Catalogue Of Features Research Articles

Extracting regulatory active chromatin footprint from cell-free DNA

Cell-free DNA (cfDNA) has emerged as a pivotal player in precision medicine, revolutionizing the diagnostic and therapeutic landscape. While its clinical applications have significantly increased in recent years, current cfDNA assays have limited ability to identify the active transcriptional programs that govern complex disease phenotypes and capture the heterogeneity of the disease. To address these limitations, we have developed a non-invasive platform to enrich and examine the active chromatin fragments (cfDNAac) in peripheral blood. The deconvolution of the cfDNAac signal from traditional nucleosomal chromatin fragments (cfDNAnuc) yields a catalog of features linking these circulating chromatin signals in blood to specific regulatory elements across the genome, including enhancers, promoters, and highly transcribed genes, mirroring the epigenetic data from the ENCODE project. Notably, these cfDNAac counts correlate strongly with RNA polymerase II activity and exhibit distinct expression patterns for known circadian genes. Additionally, cfDNAac signals across gene bodies and promoters show strong correlations with whole blood gene expression levels defined by GTEx. This study illustrates the utility of cfDNAac analysis for investigating epigenomics and gene expression, underscoring its potential for a wide range of clinical applications in precision medicine.

To what extent are ephippia of Mexican Anomopoda (Crustacea, Cladocera) identifiable?

Diapausing embryos encased within cladoceran ephippia result from sexual reproduction and increase genetic diversity. They are also important means by which species bypass harsh environmental conditions and disperse in space and time. Once released, ephippia usually sink to the benthos and remain there until hatching. Using the Sars' method (incubating sediments to identify cladoceran hatchlings), ephippial egg bank biodiversity can be evaluated. Yet, even when samples are incubated under a variety of conditions, it is not possible to warrant that all have hatched. Few keys are available that facilitate the identification of cladocerans by using only ephippial morphology. Our goal was to analyze some cladoceran ephippia from Mexico, to develop a means to identify them using easily recognizable characteristics. Ephippia of 23 cladoceran species from waters in Aguascalientes (México) in 11 genera (Alona, Biapertura, Ceriodaphnia, Chydorus, Daphnia, Dunhevedia, Ilyocryptus, Macrothrix, Moina, Pleuroxus, and Simocephalus) were analyzed. In our analysis six morphological features were selected that permitted the identification of ephippia to species(-group) level. The results demonstrate that with a proper catalog of features, some ephippia can be identified.

The usefulness of mobile applications in shaping responsible consumption

Abstract The main purpose of the article is to present a catalog of features of a useful mobile application in the context of responsible consumption. To recognize the usefulness of the application, examples of eco-applications were used, and representatives of the Z generation were asked about the features of the optimal application reasons for using them, and for whether they are worth recommending. The article uses the analysis of domestic and foreign literature, as well as the results of own research carried out in the first quarter of 2023, in which 747 respondents participated. The hypotheses confirmed that the most important feature of a useful application from a functionality perspective is the lack of fees for its use; from a technical solutions perspective, speed of operation, and from a security perspective, payment protection. The hypothesis that more promoters of pro-environmental mobile applications are in the group of women was also positively verified.

The Revised Kyoto Criteria and Risk of Malignancy Among Patients With Intraductal Papillary Mucinous Neoplasms

