classical approach. Metal contamination was significant, with 97.3 % of samples containing detectable Pb, 41.1 % Cd, 16.4 % As, and 93.2 % Al while highlighting Pb in exceeding its maximum allowable level (MAL). This novel approach, which considers new diverse feeding schedules/parameters that are ironically suggested by manufacturers that have been previously overlooked elsewhere, emphasized IFMs' potential as sources of heightened metal toxicity in comparison to classical approaches. Results highlighted Pb and Al as major concerns, with As and Cd of lesser concern. Findings also emphasized the importance of such new parameters for safeguarding newborn health and should be payed attention to by caregivers. The study strongly and highly recommends adherence to minimum feeding schedules (MFS) and proper scooping techniques to reduce newborn exposure to toxic metals. It also suggests continuous monitoring and stricter regulations by health authorities at the production level of such products so as to provide a safer commodity in the first degree and to also provide better and somewhat uniform and specific feeding labels and precautions on such products.
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- 2025
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12. Tracing nitrogen use efficiency of diverse Canadian spring wheat cultivars
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Kate A. Congreves, Olivia Otchere, and Pierre J. Hucl
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nitrogen recovery ,15N labelling ,fertilizer use efficiency ,wheat breeding ,spring wheat ,Plant culture ,SB1-1110 - Abstract
Decades of wheat breeding have provided growers with numerous high-yielding options, but it is unknown if these yield improvements are likewise characterized with improved nitrogen use efficiency (NUE). Fertilizer nitrogen (N) is an ever-increasing expense, so improving NUE by reducing the requirement for N fertilizer without risking yield and quality is necessary. The goal of our research is to identify cultivars and associated traits that may improve NUE while maintaining productivity. We compared 25 spring wheat cultivars over a three-year period (2020, 2021, 2022) at two field sites differing in background soil N level for the ability to use fertilizer-N and allocate it to the grain. To do so, we employed the 15N stable isotope technique to trace the flow of fertilizer-N and determine the 15N recovery efficiency (15NRE). The 15NRE in the grain averaged 25.0% at the higher soil N site, and 15.5% at the lower soil N site. At the higher soil N site only, dwarfing alleles (Rht-B1b) were associated with greater 15NRE. Grain 15NRE was positively associated with yield, grain N content, and the 15N harvest index (15NHI) at the high soil N environment, but never at the low soil N environment. Our findings support the notion that the genetic development of high yielding semi-dwarf cultivars also translates into an improved ability to recover fertilizer-N—but this outcome is only expressed only under rich soil N conditions. Cultivars that simultaneously produced higher 15NRE and yields, grain N, or 15NHI differed by environment; possibly suggesting different mechanisms for improving crop NUE depending on background soil N level. Ultimately, cultivar-specific 15NRE information, including that presented here, will be useful breeders to design new crosses and approaches aimed at increasing NUE for spring wheat.
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- 2024
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13. Association between gut microbiota and CpG island methylator phenotype in colorectal cancer
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Pyoung Hwa Park, Kelsey Keith, Gennaro Calendo, Jaroslav Jelinek, Jozef Madzo, Raad Z. Gharaibeh, Jayashri Ghosh, Carmen Sapienza, Christian Jobin, and Jean-Pierre J. Issa
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Gut microbiota ,Colorectal cancer ,CpG island methylator phenotype ,DNA methylation ,Epigenetics ,Diseases of the digestive system. Gastroenterology ,RC799-869 - Abstract
The intestinal microbiota is an important environmental factor implicated in CRC development. Intriguingly, modulation of DNA methylation by gut microbiota has been reported in preclinical models, although the relationship between tumor-infiltrating bacteria and CIMP status is currently unexplored. In this study, we investigated tumor-associated bacteria in 203 CRC tumor cases and validated the findings using The Cancer Genome Atlas datasets. We assessed the abundance of Bacteroides fragilis, Escherichia coli, Fusobacterium nucleatum, and Klebsiella pneumoniae through qPCR analysis and observed enrichment of all four bacterial species in CRC samples. Notably, except for E. coli, all exhibited significant enrichment in cases of CIMP. This enrichment was primarily driven by a subset of cases distinguished by high levels of these bacteria, which we labeled as “Superhigh”. The bacterial Superhigh status showed a significant association with CIMP (odds ratio 3.1, p-value = 0.013) and with MLH1 methylation (odds ratio 4.2, p-value = 0.0025). In TCGA CRC cases (393 tumor and 45 adj. normal), bacterial taxa information was extracted from non-human whole exome sequencing reads, and the bacterial Superhigh status was similarly associated with CIMP (odds ratio 2.9, p
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- 2024
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14. HLA A*24:02-restricted T cell receptors cross-recognize bacterial and preproinsulin peptides in type 1 diabetes
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Dolton, Garry, Bulek, Anna, Wall, Aaron, Thomas, Hannah, Hopkins, Jade R., Rius, Cristina, Galloway, Sarah A.E., Whalley, Thomas, Tan, Li Rong, Morin, Theo, Omidvar, Nader, Fuller, Anna, Topley, Katie, Hasan, Md. Samiul, Jain, Shikha, D'Souza, Nirupa, Hodges-Hoyland, Thomas, Spiller, Owen B., Kronenberg-Versteeg, Deborah, Szomolay, Barbara, van den Berg, Hugo A., Jones, Lucy C., Peakman, Mark, Cole, David K., Rizkallah, Pierre J., and Sewell, Andrew K.
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T cells -- Receptors ,Medical research ,Medicine, Experimental ,HLA histocompatibility antigens -- Health aspects ,Antigen receptors, T cell -- Health aspects ,Type 1 diabetes -- Physiological aspects ,Bacterial proteins -- Physiological aspects ,Peptides -- Health aspects ,Histocompatibility antigens -- Health aspects - Abstract
[CD8.sup.+] T cells destroy insulin-producing pancreatic [beta] cells in type 1 diabetes through HLA class I- restricted presentation of self-antigens. Combinatorial peptide library screening was used to produce a preferred peptide recognition landscape for a patient-derived T cell receptor (TCR) that recognized the preproinsulin-derived (PPI-derived) peptide sequence LWMRLLPLL in the context of disease risk allele HLA A*24:02. Data were used to generate a strong superagonist peptide, enabling production of an autoimmune HLA A*24:02-peptide-TCR structure by crystal seeding. TCR binding to the PPI epitope was strongly focused on peptide residues Arg4 and Leu5, with more flexibility at other positions, allowing the TCR to strongly engage many peptides derived from pathogenic bacteria. We confirmed an epitope from Klebsiella that was recognized by PPI-reactive T cells from 3 of 3 HLA A*24:02+ patients. Remarkably, the same epitope selected T cells from 7 of 8 HLA A*24* healthy donors that cross-reacted with PPI, leading to recognition and killing of HLA A*24:02+ cells expressing PPI. These data provide a mechanism by which molecular mimicry between pathogen and self-antigens could have resulted in the breaking of self-tolerance to initiate disease., Introduction Multiple lines of evidence show that type 1 diabetes (T1D) develops due to [CD8.sup.+] T cell-mediated destruction of insulin-producing pancreatic [beta] cells. Human leukocyte antigen class I (HLA-I), the [...]
