cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Additional file 7: Figure S4. of PGAP-X: extension on pan-genome analysis pipeline
Creators: name: Zhao, Yongbing
name: Sun, Chen
name: Zhao, Dongyu
name: Zhang, Yadong
name: You, Yang
name: Jia, Xinmiao
name: Yang, Junhui
name: Wang, Lingping
name: Wang, Jinyue
name: Fu, Haohuan
name: Kang, Yu
name: Chen, Fei
name: Yu, Jun
name: Wu, Jiayan
name: Xiao, Jingfa
Publisher: name: figshare
Year: 2018
Subjects: subject: Medicine
subject: Genetics
subject: FOS: Biological sciences
subject: Evolutionary Biology
subject: Sociology
subject: FOS: Sociology
subject: Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Marine Biology
subject: Infectious Diseases
subject: FOS: Health sciences

description: Example for distinguishing paralogs by their location on the genome. (DOCX 1836Â kb)
The Effect of Realistic Mathematic Education.pdf
Creators: name: Riyan HIdayat
Publisher: name: figshare
Year: 2017
Subjects: Education

description: Abstract A number of national and international scale surveys showed that the mathematics achievements of Indonesian secondary school students were in the lower level. One of the indicators of this low achievement was the insufficient level of understanding of mathematical concepts of the students. Understanding of mathematical concepts could be integrated through Realistic Mathematics Education (RME). Therefore, the quasi-experimental study was conducted to examine the effectiveness of Realistic Mathematical Education towards the conceptual understanding of linear programming. The study also investigated the relationship between conceptual understanding and mathematics achievement and investigated the misconceptions on linear programming. This study involved 65 students of Madrasah Aliyah Negeri 1 Pekanbaru, Indonesia. Test conceptual understanding programming topics had Cronbach’s alpha reliability of 0.80. The data were collected by using a test question conceptual understanding of linear programming. Quantitative data analysis involved a descriptive and inferential analysis using SPSS 21.0. The descriptive analysis included the percentage, mean and standard deviation while inferential analysis involving independent t-test and Pearson correlation analysis. The results revealed that there were significant differences between the treatment and control groups toward conceptual understanding. There was a significant relationship between conceptual understanding and mathematics achievement of linear programming. Misconception toward linear programming for the treatment group was lower than the control group. The implications of this study were useful for educators to help their students to understand concept of mathematics through open and contextual questions so that the students though through the mathematics, not worked in the mathematics.
SWAP algorithm for lattice spin models
Creators: name: Alfaro-Miranda, Greivin
name: Cugliandolo, Leticia F.
name: Tarzia, Marco
Publisher: name: arXiv
Year: 2024
Subjects: subject: Statistical Mechanics (cond-mat.stat-mech)
subject: Disordered Systems and Neural Networks (cond-mat.dis-nn)
subject: Computational Physics (physics.comp-ph)
subject: FOS: Physical sciences

description: We adapted the SWAP molecular dynamics algorithm for use in lattice Ising spin models. We dressed the spins with a randomly distributed length and we alternated long-range spin exchanges with conventional single spin flip Monte Carlo updates, both accepted with a stochastic rule which respects detailed balance. We show that this algorithm, when applied to the bidimensional Edwards-Anderson model, speeds up significantly the relaxation at low temperatures and manages to find ground states with high efficiency and little computational cost. The exploration of spin models should help in understanding why SWAP accelerates the evolution of particle systems and shed light on relations between dynamics and free-energy landscapes.
Cultural awareness for veterinarians working with LatinX livestock caretakers
Creators: name: Noami Román-Muñiz, Ivette
Publisher: name: American Association of Bovine Practitioners  Conference Proceedings
Year: 2023
Subjects: communication
wellbeing
training
culture