Background & AimsThe revised Kyoto guidelines have a new catalog of high-risk stigmata and worrisome features for the risk stratification of intraductal papillary mucinous neoplasms (IPMNs). We aimed to validate the stratification system in terms of short- and long-term risks of pancreatic carcinoma. MethodsWe included 3,336 patients diagnosed with IPMNs in 2000-2021 and examined short-term (≤ 6 months) and long-term risks of pancreatic carcinoma diagnosis. We used the multivariable competing-risks proportional hazards regression model to calculate subdistribution hazard ratios for long-term incidence of pancreatic carcinoma with adjustment for potential confounders. ResultsIn short-term analyses, pancreatic carcinomas were prevalent predominantly in IPMNs with high-risk stigmata (49% vs. 1.3% and 0.05% in IPMNs with worrisome features and no risk factors, respectively). In long-term analyses of worrisome features, the main pancreatic duct diameter of 5-9.9 mm, acute pancreatitis, and IPMN growth rate of 2.5 mm/year were associated with a high incidence with multivariable subdistribution hazard ratios (95% confidence intervals) of 3.46 (2.04-5.89), 5.65 (1.86-17.2), and 3.83 (2.14-6.86), respectively. An increasing number of worrisome features at baseline was associated with a higher prevalence and incidence of pancreatic carcinoma (Ptrend < .001). Patients with 1, 2, and 3-4 worrisome features had multivariable subdistribution hazard ratios (95% confidence intervals) for pancreatic cancer incidence of 1.43 (0.93-2.19), 2.17 (1.17-4.05), and 10.1 (4.20-24.5), respectively (vs. no positive feature). ConclusionsThe revised Kyoto criteria stratify IPMN patients well in terms of the short- and long-term risks of pancreatic carcinoma diagnosis, potentially informing personalized patient management.

Identification of genetic markers of resistance to macrolide class antibiotics in Mannheimia haemolytica isolates from a Saskatchewan feedlot.

Mannheimia haemolytica is a major contributor to bovine respiratory disease (BRD), which causes substantial economic losses to the beef industry, and there is an urgent need for rapid and accurate diagnostic tests to provide evidence for treatment decisions and support antimicrobial stewardship. Diagnostic sequencing can provide information about antimicrobial resistance genes in M. haemolytica more rapidly than conventional diagnostics. Realizing the full potential of diagnostic sequencing requires a comprehensive understanding of the genetic markers of antimicrobial resistance. We identified genetic markers of resistance in M. haemolytica to macrolide class antibiotics commonly used for control of BRD. Genome sequences were determined for 99 M. haemolytica isolates with six different susceptibility phenotypes collected over 2 years from a feedlot in Saskatchewan, Canada. Known macrolide resistance genes estT, msr(E), and mph(E) were identified in most resistant isolates within predicted integrative and conjugative elements (ICEs). ICE sequences lacking antibiotic resistance genes were detected in 10 of 47 susceptible isolates. No resistance-associated polymorphisms were detected in ribosomal RNA genes, although previously unreported mutations in the L22 and L23 ribosomal proteins were identified in 12 and 27 resistant isolates, respectively. Pangenome analysis led to the identification of 79 genes associated with resistance to gamithromycin, of which 95% (75 of 79) had no functional annotation. Most of the observed phenotypic resistance was explained by previously identified antibiotic resistance genes, although resistance to the macrolides gamithromycin and tulathromycin was not explained in 39 of 47 isolates, demonstrating the need for continued surveillance for novel determinants of macrolide resistance.IMPORTANCEBovine respiratory disease is the costliest disease of beef cattle in North America and the most common reason for injectable antibiotic use in beef cattle. Metagenomic sequencing offers the potential to make economically significant reductions in turnaround time for diagnostic information for evidence-based selection of antibiotics for use in the feedlot. The success of diagnostic sequencing depends on a comprehensive catalog of antimicrobial resistance genes and other genome features associated with reduced susceptibility. We analyzed the genome sequences of isolates of Mannheimia haemolytica, a major bovine respiratory disease pathogen, and identified both previously known and novel genes associated with reduced susceptibility to macrolide class antimicrobials. These findings reinforce the need for ongoing surveillance for markers of antimicrobial resistance to support improved diagnostics and antimicrobial stewardship.

