Jagiellonian University

About: Jagiellonian University is a education organization based out in Krakow, Poland. It is known for research contribution in the topics: Population & Catalysis. The organization has 17438 authors who have published 44092 publications receiving 862633 citations. The organization is also known as: Academia Cracoviensis & Akademia Krakowska.

Structure-based protein function prediction using graph convolutional networks.

Abstract: The rapid increase in the number of proteins in sequence databases and the diversity of their functions challenge computational approaches for automated function prediction. Here, we introduce DeepFRI, a Graph Convolutional Network for predicting protein functions by leveraging sequence features extracted from a protein language model and protein structures. It outperforms current leading methods and sequence-based Convolutional Neural Networks and scales to the size of current sequence repositories. Augmenting the training set of experimental structures with homology models allows us to significantly expand the number of predictable functions. DeepFRI has significant de-noising capability, with only a minor drop in performance when experimental structures are replaced by protein models. Class activation mapping allows function predictions at an unprecedented resolution, allowing site-specific annotations at the residue-level in an automated manner. We show the utility and high performance of our method by annotating structures from the PDB and SWISS-MODEL, making several new confident function predictions. DeepFRI is available as a webserver at https://beta.deepfri.flatironinstitute.org/ .

The use of e-health and m-health tools in health promotion and primary prevention among older adults: a systematic literature review

Abstract: The use of e-health and m-health technologies in health promotion and primary prevention among older people is largely unexplored. This study provides a systematic review of the evidence on the scope of the use of e-health and m-health tools in health promotion and primary prevention among older adults (age 50+). A systematic literature review was conducted in October 2015. The search for relevant publications was done in the search engine PubMed. The key inclusion criteria were: e-health and m-health tools used, participants’ age 50+ years, focus on health promotion and primary prevention, published in the past 10 years, in English, and full-paper can be obtained. The text of the publications was analyzed based on two themes: the characteristics of e-health and m-health tools and the determinants of the use of these tools by older adults. The quality of the studies reviewed was also assessed. The initial search resulted in 656 publications. After we applied the inclusion and exclusion criteria, 45 publications were selected for the review. In the publications reviewed, various types of e-health/m-health tools were described, namely apps, websites, devices, video consults and webinars. Most of the publications (60 %) reported studies in the US. In 37 % of the publications, the study population was older adults in general, while the rest of the publications studied a specific group of older adults (e.g. women or those with overweight). The publications indicated various facilitators and barriers. The most commonly mentioned facilitator was the support for the use of the e-health/m-health tools that the older adults received. E-health and m-health tools are used by older adults in diverse health promotion programs, but also outside formal programs to monitor and improve their health. The latter is hardly studied. The successful use of e-health/m-health tools in health promotion programs for older adults greatly depends on the older adults’ motivation and support that older adults receive when using e-health and m-health tools.

White Analytical Chemistry: An approach to reconcile the principles of Green Analytical Chemistry and functionality

Abstract: The concept of White Analytical Chemistry (WAC) is presented as an extension of Green Analytical Chemistry (GAC). We propose the 12 WAC principles as an alternative to the known 12 GAC principles. In addition to green aspects, WAC takes into account other key criteria affecting the quality of the method, analytical (red) and practical (blue). In reference to the RGB color model, according to which mixing of red, green and blue light beams gives the impression of whiteness, a white analytical method shows the coherence and synergy of the analytical, ecological and practical attributes. Whiteness can also be quantified, based on the assessment of individual principles, as a convenient parameter useful in comparisons and selecting optimal method. WAC is closer to the idea of sustainable development due to a more holistic view, as it strives for a compromise that avoids an unconditional increase in greenness at the expense of functionality.

Structural, Optical, and Magnetic Properties of Zn-Doped CoFe2O4 Nanoparticles.

Abstract: The effect of Zn-doping in CoFe2O4 nanoparticles (NPs) through chemical co-precipitation route was investigated in term of structural, optical, and magnetic properties. Both XRD and FTIR analyses confirm the formation of cubic spinel phase, where the crystallite size changes with Zn content from 46 to 77 nm. The Scherrer method, Williamson-Hall (W-H) analysis, and size-strain plot method (SSPM) were used to study of crystallite sizes. The TEM results were in good agreement with the results of the SSP method. SEM observations reveal agglomeration of fine spherical-like particles. The optical band gap energy determined from diffuse reflectance spectroscopy (DRS) varies increases from 1.17 to 1.3 eV. Magnetization field loops reveal a ferromagnetic behavior with lower hysteresis loop for higher Zn content. The magnetic properties are remarkably influenced with Zn doping; saturation magnetization (Ms) increases then decreases while both coercivity (HC) and remanent magnetization (Mr) decrease continuously, which was associated with preferential site occupancy and the change in particle size.

Subthreshold Production of Kaons and Antikaons in Nucleus-Nucleus Collisions at Equivalent Beam Energies

Abstract: Kaon production has been studied in $\mathrm{Ni}+\mathrm{Ni}$ collisions at beam energies of 0.8--1.8 GeV/nucleon with the kaon spectrometer at GSI. The ${K}^{+}$ production cross section increases as ${E}_{\mathrm{beam}}^{5.3\ifmmode\pm\else\textpm\fi{}0.2}$. Both ${K}^{+}$ and ${K}^{\ensuremath{-}}$ mesons are predominantly produced in central collisions. The ${K}^{\ensuremath{-}}/{K}^{+}$ ratio measured at equivalent beam energies below the respective particle production threshold is considerably larger for $\mathrm{Ni}+\mathrm{Ni}$ collisions than for nucleon-nucleon collisions near threshold. This is evidence for an enhanced ${K}^{\ensuremath{-}}$ production in the nuclear medium.