description: Work done by Colorado State University researchers has high­lighted the human-animal bond that exists on dairy and other livestock operations, and the perceptions of animal caretakers regarding animal health and euthanasia decisions. There is a clear need for culturally responsive training to better prepare animal caretakers to make end-of-life decisions in a timely manner while reducing the emotional burden associated with euthanasia decision making. While veterinarians are well po­sitioned to provide leadership in health management and end-of-life decision-making processes, they are seldom involved in the creation and facilitation of training programs for livestock caretakers. Cultural differences that may limit effective com­munication and training can be overcome by engaging live­stock caretakers with approaches proven effective in both re­search and practice settings.
description: American Association of Bovine Practitioners Conference Proceedings, 2023 Recent Graduate Conference Proceedings
Application of meshless methods to manufacturing processes
Creators: name: Raymond, Samuel James
Publisher: name: Monash University
Year: 2017
Subjects: Uncategorized

description: Meshless methods represent an alternative way for engineers and scientist to solve partial differential equations. Typically these equations are the conservations of mass, momentum and energy in continuum mechanics. The applicability of meshless methods to manufacturing processes is presented in this work in order to determine the efficacy of meshless methods in a real world setting. A review of the current state of meshless methods in the literature is conducted to reveal the potential but limited applications of meshless methods in the manufacturing field. A comparison of meshless and mesh based results is used to benchmark the accuracy of meshless methods for a manufacturing process. These include severe plastic deformation for improving material properties and the formation of a composite metallic material. Novel applications to the simulation of damage during dynamic loading are also simulated to highlight the importance of combining factors in material failure. These processes are simulated using Smoothed Particle Hydrodynamics (SPH) and the Material Point Method (MPM). Results show that these meshless methods are a viable and effective tool for simulating manufacturing processes and can exhibit advantages to the mesh based methods currently in use.
Additional file 1: of InfAcrOnt: calculating cross-ontology term similarities using information flow by a random walk
Creators: name: Cheng, Liang
name: Jiang, Yue
name: Ju, Hong
name: Sun, Jie
name: Peng, Jiajie
name: Zhou, Meng
name: Hu, Yang
Publisher: name: figshare
Year: 2018
Subjects: Space Science
Cell Biology
Information Systems not elsewhere classified
Developmental Biology

description: Algorithm for measuring term similarities across ontologies. (PDF 193 kb)
Gravitational Magnus effect from scalar dark matter
Creators: name: Wang, Zipeng
name: Helfer, Thomas
name: Traykova, Dina
name: Clough, Katy
name: Berti, Emanuele
Publisher: name: arXiv
Year: 2024
Subjects: subject: General Relativity and Quantum Cosmology (gr-qc)
subject: High Energy Astrophysical Phenomena (astro-ph.HE)
subject: FOS: Physical sciences

description: In fluid dynamics, the Magnus effect is the force perpendicular to the motion of a spinning object as it moves through a medium. In general relativity, an analogous effect exists for a spinning compact object moving through matter, purely as a result of gravitational interactions. In this work we consider a Kerr black hole moving at relativistic velocities through scalar dark matter that is at rest. We simulate the system numerically and extract the total spin-curvature force on the black hole perpendicular to its motion. We confirm that the force scales linearly with the dimensionless spin parameter $a/M$ of the black hole up to $a/M = 0.99$, and measure its dependence on the speed $v$ of the black hole in the range $0.1 \le v \le 0.55$ for a fixed spin. Compared to previous analytic work applicable at small $v$, higher-order corrections in the velocity are found to be important: the total force is nonzero, and the dependence is not linear in $v$. We find that in all cases the total force is in the opposite direction to the hydrodynamical analogue, although at low speeds it appears to approach the expectation that the Weyl and Magnus components cancel. Spin-curvature effects may leave an imprint on gravitational wave signals from extreme mass-ratio inspirals, where the secondary black hole has a nonnegligible spin and moves in the presence of a dark matter cloud. We hope that our simulations can be used to support and extend the limits of analytic results, which are necessary to better quantify such effects in the relativistic regime.
description: 10 pages, 6 figures
Practical applications of genomics
Creators: name: Rowan, Troy
Publisher: name: American Association of Bovine Practitioners  Conference Proceedings
Year: 2023
Subjects: genomics
beef
selection
breeding

