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Scientific Reports Oct 2023Cyberphysical systems connect physical devices and large private network environments in modern communication systems. A fundamental worry in the establishment of large...
Cyberphysical systems connect physical devices and large private network environments in modern communication systems. A fundamental worry in the establishment of large private networks is mitigating the danger of transactional data privacy breaches caused by adversaries using a variety of exploitation techniques. This study presents a privacy-preserving architecture for ensuring the privacy and security of transaction data in large private networks. The proposed model employs digital certificates, RSA-based public key infrastructure, and the blockchain to address user transactional data privacy concerns. The model also guarantees that data in transit remains secure and unaltered and that its provenance remains authentic and secure during node-to-node interactions within a large private network. The proposed model has increased the encryption speed by about 17 times, while the decryption process is expedited by 4 times. Therefore, the average overall acceleration obtained was 16.5. Both the findings of the security analysis and the performance analysis demonstrate that the proposed model can safeguard transactional data during communications on large private networks more effectively and securely than the existing solutions.
PubMed: 37816836
DOI: 10.1038/s41598-023-44101-x -
ELife Sep 2023Adulis, located on the Red Sea coast in present-day Eritrea, was a bustling trading centre between the first and seventh centuries CE. Several classical...
Adulis, located on the Red Sea coast in present-day Eritrea, was a bustling trading centre between the first and seventh centuries CE. Several classical geographers-Agatharchides of Cnidus, Pliny the Elder, Strabo-noted the value of Adulis to Greco-Roman Egypt, particularly as an emporium for living animals, including baboons ( spp.). Though fragmentary, these accounts predict the Adulite origins of mummified baboons in Ptolemaic catacombs, while inviting questions on the geoprovenance of older (Late Period) baboons recovered from Gabbanat el-Qurud ('Valley of the Monkeys'), Egypt. Dated to ca. 800-540 BCE, these animals could extend the antiquity of Egyptian-Adulite trade by as much as five centuries. Previously, Dominy et al. (2020) used stable isotope analysis to show that two New Kingdom specimens of originate from the Horn of Africa. Here, we report the complete mitochondrial genomes from a mummified baboon from Gabbanat el-Qurud and 14 museum specimens with known provenance together with published georeferenced mitochondrial sequence data. Phylogenetic assignment connects the mummified baboon to modern populations of in Eritrea, Ethiopia, and eastern Sudan. This result, assuming geographical stability of phylogenetic clades, corroborates Greco-Roman historiographies by pointing toward present-day Eritrea, and by extension Adulis, as a source of baboons for Late Period Egyptians. It also establishes geographic continuity with baboons from the fabled Land of Punt (Dominy et al., 2020), giving weight to speculation that Punt and Adulis were essentially the same trading centres separated by a thousand years of history.
Topics: Humans; Animals; Papio; Phylogeny; Africa; Egypt; Geography
PubMed: 37767965
DOI: 10.7554/eLife.87513 -
Blockchain in Healthcare Today 2023The convergence of Digital Twin technologies with precision health, the pharmaceutical industry, and life sciences has garnered substantial recent attention. As we... (Review)
Review
The convergence of Digital Twin technologies with precision health, the pharmaceutical industry, and life sciences has garnered substantial recent attention. As we advance toward personalized medicine and precision health, the fusion of Digital Twin and blockchain technologies is poised to enhance healthcare outcomes fundamentally. This conference discussion highlighted pivotal drivers accelerating the adoption of Digital Twin-enabled blockchain solutions, encompassing the shift to a decentralized World Wide Web (Web 3.0), the establishment of a global interconnected health ecosystem, and the distinct advantages offered by converging frontier technologies in optimizing healthcare, pharmaceutical industry, and life sciences. Yet, the effective deployment of blockchain-powered Digital Twins in precision health necessitates robust cyber safety measures, proactive ethical frameworks, data validation, provenance assurance, streamlined supply chain management, and heightened interoperability. These proceedings underscored blockchain-powered Digital Twins' pivotal role in reshaping health data management, security, sharing, ownership, and monetization and in revolutionizing pharmaceutical supply chain management and novel drugs and therapeutics development within the precision health domain.