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- 2024
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15. Summarizing Labeled Multi-Graphs
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Berberidis, Dimitris, Liang, Pierre J., and Akoglu, Leman
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Computer Science - Social and Information Networks ,Computer Science - Databases - Abstract
Real-world graphs can be difficult to interpret and visualize beyond a certain size. To address this issue, graph summarization aims to simplify and shrink a graph, while maintaining its high-level structure and characteristics. Most summarization methods are designed for homogeneous, undirected, simple graphs; however, many real-world graphs are ornate; with characteristics including node labels, directed edges, edge multiplicities, and self-loops. In this paper we propose LM-Gsum, a versatile yet rigorous graph summarization model that (to the best of our knowledge, for the first time) can handle graphs with all the aforementioned characteristics (and any combination thereof). Moreover, our proposed model captures basic sub-structures that are prevalent in real-world graphs, such as cliques, stars, etc. LM-Gsum compactly quantifies the information content of a complex graph using a novel encoding scheme, where it seeks to minimize the total number of bits required to encode (i) the summary graph, as well as (ii) the corrections required for reconstructing the input graph losslessly. To accelerate the summary construction, it creates super-nodes efficiently by merging nodes in groups. Experiments demonstrate that LM-Gsum facilitates the visualization of real-world complex graphs, revealing interpretable structures and high- level relationships. Furthermore, LM-Gsum achieves better trade-off between compression rate and running time, relative to existing methods (only) on comparable settings., Comment: 17 pages, 8 figures, 4 tables
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- 2022
16. Tensor products and the Milnor-Moore theorem in the locality setup
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Clavier, Pierre J., Foissy, Loic, López, Diego A., and Paycha, Sylvie
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Mathematics - Rings and Algebras ,Mathematical Physics ,Mathematics - Quantum Algebra ,08A55, 16T05, 15A72 - Abstract
The present exploratory paper deals with tensor products in the locality framework {developed in previous work}, a natural setting for an algebraic formulation of the locality principle in quantum field theory. Locality tensor products of locality vector spaces raise challenging questions, such as whether the locality tensor product of two locality vector spaces is a locality vector space. A related question is whether the quotient of locality vector spaces is a locality vector space, which we first reinterpret in a group theoretic language and then in terms of short exact sequences. We prove a universal property for the locality tensor algebra and for the locality enveloping algebra, the analogs in the locality framework of the tensor algebra and of the enveloping algebra. These universal properties hold under compatibility assumptions between the locality and the multilinearity underlying the construction of tensor products which we formulate in the form of conjectural statements. Assuming they hold true, we generalise the Milnor-Moore theorem to the locality setup and discuss some of its consequences., Comment: 59 pages, 14 figures
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- 2022
17. BIO101 stimulates myoblast differentiation and improves muscle function in adult and old mice
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Maria Serova, Blaise Didry‐Barca, Robin Deloux, Anne‐Sophie Foucault, Stanislas Veillet, René Lafont, Pierre J. Dilda, and Mathilde Latil
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20‐hydroxyecdysone (20E) ,Ecdysteroids ,MAS receptor ,Muscle cell differentiation ,Renin–angiotensin–aldosterone system (RAAS) ,Sarcopenia ,Diseases of the musculoskeletal system ,RC925-935 ,Human anatomy ,QM1-695 - Abstract
Abstract Background Muscle aging is associated with a consistent decrease in the ability of muscle tissue to regenerate following intrinsic muscle degradation, injury or overuse. Age‐related imbalance of protein synthesis and degradation, mainly regulated by AKT/mTOR pathway, leads to progressive loss of muscle mass. Maintenance of anabolic and regenerative capacities of skeletal muscles may be regarded as a therapeutic option for sarcopenia and other muscle wasting diseases. Our previous studies have demonstrated that BIO101, a pharmaceutical grade 20‐hydroxyecdysone, increases protein synthesis through the activation of MAS receptor involved in the protective arm of renin‐angiotensin‐aldosterone system. The purpose of the present study was to assess the anabolic and pro‐differentiating properties of BIO101 on C2C12 muscle cells in vitro and to investigate its effects on adult and old mice models in vivo. Methods The effects of BIO101 on C2C12 differentiation were assessed using myogenic transcription factors and protein expression of major kinases of AKT/mTOR pathway by Western blot. The in vivo effects of BIO101 have been investigated in BIO101 orally‐treated (50 mg/kg/day) adult mice (3 months) for 28 days. To demonstrate potential beneficial effect of BIO101 treatment in a sarcopenic mouse model, we use orally treated 22‐month‐old C57Bl6/J mice, for 14 weeks with vehicle or BIO101. Mice body and muscle weight were recorded. Physical performances were assessed using running capacity and muscle contractility tests. Results Anabolic properties of BIO101 were confirmed by the rapid activation of AKT/mTOR, leading to an increase of C2C12 myotubes diameters (+26%, P
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- 2024
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18. Generalisations of multiple zeta values to rooted forests
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Clavier, Pierre J. and Perrot, Dorian
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Mathematics - Number Theory ,Mathematics - Combinatorics ,11M32, 05C05 - Abstract
We show that any convergent (shuffle) arborified zeta value admits a series representation. This justifies the introduction of a new generalisation to rooted forests of multiple zeta values, and we study its algebraic properties. As a consequence of the series representation, we derive elementary proofs of some results of Bradley and Zhou for Mordell-Tornheim zeta values and give explicit formulas. The series representation for shuffle arborified zeta values also implies that they are conical zeta values. We characterise which conical zeta values are arborified zeta values and evaluate them as sums of multiple zeta values with rational coefficients., Comment: 29 pages. One section added, where tree zeta values are studied. One new author. Change of title
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- 2022
19. Clapeyron.jl: An extensible, open-source fluid-thermodynamics toolkit
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Walker, Pierre J., Yew, Hon-Wa, and Riedemann, Andrés
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Physics - Computational Physics ,Physics - Chemical Physics - Abstract
Thermodynamic models are often vital when characterising complex systems, particularly natural gas, electrolyte, polymer, pharmaceutical and biological systems. However, their implementations have historically been abstruse and cumbersome, and as such, the only options available were black-box commercial tools. In this article, we present Clapeyron.jl: a pioneering attempt at an open-source fluid-thermodynamics toolkit to build and make use of thermodynamic models. This toolkit is built in Julia, a modern language for scientific computing known for its ease of use, extensibility, and first-class support for differentiable programming. We currently support more models than any package available, including standard cubic (SRK, PR, PSRK, etc.), activity-coefficient (NRTL, UNIFAC, etc.), COSMO-based, and the venerable SAFT equations. The property-estimation methods supported are extensive, including bulk, VLE, LLE, VLLE and critical properties. With Clapeyron.jl, researchers and enthusiasts alike will be able to focus on the application and worry less about the implementation.