description: Genomic testing serves multiple functions for beef cattle popu­lations. Since their inception in the late 2000s, genomic tests have been critical tools for detecting mutations that cause genetic defects, parentage testing, and improving the quality of genetic predictions. Sire selection is one of the most conse­quential decisions that commercial operations make. This chal­lenge is compounded by the relatively low levels of information available on the unproven herd sires that commercial herds purchase. Selection tools in the form of Expected Progeny Dif­ferences (EPDs) allow commercial operations to reduce the risk involved in sire selection. EPDs isolate the genetic component of economically-relevant traits and increase selection accuracy. While parent average EPDs are more reliable than phenotypic selection, unproven sires can still experience significant EPD shifts as more information becomes available. Genomic testing enhances the EPDs for unproven and low-accuracy sires. These increases in accuracy are equivalent to approximately a calf crop’s worth of records in a genomic evaluation (from 10 to 30 phenotypes depending on the trait). Nearly all breed associa­tions calculate genomically-enhanced EPDs, making their use imperative for commercial operations. Beyond bull selection, opportunities exist for commercial producers to utilize genom­ics for heifer selection and marketing terminal animals.
description: American Association of Bovine Practitioners Conference Proceedings, 2023 Recent Graduate Conference Proceedings
Additional file 8: Figure S5. of PGAP-X: extension on pan-genome analysis pipeline
Creators: name: Zhao, Yongbing
name: Sun, Chen
name: Zhao, Dongyu
name: Zhang, Yadong
name: You, Yang
name: Jia, Xinmiao
name: Yang, Junhui
name: Wang, Lingping
name: Wang, Jinyue
name: Fu, Haohuan
name: Kang, Yu
name: Chen, Fei
name: Yu, Jun
name: Wu, Jiayan
name: Xiao, Jingfa
Publisher: name: figshare
Year: 2018
Subjects: subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Molecular Biology
subject: Evolutionary Biology
subject: Biological Sciences not elsewhere classified
subject: Information Systems not elsewhere classified
subject: Developmental Biology
subject: Marine Biology
subject: Infectious Diseases
subject: FOS: Health sciences
subject: Computational Biology

description: The location distribution of all genes by their conservation in 14Â S. pneumonia strains genomes and 14 C. trachomatis strains genomes. (DOCX 6111Â kb)
Injectable anesthesia for cattle field procedures
Creators: name: Lear, Andrea
Publisher: name: American Association of Bovine Practitioners  Conference Proceedings
Year: 2023
Subjects: anesthesia
sedation
field procedures

description: For ambulatory veterinary practitioners, the need to safely per­form field-based procedures is paramount. The purpose of this presentation is to discuss use of injectable anesthesia to aid in the veterinary practitioner’s ability to perform an array of tasks ranging from routine to invasive procedures. Multiple drug protocols will be outlined from the perspective of the author/ presenter and case-indications will be described.
description: American Association of Bovine Practitioners Conference Proceedings, 2023 Recent Graduate Conference Proceedings
Integrating ChatGPT into Secure Hospital Networks: A Case Study on Improving Radiology Report Analysis
Creators: name: Kim, Kyungsu
name: Park, Junhyun
name: Langarica, Saul
name: Alkhadrawi, Adham Mahmoud
name: Do, Synho
Publisher: name: arXiv
Year: 2024
Subjects: subject: Artificial Intelligence (cs.AI)
subject: Machine Learning (cs.LG)
subject: FOS: Computer and information sciences

description: This study demonstrates the first in-hospital adaptation of a cloud-based AI, similar to ChatGPT, into a secure model for analyzing radiology reports, prioritizing patient data privacy. By employing a unique sentence-level knowledge distillation method through contrastive learning, we achieve over 95% accuracy in detecting anomalies. The model also accurately flags uncertainties in its predictions, enhancing its reliability and interpretability for physicians with certainty indicators. These advancements represent significant progress in developing secure and efficient AI tools for healthcare, suggesting a promising future for in-hospital AI applications with minimal supervision.
Treatment and surgery for management of urolithiasis
Creators: name: Smith, Joe
Publisher: name: American Association of Bovine Practitioners  Conference Proceedings
Year: 2023
Subjects: calculi
tube cystostomy
penectomy
perineal urethrostomy
struvite