High-resolution, Mid-infrared Color Temperature Mapping of the Central 10″ of the Galaxy

The neighborhood of the Galactic black hole boasts a plethora of extended interstellar gas and dust features, as well as populations of compact (unresolved or marginally resolved) features such as the G objects. Most are well manifested in the infrared. To disentangle and characterize the infrared structure of the extended features and identify compact sources, we used 3.8 μm (L′ filter) data from the NIRC2 imager at the Keck Observatory and 8.6 μm (PAH1 filter) data from the VISIR imager at the Very Large Telescope to produce the highest-resolution mid-IR color temperature map of the inner half-parsec of the Galactic center to date. From this map, we compile a catalog of features that stand out from their background. In particular, we identify 33 compact sources that stand out against the local background temperature, 11 of which are newly identified and candidates for being members of the G object population. Additionally, we resolve and newly characterize the morphology of several known extended features. These results prepare the way for ongoing and future JWST studies that have access to a greater range of mid-infrared wavelengths and thus will allow for refined estimation of the trends of dust temperatures.

The gas morphology of nearby star-forming galaxies

A galaxy’s morphology stems from the secular and environmental processes taking place over the course of its evolutionary history. Thus, it has consistently served as an important tool for gaining insights into galaxy evolution. In this work, we visually classified morphologies on cloud-scales based on the molecular gas distribution of a large sample of 79 nearby main sequence galaxies, using 1″ resolution CO(2–1) ALMA observations taken as part of the PHANGS survey. For this purpose, we devised a morphology classification scheme for different types of bars, spiral arms (grand-design, flocculent, multi-arm and smooth), and rings (central and non-central rings) that are similar to the well established optical ones. Furthermore, we introduced bar lane classes. In general, our cold gas-based morphologies is in good agreement with the ones based on stellar light. Both of our bars, as well as the grand-design spiral arms, are preferentially found at the higher mass end of our sample. Our gas-based classification indicates a potential for a misidentification of unbarred galaxies in the optical when massive star formation is present. Central or nuclear rings are present in a third of the sample, with a strong preference seen for barred galaxies (59%). As stellar bars are present in 45 ± 5% of our sample galaxies, we explore the utility of molecular gas as tracer of bar lane properties. We find that more curved bar lanes have a shorter radial extent in molecular gas and reside in galaxies with lower molecular to stellar mass ratios than those with straighter geometries. Galaxies display a wide range of CO morphologies and this work is aimed at providing a catalogue of morphological features in a representative sample of nearby galaxies.

Learning by Playing. A Case Study of the Education in Photography by Digital Games

Aim. The study aims to explore the current state of digital game-based learning to reflect the extent, possibilities, opportunities, and limitations of its implementation in the specific field of education as visual art, especially photography. Method. The explorative study employed the method of theoretical analysis of available literature and other secondary sources related to the issue, and subsequently applied the method of an illustrative (descriptive) case study. Results. Photo modes of commercially available digital games, originally intended to increase the players’ retention and participation, have led to the birth of a new art form, virtual photography. The technology of photo modes in a larger variety of recent games has made virtual photography available to significantly more players. Photo modes provide artistic control and creative options alongside a whole catalogue of lenses, camera parameters, and other features, reducing the financial burden associated with the purchase of photographic equipment. Furthermore, photo modes offer more than just a substitutable alternative to traditional photography, as added artistic value is found within virtual worlds. Conclusions. Despite some limitations regarding the overall implementation of digital game-based learning in photography classrooms, photo modes of commercially available digital games are a suitable tool for educational efforts in photography through both self-development and measurement of outcome-based learning.

A Linked Open Data–Based Terminology to Describe Libre/Free and Open-source Software: Incremental Development Study