PubMed: 38187956
DOI: 10.30953/bhty.v6.281 -
Life (Basel, Switzerland) Oct 2023Reduced-oxidation-state phosphorus (reduced P, hereafter) compounds were likely available on the early Earth via meteorites or through various geologic processes. Due to...
Reduced-oxidation-state phosphorus (reduced P, hereafter) compounds were likely available on the early Earth via meteorites or through various geologic processes. Due to their reactivity and high solubility, these compounds could have played a significant role in the origin of various organophosphorus compounds of biochemical significance. In the present work, we study the reactions between reduced P compounds and their oxidation products, with the three nucleosides (uridine, adenosine, and cytidine), with organic alcohols (glycerol and ethanolamine), and with the tertiary ammonium organic compound, choline chloride. These reactions were studied in the non-aqueous solvent formamide and in a semi-aqueous solvent comprised of urea: ammonium formate: water (UAFW, hereafter) at temperatures of 55-68 °C. The inorganic P compounds generated through Fenton chemistry readily dissolve in the non-aqueous and semi-aqueous solvents and react with organics to form organophosphites and organophosphates, including those which are identified as phosphate diesters. This dual approach (1) use of non-aqueous and semi-aqueous solvents and (2) use of a reactive inorganic P source to promote phosphorylation and phosphonylation reactions of organics readily promoted anhydrous chemistry and condensation reactions, without requiring any additive, catalyst, or other promoting agent under mild heating conditions. We also present a comparative study of the release of P from various prebiotically relevant phosphate minerals and phosphite salts (e.g., vivianite, apatite, and phosphites of iron and calcium) into formamide and UAFW. These results have direct implications for the origin of biological P compounds from non-aqueous solvents of prebiotic provenance.
PubMed: 38004274
DOI: 10.3390/life13112134 -
PloS One 2023Since prehistoric times, the island of Sardinia-in the western Mediterranean-has played a leading role in the dynamics of human population and mobility, in the...
Since prehistoric times, the island of Sardinia-in the western Mediterranean-has played a leading role in the dynamics of human population and mobility, in the circulation of raw materials and artefacts, idioms and customs, of technologies and ideas that have enriched the biological, linguistic and cultural heritage of local groups. For the Phoenician and Punic periods (from the 9th to the 3rd centuries BCE), the ancient site of Nora-in southern Sardinia-represents an emblematic case in the study of migratory phenomena that occurred on the Island from the Iron Age until the Roman conquest. Despite the importance of exploring (and characterising) such movements from a wider bio-cultural perspective, the application of bio-geochemical tools for geographical provenance to the ancient skeletal populations of Sardinia is yet scarce. The present work is the first step towards filling this gap with the development of the first isoscape of southern Sardinia using new bioavailable Sr isotope data and a machine-learning approach. From a geolithological point of view, Sardinia is rather heterogeneous and requires detailed studies to correctly assess the distribution of the isotopic signature of bioavailable Sr. The random forest model employed here to construct the Sr isoscape uses several external environmental and geological variables. The most important predictors are related to age and bedrock type, with additional input from local soil properties. A 10-fold cross-validation gives a mean square error of 0.0008 and an R-squared of 0.81, so the model correctly predicts the 87Sr/86Sr ratio of unknown areas. By using a Bayesian provenance assignment workflow, we tested the isoscape here produced to determine the geographic origin and the mobility of archaeological and modern fauna collected from the Phoenician-Punic site of Nora and the surrounding Pula Plain. Our results indicate that archaeological sheep and goats (87Sr/86Sr < 0.7090) are compatible with areas close to Nora and Pula Plain, in agreement with archaeological evidence of pastoralism in those areas. Modern wild and domesticated fauna (87Sr/86Sr > 0.7090) show compatibility with several natural and anthropogenic locations in southern Sardinia, as expected based on modern species distribution data. Finally, we discuss the large Sr isotopic variability of the Nora baseline, where human mobility studies of human cremated and inhumed individuals are currently underway.
