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| http://dx.doi.org/10.1111/iwj.14357 | DOI Listing |
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Nuclear DNA is organized into a compact three-dimensional (3D) structure that impacts critical cellular processes. High-throughput chromosome conformation capture (Hi-C) is the most widely used method for measuring 3D genome architecture, while linear epigenomic assays, such as ATAC-seq, DNase-seq, and ChIP-seq, are extensively employed to characterize epigenomic regulation. However, the integrative analysis of chromatin interactions and associated epigenomic regulation remains challenging due to the pairwise nature of Hi-C data, mismatched resolution between Hi-C and epigenomic assays, and inconsistencies among analysis tools.
View Article and Find Full Text PDFInconsistency among evaluation metrics in link prediction.
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CompleX Lab, School of Computer Science and Engineering, University of Electronic Science and Technology of China, Chengdu 611731, China.
Link prediction is a paradigmatic and challenging problem in network science, which aims to predict missing links, future links, and temporal links based on known topology. Along with the increasing number of link prediction algorithms, a critical yet previously ignored risk is that the evaluation metrics for algorithm performance are usually chosen at will. This paper implements extensive experiments on hundreds of real networks and 26 well-known algorithms, revealing significant inconsistency among evaluation metrics, namely different metrics probably produce remarkably different rankings of algorithms.
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Bioinformatics and Molecular Biology Unit, Department of Biochemistry, Federal University of Technology Akure, Ondo State, Nigeria.
Background: Prostate cancer (Pca) is a deadly disease prevalent among men, and it accounts for about 7-8 % of mortality globally. Synthetic drugs have proved effective but have limitations and severe side effects. There is, therefore, a need to discover a less expensive, natural therapeutic agent with no side effects in treating the ailment.
View Article and Find Full Text PDFUncertainty of DFT Calculated Mechanical and Structural Properties of Solids due to Incompatibility of Pseudopotentials and Exchange-Correlation Functionals.
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Institute of Fundamental Technological Research, Polish Academy of Sciences, Pawińskiego 5B, 02-106 Warsaw, Poland.
The demand for pseudopotentials constructed for a given exchange-correlation (XC) functional far exceeds the supply, necessitating the use of those commonly available. The number of XC functionals currently available is in the hundreds, if not thousands, and the majority of pseudopotentials have been generated for LDA and PBE. The objective of this study is to identify the error in the determination of the mechanical and structural properties (lattice constant, cohesive energy, surface energy, elastic constants, and bulk modulus) of crystals calculated by DFT with such inconsistency.
View Article and Find Full Text PDFWasted shores: Using drones to monitor the spatio-temporal evolution of debris accumulation hotspots on South Africa's Umgeni River.
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The Ocean Cleanup, Rotterdam, the Netherlands. Electronic address:
Rivers are major contributors of plastic waste to the oceans. Running through the northern part of the 1.3 million-inhabitants City of Durban, South Africa, the Umgeni River is estimated to flush in the order of tens to hundreds of tonnes of plastic waste into the Indian Ocean every year.
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