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- 2022
20. Risk to rely on soil carbon sequestration to offset global ruminant emissions
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Yue Wang, Imke J. M. de Boer, U. Martin Persson, Raimon Ripoll-Bosch, Christel Cederberg, Pierre J. Gerber, Pete Smith, and Corina E. van Middelaar
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Science - Abstract
Abstract Carbon sequestration in grasslands has been proposed as an important means to offset greenhouse gas emissions from ruminant systems. To understand the potential and limitations of this strategy, we need to acknowledge that soil carbon sequestration is a time-limited benefit, and there are intrinsic differences between short- and long-lived greenhouse gases. Here, our analysis shows that one tonne of carbon sequestrated can offset radiative forcing of a continuous emission of 0.99 kg methane or 0.1 kg nitrous oxide per year over 100 years. About 135 gigatonnes of carbon is required to offset the continuous methane and nitrous oxide emissions from ruminant sector worldwide, nearly twice the current global carbon stock in managed grasslands. For various regions, grassland carbon stocks would need to increase by approximately 25% − 2,000%, indicating that solely relying on carbon sequestration in grasslands to offset warming effect of emissions from current ruminant systems is not feasible.
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- 2023
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21. A targeted single mutation in influenza A virus universal epitope transforms immunogenicity and protective immunity via CD4+ T cell activation
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Hulin-Curtis, Sarah, Geary, James K., MacLachlan, Bruce J., Altmann, Danny M., Baillon, Laury, Cole, David K., Greenshields-Watson, Alex, Hesketh, Sophie J., Humphreys, Ian R., Jones, Ian M., Lauder, Sarah N., Mason, Georgina H., Smart, Kathryn, Scourfield, D. Oliver, Scott, Jake, Sukhova, Ksenia, Stanton, Richard J., Wall, Aaron, Rizkallah, Pierre J., Barclay, Wendy S., Gallimore, Awen, and Godkin, Andrew
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- 2024
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22. Dissecting the Shared Genetic Architecture of Suicide Attempt, Psychiatric Disorders, and Known Risk Factors.
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Mullins, Niamh, Kang, JooEun, Campos, Adrian I, Coleman, Jonathan RI, Edwards, Alexis C, Galfalvy, Hanga, Levey, Daniel F, Lori, Adriana, Shabalin, Andrey, Starnawska, Anna, Su, Mei-Hsin, Watson, Hunna J, Adams, Mark, Awasthi, Swapnil, Gandal, Michael, Hafferty, Jonathan D, Hishimoto, Akitoyo, Kim, Minsoo, Okazaki, Satoshi, Otsuka, Ikuo, Ripke, Stephan, Ware, Erin B, Bergen, Andrew W, Berrettini, Wade H, Bohus, Martin, Brandt, Harry, Chang, Xiao, Chen, Wei J, Chen, Hsi-Chung, Crawford, Steven, Crow, Scott, DiBlasi, Emily, Duriez, Philibert, Fernández-Aranda, Fernando, Fichter, Manfred M, Gallinger, Steven, Glatt, Stephen J, Gorwood, Philip, Guo, Yiran, Hakonarson, Hakon, Halmi, Katherine A, Hwu, Hai-Gwo, Jain, Sonia, Jamain, Stéphane, Jiménez-Murcia, Susana, Johnson, Craig, Kaplan, Allan S, Kaye, Walter H, Keel, Pamela K, Kennedy, James L, Klump, Kelly L, Li, Dong, Liao, Shih-Cheng, Lieb, Klaus, Lilenfeld, Lisa, Liu, Chih-Min, Magistretti, Pierre J, Marshall, Christian R, Mitchell, James E, Monson, Eric T, Myers, Richard M, Pinto, Dalila, Powers, Abigail, Ramoz, Nicolas, Roepke, Stefan, Rozanov, Vsevolod, Scherer, Stephen W, Schmahl, Christian, Sokolowski, Marcus, Strober, Michael, Thornton, Laura M, Treasure, Janet, Tsuang, Ming T, Witt, Stephanie H, Woodside, D Blake, Yilmaz, Zeynep, Zillich, Lea, Adolfsson, Rolf, Agartz, Ingrid, Air, Tracy M, Alda, Martin, Alfredsson, Lars, Andreassen, Ole A, Anjorin, Adebayo, Appadurai, Vivek, Soler Artigas, María, Van der Auwera, Sandra, Azevedo, M Helena, Bass, Nicholas, Bau, Claiton HD, Baune, Bernhard T, Bellivier, Frank, Berger, Klaus, Biernacka, Joanna M, Bigdeli, Tim B, Binder, Elisabeth B, Boehnke, Michael, Boks, Marco P, Bosch, Rosa, and Braff, David L
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Major Depressive Disorder Working Group of the Psychiatric Genomics Consortium ,Bipolar Disorder Working Group of the Psychiatric Genomics Consortium ,Eating Disorders Working Group of the Psychiatric Genomics Consortium ,German Borderline Genomics Consortium ,MVP Suicide Exemplar Workgroup ,VA Million Veteran Program ,Humans ,Risk Factors ,Suicide ,Attempted ,Mental Disorders ,Depressive Disorder ,Major ,Polymorphism ,Single Nucleotide ,Genome-Wide Association Study ,Genetic correlation ,Genome-wide association study ,Pleiotropy ,Polygenicity ,Suicide ,Suicide attempt ,Human Genome ,Behavioral and Social Science ,Mental Health ,Prevention ,Genetics ,Brain Disorders ,Aetiology ,2.1 Biological and endogenous factors ,Mental health ,Good Health and Well Being ,Biological Sciences ,Medical and Health Sciences ,Psychology and Cognitive Sciences ,Psychiatry - Abstract
BackgroundSuicide is a leading cause of death worldwide, and nonfatal suicide attempts, which occur far more frequently, are a major source of disability and social and economic burden. Both have substantial genetic etiology, which is partially shared and partially distinct from that of related psychiatric disorders.MethodsWe conducted a genome-wide association study (GWAS) of 29,782 suicide attempt (SA) cases and 519,961 controls in the International Suicide Genetics Consortium (ISGC). The GWAS of SA was conditioned on psychiatric disorders using GWAS summary statistics via multitrait-based conditional and joint analysis, to remove genetic effects on SA mediated by psychiatric disorders. We investigated the shared and divergent genetic architectures of SA, psychiatric disorders, and other known risk factors.ResultsTwo loci reached genome-wide significance for SA: the major histocompatibility complex and an intergenic locus on chromosome 7, the latter of which remained associated with SA after conditioning on psychiatric disorders and replicated in an independent cohort from the Million Veteran Program. This locus has been implicated in risk-taking behavior, smoking, and insomnia. SA showed strong genetic correlation with psychiatric disorders, particularly major depression, and also with smoking, pain, risk-taking behavior, sleep disturbances, lower educational attainment, reproductive traits, lower socioeconomic status, and poorer general health. After conditioning on psychiatric disorders, the genetic correlations between SA and psychiatric disorders decreased, whereas those with nonpsychiatric traits remained largely unchanged.ConclusionsOur results identify a risk locus that contributes more strongly to SA than other phenotypes and suggest a shared underlying biology between SA and known risk factors that is not mediated by psychiatric disorders.