description: Urolithiasis is a common condition in steers and bulls due to nutritional and anatomical factors. Prevention practices share common aspects as well as aspects specific to certain urolith types. In this presentation we will discuss the underlying fac­tors and preventive measures for urolithiasis in cattle, as well as surgical management. Restraint, sedation, surgical ap­proaches and postoperative considerations will be discussed for both salvage procedures as well as cattle with breeding potential.
description: American Association of Bovine Practitioners Conference Proceedings, 2023 Recent Graduate Conference Proceedings
Scopaeus borneensis Cameron 1941
Creators: name: Frisch, Johannes
name: Narakusumo, Raden Pramesa
Publisher: name: Zenodo
Year: 2023
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Coleoptera
Staphylinidae
Scopaeus
Scopaeus borneensis

description: Scopaeus borneensis Cameron, 1941
(Figs 26, 180, 181)
Scopaeus borneensis Cameron, 1941: 229.
Type specimen examined: Holotype ♀, Kalimantan Barat, Pontianak; labeled ‘Type’ (round, printed label with red margin), ‘Pontianak / Borneo’ (handwritten), ‘S. / borneensis / TYPE Cam.’ (handwritten), ‘M. Cameron./ Bequest./ B.M.1955-147.‘ (printed), ‘ Holotype / Scopaeus borneensis / Cameron 1941 / label by J. Frisch, 2022 ’ (red, printed) (NHML).
Cameron (1941: 229) described Scopaeus borneensis based on a ‘unique’ specimen. Thus, it is a holotype by monotypy (ICZN, Article 73.1.2).
Redescription: Habitus and coloring as in Fig. 26. Head subquadrate. Penultimate antennal segment slightly elongate. Mesotibia moderately thickened. Body surface subnitid, finely, densely punctate, without microreticulation. Pubescence of body surface short, decumbent, without conspicuous macrosetae. Forebody reddish dark brown; abdomen and antennae medium brown; maxillary palpi and legs light brown. Total body length 3.8 mm; forebody length 2.4 mm.
Male: Unknown.
Female: Chamber segment of sperm pump short, without apophysis, acute-angled attached to distal process with strongly widened apex (Fig. 181); bursal duct strong, with S-shaped portion gradually widened, then strongly narrowed towards sperm pump (Fig. 180). Figures 134–145. Abdominal sternite VII (138, 140, 142) and abdominal sternite VIII (134 – 138, 139, 141, 143– 145) of ♂ of Scopaeus cuspilobatus, holotype, Jawa Barat, Sukabumi: Sirnarasa (134); S. velifer, holotype, Banten, Lebak: Citorek Kidul (135); S. elegantulus, Jawa Barat, Sukabumi, Sirnarasa: Cisarua (136); S. uncinatus, holotype, Banten, Lebak: Citorek Kidul (137); S. bipenicillatus, paratype, Sulawesi Tengah, Sigi: Pagana (138); S. bipenicillatus, holotype, Sulawesi Tengah, Sigi: Pagana (139); S. bipectenatus, holotype, Sulawesi Tengah, Poso: Lake Poso (140, 141); S. cuspidatus, holotype, Bali, Jembrana: Cekik (142, 143); S. crassipunctatus, holotype, Jawa Barat, Sukabumi, Sirnarasa: Cisarua (144); S. sulawesianus, holotype, Sulawesi Selatan: Engrekang (145).
Phylogeny: Scopaeus borneensis must be classified in the subgenus Hyperscopaeus Coiffait, 1984 (see Frisch et al. 2002: 38).
Distribution: This species is known only from the type locality in Kalimantan Barat, Indonesian Borneo.
description: Published as part of Frisch, Johannes & Narakusumo, Raden Pramesa, 2022, Revision of Scopaeus Erichson, 1839 (Coleoptera, Staphylinidae, Paederinae) of Indonesia, with description of 19 new species, pp. 23-73 in Soil Organisms 95 (1) on pages 62-67, DOI: 10.25674/so95iss1id311, http://zenodo.org/record/10724236
Nanostructure formation during lipid digestion
Creators: name: Phan, Stephanie
Publisher: name: Monash University
Year: 2017
Subjects: Uncategorized

