Advanced searches left 3/3

Space - PubMed

Summarized by Plex Scholar
Last Updated: 21 September 2022

* If you want to update the article please login/register

Iterative Landmark-Based Umbrella Sampling (ILBUS) Protocol for Sampling of Conformational Space of Biomolecules.

Inadequate sampling results in computer simulations of biomolecules, such as molecular dynamics, are often missing. To solve this issue, we've developed a simulation system for efficient resampling of collected off-equilibrium trajectories. The multistate Bennett acceptance ratio method, which allows for the effective use of simulated results, is used to resurrect static equilibrium properties. The ILBUS protocol is geometry-based, and does not require any additional collective variable or a dimensional reduction system. The only requirement is a series of appropriately spaced reference conformations, which serve as historical landmarks in the mapped conformational space. In addition, the ILBUS protocol includes an iterative process that optimizes the force constant used in the umbrella sampling simulation. In addition, MBAR's estimates can include even simulations using suboptimal force constants. We show the feasibility and success of this strategy in the investigation of the alanine dipeptide, met-enkephalin, and adenylate kinase's conformational map.

Source link: https://doi.org/10.1021/acs.jcim.2c00370


Late Pleistocene megafauna extinction leads to missing pieces of ecological space in a North American mammal community.

Here, we use fossil evidence from past biodiversity loss at the terminal Pleistocene. Before and after the incident in Texas, we investigate the impact on surviving species's ecology and ecology. Preextinction, a number of C4 grazers, C3 browsers, and mixed feeders existed in a savanna similar to modern African savannas, with some likely specialization among the two sabertooth species for juvenile grazers. Within the Felidae, the jaguar, now an apex carnivore, has ventured into a niche previously occupied by extinct cats, the jaguar. Lagomorphs were the only herbivores to shift to C4 resources, according to Lagomorphs. We conclude that biodiversity loss resulted in reorganization of survivors and several "missing pieces" within our community, and that, without intervention, Earth's remaining ecosystems that sustain megafauna will likely suffer the same fate.

Source link: https://doi.org/10.1073/pnas.2115015119


A Light Field FDL-HCGH Feature in Scale-Disparity Space.

Many computer vision software applications rely on feature detection and characterization, which has led to the need for fast and robust 4D light field feature detectors and descriptors. For light field imaging applications, we present a new light field feature descriptor based on the Fourier disparity layer model. The proposed feature descriptor is then extracted using a circular neighborhood rather than a square neighborhood following the discovery of the Harris feature in a scale-disparity space.

Source link: https://doi.org/10.1109/TIP.2022.3202099


Generalizable Pancreas Segmentation Modeling in CT Imaging via Meta-learning and Latent-space Feature Flow Generation.

Accurate pancreas segmentation is extremely important in diagnosing and treating pancreatic diseases. Hence, we propose a generalizable pancreas segmentation scheme based on a meta-learning framework and a latent-space feature flow generation algorithm. The integrity-preserving coarse segmentation module is designed to intelligently balance the pancreas coverage and segmentation accuracy with the meta-learning approach for filtering out background noise. The appearance-style feature flow generation scheme is then used to produce a series of increasingly different style-related intermediate representations between two latent spaces.

Source link: https://doi.org/10.1109/JBHI.2022.3207597


Manifold Learning via Linear Tangent Space Alignment (LTSA) for Accelerated Dynamic MRI with Sparse Sampling.

Dynamic resonance imaging's spatial resolution and temporal framerate can be enhanced by reconstructing images from sparsely sampled k-space data with mathematical analysis of the underlying spatiotemporal parameters. This paper introduces a new linear tangent space alignment model-based framework that exploits the inherent low-dimensional manifold structure of dynamic images for accelerated dynamic MRI. The most compared methods found the best results in image reconstruction among all of the compared methods.

Source link: https://doi.org/10.1109/TMI.2022.3207774


Inequality in urban green space benefits: Combining street greenery and park greenery.

Using remote sensing image data and the green view index based on human visual images, we determined the amount of urban green space in the Guangzhou Beltway region, defined here as park greenery and street greenery. We then calculated the urban green space score by assessing the amount of street greenery and park greenery, then juxtaposing the score with the region's population distribution. The comprehensive wellbeing score of UGS is made up of two aspects, the park greenery score and the street greenery score, but the geographical distribution of UGSS values remains uneven.

Source link: https://doi.org/10.1371/journal.pone.0273191


Public Art and Space Environment Design Using Genetic Algorithm-Guided 3D Virtual Reconstruction.

Public art plays a vital role in shaping the urban space environment by expressing a city's spiritual outlook and cultural heritage. The relationship between public art and the environment of public spaces is explored in terms of form, status quo, and impact in this essay. The requirements of the virtual process are then thoroughly investigated by the practical usage of various collaborative applications based on the actual needs of 3D virtual reconstruction. The study of public art and urban space environment design is expected to contribute positively to the city's revitalization.

Source link: https://doi.org/10.1155/2022/2193950


The existential risk space of climate change.

This gap is at odds with the basic truth of existential threats for humanity, as well as academic institutions' ability to engage with emerging debates and narratives on climate change's existential aspect, which have recently gained a lot of attention. In the Intergovernmental Panel on Climate Change's reports, we first explore the context of existential threats and climate change, drawing on analysis in fields such as global catastrophic threats and climate change, as well as the so-called Reasons for Concern. We also discuss how existential risks are framed in the civil society climate movement, as well as what can be learned in this respect from the COVID-19 crisis.

Source link: https://doi.org/10.1007/s10584-022-03430-y


RadicalSAM.org: A Resource to Interpret Sequence-Function Space and Discover New Radical SAM Enzyme Chemistry.

The radical SAM superfamily, arguably the most functionally diverse enzyme superfamily, is also one of the most large, with 700K people registered in the UniProt database, with 700K people currently registered. The resource seeks to facilitate the identification of isofunctional groups of radical SAM enzymes using sequence similarity networks and the genome context of the bacterial, archaeal, and fungal species represented by genome neighborhood diagrams. Given the tendency for genes of a related function to be clustered, enzyme activities and in vivo functions can be inferred from genomic contexts.

Source link: https://doi.org/10.1021/acsbiomedchemau.1c00048

* Please keep in mind that all text is summarized by machine, we do not bear any responsibility, and you should always check original source before taking any actions

* Please keep in mind that all text is summarized by machine, we do not bear any responsibility, and you should always check original source before taking any actions