We present and discuss the advancements made in PyRETIS 3, the third instalment of our Python library for an efficient and user-friendly rare event simulation, focused to execute molecular simulations with replica exchange transition interface sampling (RETIS) and its variations. Apart from a general rewiring of the internal code towards a more modular structure, several recently developed sampling strategies have been implemented. These include recently developed Monte Carlo moves to increase path decorrelation and convergence rate, and new ensemble definitions to handle the challenges of long-lived metastable states and transitions with unbounded reactant and product states. Additionally, the post-analysis software PyVisa is now embedded in the main code, allowing fast use of machine-learning algorithms for clustering and visualising collective variables in the simulation data.
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Sci Rep
December 2024
Faculty of Humanities and Social Sciences,Institute of Psychology, University of Pécs, 6 Ifjúság Street, Pécs, 7624, Hungary.
Living with chronic conditions like diabetes mellitus (DM) or insulin resistance (IR) requires significant self-management, adding to daily life stressors. This stress, known as diabetes distress, along with health empowerment from proper diet and lifestyle, and motivation to eat healthily, greatly impacts quality of life and disease outcomes. Different patient subgroups (type 1 diabetic (T1DM), type 2 diabetic (T2DM), and insulin resistant (IR) individuals) face these challenges differently.
View Article and Find Full Text PDFMetaplastic breast cancer (MpBC) is a highly chemoresistant subtype of breast cancer with no standardized therapy options. A clinical study in anthracycline-refractory MpBC patients suggested that nitric oxide synthase (NOS) inhibitor NG-monomethyl-l-arginine (L-NMMA) may augment anti-tumor efficacy of taxane. We report that NOS blockade potentiated response of human MpBC cell lines and tumors to phosphoinositide 3-kinase (PI3K) inhibitor alpelisib and taxane.
View Article and Find Full Text PDFQuant Imaging Med Surg
December 2024
Anhui Province Key Laboratory of Medical Physics and Technology, Institute of Health and Medical Technology, Hefei Institutes of Physical Science, Hefei Cancer Hospital, Chinese Academy of Sciences, Hefei, China.
Background: Robust registration of thoracic computed tomography (CT) images is strongly impacted by motion during acquisition, high-density objects, and noise, particularly in lower-dose acquisitions. Despite the enhanced registration speed achieved by popular deep learning (DL) methods, their robustness is often neglected. This study aimed to develop a robust thoracic CT image registration algorithm to address the aforementioned issues.
View Article and Find Full Text PDFCancer Med
December 2024
Dana-Farber/Boston Children's Cancer and Blood Disorders Center, Harvard Medical School, Boston, Massachusetts, USA.
Purpose: The fragility index (FI) is an adjunctive metric to facilitate the interpretation of p-values in clinical trials. The FI has not been studied in phase 3 trials in pediatric oncology.
Methods: PubMed was used to identify phase 3 pediatric oncology trials published between 1980 and 2020.
Dalton Trans
December 2024
School of Materials Science and Engineering, University of Jinan, Jinan 250022, China.
Functionalized separators are expected to serve as protective barriers to conquer the lithium dendrite penetration in lithium metal batteries. Herein, a novel self-supporting separator material has been successfully synthesized based on the cellulose acetate and Keggin-type polyoxometalate HPMoO·HO (denoted as CA/PMo). The incorporation of PMo facilitates the transformation of the original finger-like structure of the CA separator into a uniform three-dimensional porous grid architecture, which is more effective in inhibiting the growth of lithium dendrites.
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