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- 2022
23. From non-unitary wheeled PROPs to smooth amplitudes and generalised convolutions
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Clavier, Pierre J., Foissy, Loïc, and Paycha, Sylvie
- Subjects
Mathematics - Combinatorics ,Mathematical Physics ,Mathematics - Operator Algebras ,18M85, 46E99, 47G30 - Abstract
We introduce the concept of TRAP (Traces and Permutations), which can roughly be viewed as a wheeled PROP (Products and Permutations) without unit. TRAPs are equipped with a horizontal concatenation and partial trace maps. Continuous morphisms on an infinite dimensional topological space and smooth kernels (resp. smoothing operators) on a closed manifold form a TRAP but not a wheeled PROP. We build the free objects in the category of TRAPs as TRAPs of graphs and show that a TRAP can be completed to a unitary TRAP (or wheeled PROP). We further show that it can be equipped with a vertical concatenation, which on the TRAP of linear homomorphisms of a vector space, amounts to the usual composition. The vertical concatenation in the TRAP of smooth kernels gives rise to generalised convolutions. Graphs whose vertices are decorated by smooth kernels (resp. smoothing operators) on a closed manifold form a TRAP. From their universal properties we build smooth amplitudes associated with the graph., Comment: 52 pages, many figures. arXiv admin note: substantial text overlap with arXiv:2005.02115
- Published
- 2021
24. Lactate supply overtakes glucose when neural computational and cognitive loads scale up
- Author
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Dembitskaya, Yulia, Piette, Charlotte, Perez, Sylvie, Berry, Hugues, Magistretti, Pierre J., and Venance, Laurent
- Published
- 2022
25. Astrocyte-derived lactate in stress disorders
- Author
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Chamaa, Farah, Magistretti, Pierre J., and Fiumelli, Hubert
- Published
- 2024
- Full Text
- View/download PDF
26. Efficacy of oral 20-hydroxyecdysone (BIO101), a MAS receptor activator, in adults with severe COVID-19 (COVA): a randomized, placebo-controlled, phase 2/3 trial
- Author
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Lobo, Suzana Margareth, Plantefève, Gaétan, Nair, Girish, Joaquim Cavalcante, Adilson, Franzin de Moraes, Nara, Nunes, Estevao, Barnum, Otis, Berdun Stadnik, Claudio Marcel, Lima, Maria Patelli, Lins, Muriel, Hajjar, Ludhmila Abrahao, Lipinski, Christopher, Islam, Shaheen, Ramos, Fabiano, Simon, Tiago, Martinot, Jean-Benoît, Guimard, Thomas, Desclaux, Arnaud, Lioger, Bertrand, Neuenschwander, Fernando Carvalho, DeSouza Paolino, Bruno, Amin, Alpesh, Acosta, Samuel Amil, Dilling, Daniel Forde, Cartagena, Edgardo, Snyder, Brian, Devaud, Edouard, Barreto Berselli Marinho, Ana Karolina, Tanni, Suzana, Milhomem Beato, Patricia Medeiros, De Wit, Stephan, Selvan, Vani, Gray, Jeffrey, Fernandez, Ricardo, Pourcher, Valérie, Maddox, Lee, Kay, Richard, Azbekyan, Anait, Chabane, Mounia, Tourette, Cendrine, Esmeraldino, Luis Everton, Dilda, Pierre J., Lafont, René, Mariani, Jean, Camelo, Serge, Rabut, Sandrine, Agus, Samuel, Veillet, Stanislas, Dioh, Waly, van Maanen, Rob, and Morelot-Panzini, Capucine
- Published
- 2024
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- View/download PDF
27. ANTIPROLIFERATIVE ACTIVITY OF FLAVONOIDS ISOLATED FROM ECHINOPS GRACILIS O. HOFFM
- Author
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CASTRO F. L. WÉYÉPÉ, WILLIAM F. FEUDJOU, CAROLE A. AMBONO, HERMIA N. IKOME, MARIUS M. BALEMAKEN, PIERRE J. ABDOU, THÉODORA K. KOPA, GABRIEL A. AGBOR, and ALEMBERT T. TCHINDA
- Subjects
asteraceae ,aerial part ,apigenin-7-o-(4′′-feruloyl)-β-dglucopyranoside ,cytotoxicity ,hela cell ,cell viability ,Chemical technology ,TP1-1185 - Abstract
Apigenin-7-O-(4′′-feruloyl)-β-D-glucopyranoside (1) were isolated from the methanol extract of aerial part of Echinops gracilis, together with apigenin-7-O-(4′′-trans-p-hydroxycinnamoyl)-β-D-glucopyranoside (2) and apigenin-7-O-β-D-glucopyranoside (3). Compound (1) previously displayed antioxidant and antibacterial activity. The present study aims at evaluating the antiproliferative potential of flavonoids, isolated from the aerial part of E. gracilis O. Hoffm. The effect of compounds (1), (2) and (3) on the viability of HeLa cells was determined by the method of 3-(4,5-dimethythiazol-2-yl)-2,5-diphenyl tetrazolium bromide (MTT) assay at different concentrations. The ability of compounds to induce the cell death was evaluated by using acridine orange/ethidium bromide (AO/EtBr) staining. Compound (1) induced an effective change in the cell viability of HeLa cells with IC50 concentration value of 27.36 µgmL-1. Induction of cell death alteration in cell morphology and cancer cell population was observed in cells treated with compound (1), which makes it behave as a potent synergistic antiproliferative agent against HeLa cells.