Topics: Humans; Animals; Sheep; Strontium Isotopes; Bayes Theorem; Italy; Machine Learning
PubMed: 37467179
DOI: 10.1371/journal.pone.0287787 -
Analytical and Bioanalytical Chemistry Sep 2023Confocal micro X-ray fluorescence (CMXRF) spectroscopy is a non-destructive, depth-resolved, and element-specific technique that is used to analyze the elemental... (Review)
Review
Confocal micro X-ray fluorescence (CMXRF) spectroscopy is a non-destructive, depth-resolved, and element-specific technique that is used to analyze the elemental composition of a sample. For this, a focused beam of mono- or polychromatic X-rays is applied to excite the atoms in the sample, causing them to emit fluorescence radiation which is detected with focusing capillary optics. The confocal design of the instrument allows for depth-resolved analysis, in most cases with a resolution in the lower micrometer dimension after collecting X-rays from a predefined volume within the sample. The element-specific nature of the technique allows information to be obtained about the presence and concentration of specific elements in this volume. This makes CMXRF spectroscopy a valuable tool for a wide range of applications, especially when samples with an inhomogeneous distribution of elements and a relatively light matrix have to be analyzed, which are typical examples in materials science, geology, and biology. The technique is also commonly used in the art and archaeology fields to analyze the elemental composition of historical artifacts and works of art, helping to provide valuable insights into their provenance, composition, and making. Recent technical developments to increase sensitivity and efforts to improve quantification in three-dimensional samples will encourage wider use of this method across a multitude of fields of application in the near future. Confocal micro X-ray fluorescence (CMXRF) is based on the confocal overlap of two polycapillary lens foci, creating a depth-sensitive and non-destructive probing volume. Three-dimensional resolved element distribution images can be obtained by measuring the fluorescence intensity as function of the three-dimensional position.
PubMed: 37482571
DOI: 10.1007/s00216-023-04829-x -
Environmental Management Nov 2023Deciding whether to plant native or non-native trees in public urban green spaces is becoming complex and conflicted, and decisions purely based on biotic nativeness are...
Deciding whether to plant native or non-native trees in public urban green spaces is becoming complex and conflicted, and decisions purely based on biotic nativeness are likely to be hamstrung as climate change and rising urban heat push many native species beyond their natural ranges. Importantly, tree selection considerations by urban planners and environmental managers will have to move beyond a primary focus on securing conservation and ecological outcomes, to elucidate and engage with a growing interest in the socio-cultural values and services of urban trees. Building on emerging theoretical perspectives, this place-based study explores the role that perceptions of nativeness have in shaping people's relationships with native and non-native urban trees and landscapes in an Australian city. Nativeness was associated with a range of subjective meanings including cultural identity, political expression, nature connection, desirable and undesirable traits, and environmental and cultural compatibility. Our findings emphasise that the ways in which urban trees and green spaces are valued and experienced is likely mediated by people's perceptions of nativeness and its importance relative to other attributes. To provision and sustain green spaces that meet the diverse needs and preferences of urban publics, planners and managers need to elucidate and incorporate the nuanced, place-based and multifaceted subjective meanings of nativeness into urban greening decision-making and practice.
Topics: Humans; Trees; Australia; Cities; Parks, Recreational
PubMed: 37452854
DOI: 10.1007/s00267-023-01856-3 -
Frontiers in Neuroinformatics 2023Despite the efforts of the neuroscience community, there are many published neuroimaging studies with data that are still not or . Users face significant challenges in...
BACKGROUND
Despite the efforts of the neuroscience community, there are many published neuroimaging studies with data that are still not or . Users face significant challenges in neuroimaging data due to the lack of provenance metadata, such as experimental protocols, study instruments, and details about the study participants, which is also required for To implement the FAIR guidelines for neuroimaging data, we have developed an iterative ontology engineering process and used it to create the NeuroBridge ontology. The NeuroBridge ontology is a computable model of provenance terms to implement FAIR principles and together with an international effort to annotate full text articles with ontology terms, the ontology enables users to locate relevant neuroimaging datasets.