There is a variety of libre/free and open-source software (LIFOSS) products for medicine and health care. To support health care and IT professionals select an appropriate software product for given tasks, several comparison studies and web platforms, such as Medfloss.org, are available. However, due to the lack of a uniform terminology for health informatics, ambiguous or imprecise terms are used to describe the functionalities of LIFOSS. This makes comparisons of LIFOSS difficult and may lead to inappropriate software selection decisions. Using Linked Open Data (LOD) promises to address these challenges. We describe LIFOSS systematically with the help of the underlying Health Information Technology Ontology (HITO). We publish HITO and HITO-based software product descriptions using LOD to obtain the following benefits: (1) linking and reusing existing terminologies and (2) using Semantic Web tools for viewing and querying the LIFOSS data on the World Wide Web. HITO was incrementally developed and implemented. First, classes for the description of software products in health IT evaluation studies were identified. Second, requirements for describing LIFOSS were elicited by interviewing domain experts. Third, to describe domain-specific functionalities of software products, existing catalogues of features and enterprise functions were analyzed and integrated into the HITO knowledge base. As a proof of concept, HITO was used to describe 25 LIFOSS products. HITO provides a defined set of classes and their relationships to describe LIFOSS in medicine and health care. With the help of linked or integrated catalogues for languages, programming languages, licenses, features, and enterprise functions, the functionalities of LIFOSS can be precisely described and compared. We publish HITO and the LIFOSS descriptions as LOD; they can be queried and viewed using different Semantic Web tools, such as Resource Description Framework (RDF) browsers, SPARQL Protocol and RDF Query Language (SPARQL) queries, and faceted searches. The advantages of providing HITO as LOD are demonstrated by practical examples. HITO is a building block to achieving unambiguous communication among health IT professionals and researchers. Providing LIFOSS product information as LOD enables barrier-free and easy access to data that are often hidden in user manuals of software products or are not available at all. Efforts to establish a unique terminology of medical and health informatics should be further supported and continued.

Social group work and its training within the academic course on methods of social work. Theory, praxis, challenges

Social work with a group, as one of three classic methods of social work, is being taught in the course of academic studies in the “Social work” BA programme. In comparison to the other two social work methods (social work with an individual case and community social work), the social group method seems to be least recognized in training and praxis of social work in Poland. The aim of the article is to systemize and to deepen the knowledge on the social work with a group. The first part of the text is dedicated to the review of chosen theoretical and methodological foundations of social work with a group. I refer to “the power of group” and the significance of the group process; I present a small group as a resource and as a tool of social work; I point to the diversity of groups used in the context of social work, and provide a catalogue of personal features, knowledge, skills and tasks of a professional social group worker. The second part of the article is based on my experience as a teacher of methods of social work at the Faculty of Economics and Sociology of the University of Łódź, Poland. I describe training in social work with a group as a shared group experience. In the end I reflect on the influence of Covid-19 pandemic on changes in teaching group work and the group work itself in the light of “work online”.

A critical assessment of English dialect feature catalogues: Towards a dialectometrical evaluation of the English Dialect Dictionary Online

Scholars have traditionally described dialects in a selective way by identifying individual, supposedly characteristic, features in a certain area. However, modern dialectology ambitiously claims to depict dialectal areas holistically by simultaneously attributing a large number of important features to geographical space and measuring the difference between dialectal areas. In the face of this quantifying challenge, which some scholars refer to as ‘dialectometry,’ the question of how these features can be defined and found has arisen within the last few decades. This overview article presents a detailed state of the art, drawing on traditional dialectology as well as variationist and recent ‘dialectometrical’ approaches. The question of dialect feature retrieval is answered with the help of the English Dialect Dictionary Online, which is based on Joseph Wright’s English Dialect Dictionary (1898–1905) and has been generally accessible since 2019. The paper is an empirical demonstration of how dialectology could benefit from a new tool and from resultant methods of analysis.

An Advanced Open Land Use Database as a Resource to Address Destination Earth Challenges

Land-use and land-cover (LULC) themes are important for many domains, especially when they process environmental and socio-economic phenomena. The evolution of a land-use database called Open Land Use (OLU) started in 2013 and was continued by adapting many user requirements. The goal of this study was to design a new version of the OLU database that would better fit the gathered user requirements collected by projects using LULC data. A formal definition of the developed data model through Unified Modeling Language (UML) class diagrams, a feature catalogue based on ISO 19110 and SQL scripts for setting up the OLU database, are the key achievements of the presented paper. The presented research provides a multi-scale open database of LULC information supporting the DestinE initiative to develop a very-high-precision digital model of the earth. The novel spatio-temporal thematic approach also lies in modular views of the OLU database.