- Published
- 2023
28. Anomaly Detection in Large Labeled Multi-Graph Databases
- Author
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Nguyen, Hung T., Liang, Pierre J., and Akoglu, Leman
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Computer Science - Databases ,Computer Science - Artificial Intelligence ,Computer Science - Machine Learning - Abstract
Within a large database G containing graphs with labeled nodes and directed, multi-edges; how can we detect the anomalous graphs? Most existing work are designed for plain (unlabeled) and/or simple (unweighted) graphs. We introduce CODETECT, the first approach that addresses the anomaly detection task for graph databases with such complex nature. To this end, it identifies a small representative set S of structural patterns (i.e., node-labeled network motifs) that losslessly compress database G as concisely as possible. Graphs that do not compress well are flagged as anomalous. CODETECT exhibits two novel building blocks: (i) a motif-based lossless graph encoding scheme, and (ii) fast memory-efficient search algorithms for S. We show the effectiveness of CODETECT on transaction graph databases from three different corporations, where existing baselines adjusted for the task fall behind significantly, across different types of anomalies and performance metrics., Comment: 24 pages
- Published
- 2020
29. Introducing students to research codes: A short course on solving partial differential equations in Python
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Inguva, Pavan, Bhute, Vijesh J., Cheng, Thomas N. H., and Walker, Pierre J.
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Physics - Physics Education ,Mathematics - Numerical Analysis ,97M11 (Primary), 35A04(Secondary) - Abstract
Recent releases of open-source research codes and solvers for numerically solving partial differential equations in Python present a great opportunity for educators to integrate these codes into the classroom in a variety of ways. The ease with which a problem can be implemented and solved using these codes reduce the barrier to entry for users. We demonstrate how one of these codes,FiPy, can be introduced to students through a short course using progression as the guiding philosophy. Four exercises of increasing complexity were developed. Basic concepts from more advanced numerical methods courses are also introduced at appropriate points. To further engage students, we demonstrate how an open research problem can be readily implemented and also incorporate the use of ParaView to post-process their results. Student engagement and learning outcomes were evaluated through a pre and post-course survey and a focus group discussion. Students broadly found the course to be engaging and useful with the ability to easily visualise the solution to PDEs being greatly valued. Due to the introductory nature of the course, due care in terms of set-up and the design of learning activities during the course is essential. This course, if integrated with appropriate level of support, can encourage students to use the provided codes and improve their understanding of concepts used in numerical analysis and PDEs., Comment: 12 pages, 9 figures. Fixed references
- Published
- 2020
30. ProPs of graphs and generalised traces
- Author
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Clavier, Pierre J., Foissy, Loic, and Paycha, Sylvie
- Subjects
Mathematics - Combinatorics ,Mathematical Physics ,Mathematics - Operator Algebras ,18M85, 46E99, 47G30 - Abstract
We assign generalised convolutions (resp. traces) to graphs whose edges are decorated by smooth kernels (resp. smoothing operators) on a closed manifold. To do so, we introduce the concept of TraPs (Traces and Permutations), which roughly correspond to ProPs (Products and Permutations) without vertical concatenation and equipped with families of generalised partial traces. They can be equipped with a ProP structure in deriving vertical concatenation from the partial traces and we relate TraPs to wheeled ProPs first introduced by Merkulov. We further build their free object and give precise proofs of universal properties of ProPs and TraPs., Comment: 64 pages
- Published
- 2020
31. Broad sialic acid usage amongst species D human adenovirus
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Mundy, Rosie M., Baker, Alexander T., Bates, Emily A., Cunliffe, Tabitha G., Teijeira-Crespo, Alicia, Moses, Elise, Rizkallah, Pierre J., and Parker, Alan L.
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- 2023
- Full Text
- View/download PDF
32. Author Correction: DNA methylation entropy as a measure of stem cell replication and aging
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Vaidya, Himani, Jeong, Hye Seon, Keith, Kelsey, Maegawa, Shinji, Calendo, Gennaro, Madzo, Jozef, Jelinek, Jaroslav, and Issa, Jean-Pierre J.
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- 2023
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33. DNA methylation entropy as a measure of stem cell replication and aging
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Vaidya, Himani, Jeong, Hye Seon, Keith, Kelsey, Maegawa, Shinji, Calendo, Gennaro, Madzo, Jozef, Jelinek, Jaroslav, and Issa, Jean-Pierre J.
- Published
- 2023
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- View/download PDF
34. Hypomethylation in MTNR1B: a novel epigenetic marker for atherosclerosis profiling using stenosis radiophenotype and blood inflammatory cells
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Kim, Jee Yeon, Jelinek, Jaroslav, Lee, Young Ho, Kim, Dae Hyun, Kang, Keunsoo, Ryu, Su Hyun, Moon, Hye Rin, Cho, Kwangjo, Rha, Seo Hee, Cha, Jae Kwan, Issa, Jean-Pierre J., and Kim, Jei
- Published
- 2023
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- View/download PDF
35. Ecological Classification in Forest Ecosystem Management: Links Between Current Practices and Future Climate Change in a Québec Case Study
- Author
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Grondin, Pierre, Brice, Marie-Hélène, Boulanger, Yan, Morneau, Claude, Couillard, Pierre-Luc, Richard, Pierre J. H., Chalumeau, Aurélie, Poirier, Véronique, Stoffel, Markus, Series Editor, Cramer, Wolfgang, Advisory Editor, Luterbacher, Urs, Advisory Editor, Toth, F., Advisory Editor, Girona, Miguel Montoro, editor, Morin, Hubert, editor, Gauthier, Sylvie, editor, and Bergeron, Yves, editor
- Published
- 2023
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- View/download PDF
36. A Phase 1 study for safety and pharmacokinetics of BIO101 (20‐hydroxyecdysone) in healthy young and older adults
- Author
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Waly Dioh, Cendrine Tourette, Susanna Del Signore, Louiza Daudigny, Philippe Dupont, Christine Balducci, Pierre J. Dilda, René Lafont, and Stanislas Veillet
- Subjects
20‐hydroxyecdysone ,BIO101 ,sarcopenia ,safety ,pharmacokinetics ,older ,Diseases of the musculoskeletal system ,RC925-935 ,Human anatomy ,QM1-695 - Abstract
Abstract Background Sarcopenia is an age‐related skeletal muscle disorder characterized by loss of muscle mass and strength leading to mobility disability. 20‐Hydroxyecdysone (20E) is a polyhydroxylated plant steroid that demonstrates pharmacological effects in many disease animal models including ageing/sarcopenia. BIO101 is a 20E purified investigational drug (≥97%) that previously demonstrated good toxicology profiles in rat and dog. BIO101 is evaluated in healthy young and older adults in a Phase 1 study. Methods This study is a Single Ascending Dose (SAD) followed by a 14‐day Multiple Ascending Dose (MAD). In SAD, BIO101 was administered orally to 16 young adults at doses from 100 to 1400 mg and to 8 older adults (age ≥65 years) at 1400 mg. In MAD, doses of 350 mg once daily (qd), 350 mg twice daily (bid) and 450 mg bid were administered to 10 older adults. The primary objective was to evaluate safety and pharmacokinetics (PK), including dosing of circulating metabolites. Pharmacodynamic effects were investigated with regard to myostatin, procollagen‐III‐amino‐terminal propeptide (PIIINP), myoglobin, creatine‐kinase Muscle Brain (CKMB), renin and aldosterone plasma/serum levels. Results BIO101 showed a good safety profile with only mild to moderate adverse events and a satisfactory pharmacokinetic profile. In SAD, at 100 mg to 1400 mg, mean Cmax and areas under the curve increased less than dose‐proportionally. Mean half‐life was short (2.4–4.9 h), and mean renal clearance was comparable in all doses (4.05–5.05 L/h). Mean plasma exposure was slightly lower in older adults (22% lower for Cmax and 13%–15% lower for AUCs) compared with young subjects. In MAD, 350 and 450 mg bid led to a slight accumulation over 14 days (mean ratio of accumulation [Rac] of 1.31 in both cohorts). Reduction of biomarkers (myoglobin, CK‐MB) mean serum levels (vs. baseline) was observed at 450 mg bid. Two major metabolites of 20E (14‐deoxy‐20‐hydroxyecdysone and 14‐deoxypoststerone) were identified and quantified. Conclusions BIO101 shows a good safety and pharmacokinetic profile that led to the selection of doses for the subsequent interventional clinical trials of Phase 2 in age‐related sarcopenia (SARA‐INT) and Phase 3 in Covid‐19 (COVA).