METHODS
Building on our previous work in metadata modeling, and in concert with an initial annotation of a representative corpus, we modeled diagnosis terms (e.g., schizophrenia, alcohol usage disorder), magnetic resonance imaging (MRI) scan types (T1-weighted, task-based, etc.), clinical symptom assessments (PANSS, AUDIT), and a variety of other assessments. We used the feedback of the annotation team to identify missing metadata terms, which were added to the NeuroBridge ontology, and we restructured the ontology to support both the final annotation of the corpus of neuroimaging articles by a second, independent set of annotators, as well as the functionalities of the NeuroBridge search portal for neuroimaging datasets.
RESULTS
The NeuroBridge ontology consists of 660 classes with 49 properties with 3,200 axioms. The ontology includes mappings to existing ontologies, enabling the NeuroBridge ontology to be interoperable with other domain specific terminological systems. Using the ontology, we annotated 186 neuroimaging full-text articles describing the participant types, scanning, clinical and cognitive assessments.
CONCLUSION
The NeuroBridge ontology is the first computable metadata model that represents the types of data available in recent neuroimaging studies in schizophrenia and substance use disorders research; it can be extended to include more granular terms as needed. This metadata ontology is expected to form the computational foundation to help both investigators to make their data FAIR compliant and support users to conduct reproducible neuroimaging research.
PubMed: 37554248
DOI: 10.3389/fninf.2023.1216443 -
IScience Sep 2023Microbial communities reside at the interface between humans and their environment. Whether the microbiome can be leveraged to gain information on human interaction with...
Microbial communities reside at the interface between humans and their environment. Whether the microbiome can be leveraged to gain information on human interaction with museum objects is unclear. To investigate this, we selected objects from the Museum für Naturkunde and the Pergamonmuseum in Berlin, Germany, varying in material and size. Using swabs, we collected 126 samples from natural and cultural heritage objects, which were analyzed through 16S rRNA sequencing. By comparing the microbial composition of touched and untouched objects, we identified a microbial signature associated with human skin microbes. Applying this signature to cultural heritage objects, we identified areas with varying degrees of exposure to human contact on the Ishtar gate and Sam'al gate lions. Furthermore, we differentiated objects touched by two different individuals. Our findings demonstrate that the microbiome of museum objects provides insights into the level of human contact, crucial for conservation, heritage science, and potentially provenance research.
PubMed: 37664629
DOI: 10.1016/j.isci.2023.107578 -
Journal of Pathology Informatics 2023A system for analysis of histopathology data within a pharmaceutical R&D environment has been developed with the intention of enabling interdisciplinary collaboration....
A system for analysis of histopathology data within a pharmaceutical R&D environment has been developed with the intention of enabling interdisciplinary collaboration. State-of-the-art AI tools have been deployed as easy-to-use self-service modules within an open-source whole slide image viewing platform, so that non-data scientist users (e.g., clinicians) can utilize and evaluate pre-trained algorithms and retrieve quantitative results. The outputs of analysis are automatically cataloged in the database to track data provenance and can be viewed interactively on the slide as annotations or heatmaps. Commonly used models for analysis of whole slide images including segmentation, extraction of hand-engineered features for segmented regions, and slide-level classification using multi-instance learning are included and new models can be added as needed. The source code that supports running inference with these models internally is backed up by a robust CI/CD pipeline to ensure model versioning, robust testing, and seamless deployment of the latest models. Examples of the use of this system in a pharmaceutical development workflow include glomeruli segmentation, enumeration of podocyte count from WT-1 immuno-histochemistry, measurement of beta-1 integrin target engagement from immunofluorescence, digital glomerular phenotyping from periodic acid-Schiff histology, PD-L1 score prediction using multi-instance learning, and the deployment of the open-source Segment Anything model to speed up annotation.
PubMed: 37860714
DOI: 10.1016/j.jpi.2023.100337