Bayesian-EUCLID: Discovering hyperelastic material laws with uncertainties

Within the scope of our recent approach for Efficient Unsupervised Constitutive Law Identification and Discovery (EUCLID), we propose an unsupervised Bayesian learning framework for discovery of parsimonious and interpretable constitutive laws with quantifiable uncertainties. As in deterministic EUCLID, we do not resort to stress data, but only to realistically measurable full-field displacement and global reaction force data; as opposed to calibration of an a priori assumed model, we start with a constitutive model ansatz based on a large catalog of candidate functional features; we leverage domain knowledge by including features based on existing, both physics-based and phenomenological, constitutive models. In the new Bayesian-EUCLID approach, we use a hierarchical Bayesian model with sparsity-promoting priors and Monte Carlo sampling to efficiently solve the parsimonious model selection task and discover physically consistent constitutive equations in the form of multivariate multi-modal probabilistic distributions. We demonstrate and validate the ability to accurately and efficiently recover isotropic and anisotropic hyperelastic models like the Neo-Hookean, Isihara, Gent–Thomas, Arruda–Boyce, Ogden, and Holzapfel models in both elastostatics and elastodynamics. The discovered constitutive models are reliable under both epistemic uncertainties — i.e. uncertainties on the true features of the constitutive catalog – and aleatoric uncertainties – which arise from the noise in the displacement field data, and are automatically estimated by the hierarchical Bayesian model.

Autonomous Navigation Performance Using Natural Feature Tracking during the OSIRIS-REx Touch-and-Go Sample Collection Event

When the Origins, Spectral Interpretation, Resource Identification, and Security–Regolith Explorer (OSIRIS-REx) spacecraft collected a sample of surface material from asteroid Bennu in 2020 October, it was the first time that an autonomous optical navigation system relying on natural terrain features had been used to guide a spacecraft to a planetary surface. This system, called Natural Feature Tracking (NFT), works by rendering features from digital terrain models and then correlating them with the terrain in real-time navigation images to estimate the spacecraft's position and velocity with respect to the asteroid. Here we describe how the OSIRIS-REx mission built the catalog of features for NFT and how those features performed during rehearsals for and execution of the Touch-and-Go (TAG) sample collection event. Feature performance (quality and accuracy of match) in the rendering and correlation process is the basis of the NFT measurement. All features scored well above the minimum correlation threshold thanks to the effort invested in selecting and modeling them. Residuals across the TAG trajectory were small, indicating that features in the catalog were defined consistently relative to each other. NFT delivered the spacecraft to within 1 m of the targeted location, with a difference of only 3.5 cm and 1.4 s from the predicted location and time of touch. This exceptional performance was crucial for spacecraft safety given Bennu's rough and hazardous terrain.

Markerless monocular vision-based localisation for autonomous inspection drones

This paper presents a markerless vision-based localisation algorithm to enable an autonomous inspection drone to determine its pose relative to a known inspection target. During an offline mapping phase, a 3D catalogue of the inspection target's persistent image features is created and stored. A neural network is trained on regions of interest of the images for fast segmentation. During the online localisation phase, the images are first segmented and the detected features in the segmented areas are matched with the stored features in the target's 3D catalogue. A pose estimation algorithm is applied to the matched features to determine the pose of the drone relative to the target. Practical experiments show promising results with small position and attitude errors.

DEVELOPMENT OF METHODOLOGICAL BASE FOR STATE TESTING OF POTATO VARIETIES (SOLANUM TUBEROSUM L.) FOR DISTINCTNESS, HOMOGENEITY AND STABILITY IN THE REPUBLIC OF BELARUS

The work analyzes the development of the state testing of potato varieties Solanum tuberosum L. for distinctness, homogeneity and stability (hereinafter – DHS) in the Republic of Belarus. In order to optimize the organization of state testing of potato varieties&#x0D; for DHS, two patent examination stations were created at SAO «Molodechno Variety Testing Station» and SAO «Gorki Variety Testing Station»; two national testing methods for DHS, developed on the basis of UPOV guidelines, were systematically introduced into practice; national reference varieties were introduced; to ensure the correct definition of DHS criteria, a photo catalogue of the main identification features of potatoes and a national reference collection of well-known varieties have been created.