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- 2023
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- View/download PDF
37. Effects of Genotype and Growing Year on the Nutritional Composition and Pasting Properties of Glabrous Canary Seed (Phalaris canariensis L.) Groat Flours
- Author
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Lovemore Nkhata Malunga, Sijo Joseph Thandapilly, Pierre J. Hucl, and Nancy Ames
- Subjects
Glabrous Canary seed ,hairless Canary seeds ,nutritional properties ,nutritional components ,pasting properties ,genotype by environment ,Chemical technology ,TP1-1185 - Abstract
Canary seed flour is a new food ingredient that the United States Food and Drug Administration (FDA) and Health Canada recently granted Generally Regarded as Safe (GRAS) status. Stability in nutritional composition and functional properties is an essential characteristic of food ingredients for consistency in nutritional quality and performance in processing. This work assessed the effect of genotypic and environmental variation on the nutritional (protein, starch, amylose, oil, dietary fiber, minerals and fat-soluble vitamins) and pasting (as measured in viscosity (peak, trough, breakdown, final, and setback), peak time, and pasting temperatures) properties of Canary seed. The samples included four Canary seed varieties grown in randomized complete block design experiments at one location for two growing seasons. In general, the nutritional composition of Canary seed flour was not affected by genotype, growing year, and their interaction except for starch content, which was significantly affected by the growing year (p < 0.0001), and iron content, which was affected by genotypic variation (p < 0.0001). The pasting properties of Canary seed flour were significantly (p < 0.001) affected by both genotypic and growing year variation but not their interaction. Our results suggest that the food industry should measure starch and iron content prior to processing to ensure consistency in nutritional labeling. Also, for those applications where starch pasting properties are essential, the manufacturer should consider measuring the RVA pasting viscosities for every batch of raw material. The results have provided the baseline knowledge of which nutritional or functional properties of Canary seed flour can be improved through breeding and agronomy programs to ensure the reliability of Canary seed as an ingredient.
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- 2024
- Full Text
- View/download PDF
38. Non-pathogenic microbiota accelerate age-related CpG Island methylation in colonic mucosa
- Author
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Ang Sun, Pyounghwa Park, Lauren Cole, Himani Vaidya, Shinji Maegawa, Kelsey Keith, Gennaro Calendo, Jozef Madzo, Jaroslav Jelinek, Christian Jobin, and Jean-Pierre J. Issa
- Subjects
dna methylation ,microbiota ,germ-free ,inflammation ,ageing ,Genetics ,QH426-470 - Abstract
DNA methylation is an epigenetic process altered in cancer and ageing. Age-related methylation drift can be used to estimate lifespan and can be influenced by extrinsic factors such as diet. Here, we report that non-pathogenic microbiota accelerate age-related methylation drift in the colon when compared with germ-free mice. DNA methylation analyses showed that microbiota and IL10KO were associated with changes in 5% and 4.1% of CpG sites, while mice with both factors had 18% alterations. Microbiota, IL10KO, and their combination altered 0.4%, 0.4%, and 4% of CpG island methylation, respectively. These are comparable to what is seen in colon cancer. Ageing changes were accelerated in the IL10KO mice with microbiota, and the affected genes were more likely to be altered in colon cancer. Thus, the microbiota affect DNA methylation of the colon in patterns reminiscent of what is observed in ageing and colorectal cancer.
- Published
- 2023
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- View/download PDF
39. Misfolding of fukutin-related protein (FKRP) variants in congenital and limb girdle muscular dystrophies
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Christopher T. Esapa, R. A. Jeffrey McIlhinney, Adrian J. Waite, Matthew A. Benson, Jasmin Mirzayan, Henriett Piko, Ágnes Herczegfalvi, Rita Horvath, Veronika Karcagi, Maggie C. Walter, Hanns Lochmüller, Pierre J. Rizkallah, Qi L. Lu, and Derek J. Blake
- Subjects
fukutin-related protein ,muscular dystrophy ,protein misfolding ,missense mutation ,chaperone ,structural modelling ,Biology (General) ,QH301-705.5 - Abstract
Fukutin-related protein (FKRP, MIM ID 606596) variants cause a range of muscular dystrophies associated with hypo-glycosylation of the matrix receptor, α-dystroglycan. These disorders are almost exclusively caused by homozygous or compound heterozygous missense variants in the FKRP gene that encodes a ribitol phosphotransferase. To understand how seemingly diverse FKRP missense mutations may contribute to disease, we examined the synthesis, intracellular dynamics, and structural consequences of a panel of missense mutations that encompass the disease spectrum. Under non-reducing electrophoresis conditions, wild type FKRP appears to be monomeric whereas disease-causing FKRP mutants migrate as high molecular weight, disulfide-bonded aggregates. These results were recapitulated using cysteine-scanning mutagenesis suggesting that abnormal disulfide bonding may perturb FKRP folding. Using fluorescence recovery after photobleaching, we found that the intracellular mobility of most FKRP mutants in ATP-depleted cells is dramatically reduced but can, in most cases, be rescued with reducing agents. Mass spectrometry showed that wild type and mutant FKRP differentially associate with several endoplasmic reticulum (ER)-resident chaperones. Finally, structural modelling revealed that disease-associated FKRP missense variants affected the local environment of the protein in small but significant ways. These data demonstrate that protein misfolding contributes to the molecular pathophysiology of FKRP-deficient muscular dystrophies and suggest that molecules that rescue this folding defect could be used to treat these disorders.
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- 2023
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- View/download PDF
40. Nicholas Allen Festschrift
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Pierre J. Jordaan and Johan Steenkamp
- Subjects
nicholas allen ,festschrift ,editorial ,in luce verbi ,north- west university. ,Practical Theology ,BV1-5099 ,Practical religion. The Christian life ,BV4485-5099 - Abstract
No abstract available.
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- 2023
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41. Photo‐Chemical Stimulation of Neurons with Organic Semiconductors
- Author
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Achilleas Savva, Adel Hama, Gabriel Herrera‐López, Tony Schmidt, Ludovico Migliaccio, Nadia Steiner, Malak Kawan, Hubert Fiumelli, Pierre J. Magistretti, Iain McCulloch, Derya Baran, Nicola Gasparini, Rainer Schindl, Eric D. Głowacki, and Sahika Inal
- Subjects
non‐fullerene acceptors ,organic bioelectronics ,photo‐stimulation ,Science - Abstract
Abstract Recent advances in light‐responsive materials enabled the development of devices that can wirelessly activate tissue with light. Here it is shown that solution‐processed organic heterojunctions can stimulate the activity of primary neurons at low intensities of light via photochemical reactions. The p‐type semiconducting polymer PDCBT and the n‐type semiconducting small molecule ITIC (a non‐fullerene acceptor) are coated on glass supports, forming a p–n junction with high photosensitivity. Patch clamp measurements show that low‐intensity white light is converted into a cue that triggers action potentials in primary cortical neurons. The study shows that neat organic semiconducting p–n bilayers can exchange photogenerated charges with oxygen and other chemical compounds in cell culture conditions. Through several controlled experimental conditions, photo‐capacitive, photo‐thermal, and direct hydrogen peroxide effects on neural function are excluded, with photochemical delivery being the possible mechanism. The profound advantages of low‐intensity photo‐chemical intervention with neuron electrophysiology pave the way for developing wireless light‐based therapy based on emerging organic semiconductors.
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- 2023
- Full Text
- View/download PDF
42. Pelvic actinomycosis infection masquerading as recurrent endometrial cancer
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Sandeepa Utpat, Thomas Hackett, Nishka Utpat, Pierre J. Mendoza, and Fahad Hussain
- Subjects
Actinomyces ,Actinomycosis ,Recurrent endometrial cancer ,Urinary incontinence ,Radiation cystitis ,Radiation injury ,Infectious and parasitic diseases ,RC109-216 - Abstract
This case report presents a perplexing case of Actinomycosis infection in a patient undergoing routine surveillance after surgical treatment of endometrial cancer 10 years earlier. Her history was significant for recurrence of endometrial cancer in the vaginal vault after one year which was treated with radiation therapy.During routine surveillance follow up, a periurethral mass was noted on bimanual and speculum examination approximately 9 years after the last recurrence. It was suspected to be a recurrence of endometrial cancer based on the appearance of lesion and the patient's history of recurrent cancer. The mass was biopsied and sent only for tissue pathology, which was resulted as Actinomyces on background of necrotic tissue and absence of malignant cells.The patient was started on oral antimicrobial agents effective against Actinomycosis with the intention of repeating the bimanual and speculum examination and performing a CT scan after an appropriate duration of treatment to evaluate for resolution of mass indicating treatment of cure.This case demonstrates the need to consider the possibility of pelvic actinomycosis infection in patients with radiation induced injury to vaginal mucosa in absence of other known risk factors.
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- 2023
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- View/download PDF
43. Technical activities 1986 : Center for Chemical Physics
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Ausloos, Pierre J.
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- 1986
44. Guadecitabine vs treatment choice in newly diagnosed acute myeloid leukemia: a global phase 3 randomized study
- Author
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Fenaux, Pierre, Gobbi, Marco, Kropf, Patricia L., Issa, Jean-Pierre J., Roboz, Gail J., Mayer, Jiri, Krauter, Jürgen, Robak, Tadeusz, Kantarjian, Hagop, Novak, Jan, Jedrzejczak, Wieslaw. W., Thomas, Xavier, Ojeda-Uribe, Mario, Miyazaki, Yasushi, Min, Yoo Hong, Yeh, Su-Peng, Brandwein, Joseph, Gercheva-Kyuchukova, Liana, Demeter, Judit, Griffiths, Elizabeth, Yee, Karen, Döhner, Konstanze, Hao, Yong, Keer, Harold, Azab, Mohammad, and Döhner, Hartmut
- Published
- 2023
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45. Borel-Ecalle resummation of a two-point function
- Author
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Clavier, Pierre J.
- Subjects
Mathematical Physics - Abstract
We provide an overview of the tools and techniques of resurgence theory used in the Borel-Ecalle resummation method, which we then apply to the massless Wess-Zumino model. Starting from already known results on the anomalous dimension of the Wess-Zumino model, we solve its renormalisation group equation for the two point function in a space of formal series. We show that this solution is 1-Gevrey and that its Borel transform is resurgent. The Schwinger-Dyson equation of the model is then used to prove an asymptotic exponential bound for the Borel transformed two point function on a star-shaped domain of a suitable ramified complex plane. This prove that the two point function of the Wess-Zumino model is Borel-Ecalle summable., Comment: 25 pages, clarifications and precisions added. Expanded discussion of the physical consequences of this work. Typos removed and grammatical mistakes fixed. Bibliography updated and completed. To be published in Annales Henri Poincar\'e
- Published
- 2019
46. Multiple wheat genomes reveal global variation in modern breeding
- Author
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Walkowiak, Sean, Gao, Liangliang, Monat, Cecile, Haberer, Georg, Kassa, Mulualem T, Brinton, Jemima, Ramirez-Gonzalez, Ricardo H, Kolodziej, Markus C, Delorean, Emily, Thambugala, Dinushika, Klymiuk, Valentyna, Byrns, Brook, Gundlach, Heidrun, Bandi, Venkat, Siri, Jorge Nunez, Nilsen, Kirby, Aquino, Catharine, Himmelbach, Axel, Copetti, Dario, Ban, Tomohiro, Venturini, Luca, Bevan, Michael, Clavijo, Bernardo, Koo, Dal-Hoe, Ens, Jennifer, Wiebe, Krystalee, N’Diaye, Amidou, Fritz, Allen K, Gutwin, Carl, Fiebig, Anne, Fosker, Christine, Fu, Bin Xiao, Accinelli, Gonzalo Garcia, Gardner, Keith A, Fradgley, Nick, Gutierrez-Gonzalez, Juan, Halstead-Nussloch, Gwyneth, Hatakeyama, Masaomi, Koh, Chu Shin, Deek, Jasline, Costamagna, Alejandro C, Fobert, Pierre, Heavens, Darren, Kanamori, Hiroyuki, Kawaura, Kanako, Kobayashi, Fuminori, Krasileva, Ksenia, Kuo, Tony, McKenzie, Neil, Murata, Kazuki, Nabeka, Yusuke, Paape, Timothy, Padmarasu, Sudharsan, Percival-Alwyn, Lawrence, Kagale, Sateesh, Scholz, Uwe, Sese, Jun, Juliana, Philomin, Singh, Ravi, Shimizu-Inatsugi, Rie, Swarbreck, David, Cockram, James, Budak, Hikmet, Tameshige, Toshiaki, Tanaka, Tsuyoshi, Tsuji, Hiroyuki, Wright, Jonathan, Wu, Jianzhong, Steuernagel, Burkhard, Small, Ian, Cloutier, Sylvie, Keeble-Gagnère, Gabriel, Muehlbauer, Gary, Tibbets, Josquin, Nasuda, Shuhei, Melonek, Joanna, Hucl, Pierre J, Sharpe, Andrew G, Clark, Matthew, Legg, Erik, Bharti, Arvind, Langridge, Peter, Hall, Anthony, Uauy, Cristobal, Mascher, Martin, Krattinger, Simon G, Handa, Hirokazu, Shimizu, Kentaro K, Distelfeld, Assaf, Chalmers, Ken, Keller, Beat, Mayer, Klaus FX, Poland, Jesse, Stein, Nils, McCartney, Curt A, Spannagl, Manuel, Wicker, Thomas, and Pozniak, Curtis J