The INSPIRE harmonisation: the Geological Map of Italy at 1:100,000 scale

Abstract. The INSPIRE Directive institute a European infrastructure for spatial information to support the environmental policies of the European Union. In the mainframe of the Directive, 34 different themes that represents different environmental information has been identified. One of this is the Geology theme; it is split into three subthemes and represent a "reference data theme” because it provides basic knowledge on the physical properties and composition of rocks and sediments, their structure and their age as represented in geological maps, as well as geomorphological features.In the feature catalogue of the INSPIRE application schema Geology has been defined the term lists for the information types. Some of these are fully compliant with the features defined in the 1:100.000 scale geological map database and are used in the semantic harmonization procedure.

Influence of geometry acquisition method on pedestrian wind simulations

The construction of a building inevitably changes the microclimate in its vicinity. Many city authorities request comprehensive wind studies before granting a building permit, which can be obtained by Computational Fluid Dynamics (CFD) simulations. When performing wind simulations, the quality of the geometry model is essential. Still, no available studies examine different geometry inputs' impact on the wind flow through an urban environment. This study investigates the influence of the building geometry acquisition method on the simulated wind field in an urban area, focusing on the application of pedestrian wind comfort. A suburban area in the west coast of Norway was chosen as a case study. Four building model types were produced and used in the simulations for comparison. The simulations using a building model produced from data stored in the national general feature catalog (FKB) in Norway showed minor differences to the simulations using more detailed and accurate models based on remote sensing measurements. Prominent variations were seen using a model based on the extrusion of the building footprint. A greater understanding of the geometry acquisition method's influence may enable more efficient pedestrian wind comfort studies that recognize the uncertainty of different geometric model use in urban wind simulations.

Быстрый алгоритм идентификации кадра звездного датчика по звездным конфигурациям, не требующий перебора. Вариант бортовой реализации

The paper presents a method for identifying the frame of a star sensor (SS), based on determination of the star local features allowing its unique recognition. The star identifiers are located in a multidimensional integer feature space, and the relevant feature catalog presents a disperse array, which provides search-free star determination. Examples of onboard implementation of feature catalog are presented, containing the stars up to magnitude of six. The required memory is estimated, and a method is proposed for compressing the feature catalog to be recorded in the onboard computer memory. The frame identification algorithm using the reduced feature catalog is described in detail. The algorithm was tested on real sky frames.

Characterising filaments in the SDSS volume from the galaxy distribution

Detecting the large-scale structure of the Universe based on the galaxy distribution and characterising its components is of fundamental importance in astrophysics but is also a difficult task to achieve. Wide-area spectroscopic redshift surveys are required to accurately measure galaxy positions in space that also need to cover large areas of the sky. It is also difficult to create algorithms that can extract cosmic web structures (e.g. filaments). Moreover, these detections will be affected by systematic uncertainties that stem from the characteristics of the survey used (e.g. its completeness and coverage) and from the unique properties of the specific method adopted to detect the cosmic web (i.e. the assumptions it relies on and the free parameters it may employ). For these reasons, the creation of new catalogues of cosmic web features on wide sky areas is important, as this allows users to have at their disposal a well-understood sample of structures whose systematic uncertainties have been thoroughly investigated. In this paper we present the filament catalogues created using the discrete persistent structure extractor tool in the Sloan Digital Sky Survey (SDSS), and we fully characterise them in terms of their dependence on the choice of parameters pertaining to the algorithm, and with respect to several systematic issues that may arise in the skeleton as a result of the properties of the galaxy distribution (such as Finger-of-God redshift distortions and defects of the density field that are due to the boundaries of the survey).