- Subjects
Genetics ,Biotechnology ,Human Genome ,Acclimatization ,Animals ,Centromere ,Chromosome Mapping ,Cloning ,Molecular ,DNA Copy Number Variations ,DNA Transposable Elements ,Edible Grain ,Genes ,Plant ,Genetic Introgression ,Genetic Variation ,Genome ,Plant ,Genomics ,Haplotypes ,Insecta ,Internationality ,NLR Proteins ,Plant Breeding ,Plant Diseases ,Plant Proteins ,Polymorphism ,Single Nucleotide ,Polyploidy ,Triticum ,General Science & Technology - Abstract
Advances in genomics have expedited the improvement of several agriculturally important crops but similar efforts in wheat (Triticum spp.) have been more challenging. This is largely owing to the size and complexity of the wheat genome1, and the lack of genome-assembly data for multiple wheat lines2,3. Here we generated ten chromosome pseudomolecule and five scaffold assemblies of hexaploid wheat to explore the genomic diversity among wheat lines from global breeding programs. Comparative analysis revealed extensive structural rearrangements, introgressions from wild relatives and differences in gene content resulting from complex breeding histories aimed at improving adaptation to diverse environments, grain yield and quality, and resistance to stresses4,5. We provide examples outlining the utility of these genomes, including a detailed multi-genome-derived nucleotide-binding leucine-rich repeat protein repertoire involved in disease resistance and the characterization of Sm16, a gene associated with insect resistance. These genome assemblies will provide a basis for functional gene discovery and breeding to deliver the next generation of modern wheat cultivars.
- Published
- 2020
47. CAR-T Cells in Canada; Perspective on How to Ensure We Get Our Value’s Worth
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Pierre J. A. Villeneuve and Christopher Bredeson
- Subjects
CAR-T ,CADTH ,health technology assessment ,HTA ,Neoplasms. Tumors. Oncology. Including cancer and carcinogens ,RC254-282 - Abstract
New therapies in a publicly funded healthcare system are first appraised by health technology assessment agencies that provide funding recommendations to the payers. Treatment with Chimeric Antigen Receptor-T cell (CAR-T) therapy is revolutionizing the management of patients with relapsed/refractory aggressive B-cell lymphoma by providing an effective alternative to the standard of care. Yet, the implementation of CAR-T treatment has a substantial impact on the healthcare system due to its high cost, complex manufacturing process, and requirement for highly specialized services and expertise. CAR-T Cells, as a “living drug”, are fundamentally different from usual medications, and their approvals and funding recommendations pose unique challenges to the health technology agency. In this paper, we explore the specific challenges that face the health technology agencies in reviewing reimbursement recommendations for CAR-T therapy. We take a Canadian perspective and use CAR-T treatment of relapse/refractory aggressive B-cell lymphoma as an example.
- Published
- 2023
- Full Text
- View/download PDF
48. Mrs. Reiley's troubles
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La Pierre, J. E. and La Pierre, J. E.
- Subjects
- Broadsides 19th century. United States, Songs Texts. 19th century United States, Popular music Texts. 19th century United States, Drinking in popular music Texts., Marriage Songs and music Texts., Musique populaire Textes. 19e siècle États-Unis, Consommation d'alcool dans la musique populaire Textes., Broadsides., Drinking in popular music., Marriage., Popular music., Songs., United States.
- Published
- 2024
49. Modulation of Type 5 Metabotropic Glutamate Receptor-Mediated Intracellular Calcium Mobilization by Regulator of G Protein Signaling 4 (RGS4) in Cultured Astrocytes
- Author
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Pauline Beckers, Pierre J. Doyen, and Emmanuel Hermans
- Subjects
regulators of G protein signaling ,metabotropic glutamate receptor ,calcium oscillations ,astrocytes ,glial cells ,Cytology ,QH573-671 - Abstract
Acting as GTPase activating proteins promoting the silencing of activated G-proteins, regulators of G protein signaling (RGSs) are generally considered negative modulators of cell signaling. In the CNS, the expression of RGS4 is altered in diverse pathologies and its upregulation was reported in astrocytes exposed to an inflammatory environment. In a model of cultured cortical astrocytes, we herein investigate the influence of RGS4 on intracellular calcium signaling mediated by type 5 metabotropic glutamate receptor (mGluR5), which is known to support the bidirectional communication between neurons and glial cells. RGS4 activity was manipulated by exposure to the inhibitor CCG 63802 or by infecting the cells with lentiviruses designed to achieve the silencing or overexpression of RGS4. The pharmacological inhibition or silencing of RGS4 resulted in a decrease in the percentage of cells responding to the mGluR5 agonist DHPG and in the proportion of cells showing typical calcium oscillations. Conversely, RGS4-lentivirus infection increased the percentage of cells showing calcium oscillations. While the physiological implication of cytosolic calcium oscillations in astrocytes is still under investigation, the fine-tuning of calcium signaling likely determines the coding of diverse biological events. Indirect signaling modulators such as RGS4 inhibitors, used in combination with receptor ligands, could pave the way for new therapeutic approaches for diverse neurological disorders with improved efficacy and selectivity.
- Published
- 2024
- Full Text
- View/download PDF
50. Double shuffle relations for arborified zeta values
- Author
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Clavier, Pierre J.
- Subjects
Mathematics - Number Theory ,Mathematics - Combinatorics ,13M32, 05C05 - Abstract
Arborified zeta values are defined as iterated series and integrals using the universal properties of rooted trees. This approach allows to study their convergence domain and to relate them to multizeta values. Generalisations to rooted trees of the stuffle and shuffle products are defined and studied. It is further shown that arborifed zeta values are algebra morphisms for these new products on trees., Comment: Match the version to be published in Journal of Algebra. One diagram added, minor modifications
- Published
- 2018
- Full Text
- View/download PDF
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