description: An increasing number of new drug compounds are poorly water-soluble in nature, leading to limited solubility and absorption in the gastrointestinal tract, and hence low and variable bioavailability. Lipid-based formulations are increasingly viewed as an avenue to enhance the delivery of such drug molecules. During the digestion of formulation components, the lipolysis products disperse in the gastrointestinal environment and self-assemble into colloidal phases, enabling drug solubilisation. Traditionally, the focus of research in these formulations has been on the compositional aspects, due to a lack of methods to study structure formation in real-time. To address this current shortcoming, the research undertaken in this thesis examines structure formation in the gastrointestinal tract during lipid digestion. Two approaches have been examined; equilibrium and dynamic studies. In equilibrium studies, bile salt/phospholipid mixed micelles upon incorporation of monoglycerides and fatty acids were studied by scattering and microscopy techniques to determine the influence of pH, temperature and lipid chain length on self-assembly behaviour. An in vitro lipolysis model coupled to synchrotron small angle X-ray scattering was employed for structural studies in real-time, where structure formation was linked to composition using pH stat titration, cryogenic-transmission electron microscopy and high performance liquid chromatography. In addition, the possibility of using an immobilised lipase to address drawbacks in the use of porcine pancreatic lipase for in vitro lipolysis experiments, particularly in terms of scattering measurements was investigated. The studies described in this thesis have provided new approaches and insights into structure formation during lipid digestion and further understanding for the rational design of lipid-based drug formulations.
Mallows Product Measure
Creators: name: Bufetov, Alexey
name: Chen, Kailun
Publisher: name: arXiv
Year: 2024
Subjects: subject: Probability (math.PR)
subject: Mathematical Physics (math-ph)
subject: Combinatorics (math.CO)
subject: FOS: Mathematics
subject: FOS: Physical sciences
subject: 60K35

description: Q-exchangeable ergodic distributions on the infinite symmetric group were classified by Gnedin-Olshanski (2012). In this paper, we study a specific linear combination of the ergodic measures and call it the Mallows product measure. From a particle system perspective, the Mallows product measure is a reversible stationary blocking measure of the infinite-species ASEP and it is a natural multi-species extension of the Bernoulli product blocking measures of the one-species ASEP. Moreover, the Mallows product measure can be viewed as the universal product blocking measure of interacting particle systems coming from random walks on Hecke algebras.
 For the random infinite permutation distributed according to the Mallows product measure we have computed the joint distribution of its neighboring displacements, as well as several other observables. The key feature of the obtained formulas is their remarkably simple product structure. We project these formulas to ASEP with finitely many species, which in particular recovers a recent result of Adams-Balazs-Jay, and also to ASEP(q,M).
 Our main tools are results of Gnedin-Olshanski about ergodic Mallows measures and shift-invariance symmetries of the stochastic colored six vertex model discovered by Borodin-Gorin-Wheeler and Galashin.
description: 28 pages, 3 figures. Proof of some identities are added in the Appendix following comments of referees
Charging what you are worth
Creators: name: Hilton, W. Mark
Publisher: name: American Association of Bovine Practitioners  Conference Proceedings
Year: 2023
Subjects: value
excellence
asset
emergency
business

description: Veterinarians are notorious for undervaluing what we do and undercharging for our knowledge, advice and services. The “whys” of this are discussed elsewhere. Our focus is on the “hows” to value what you do and to be paid for the value you bring to your clients.
description: American Association of Bovine Practitioners Conference Proceedings, 2023 Recent Graduate Conference Proceedings
Additional file 2: of InfAcrOnt: calculating cross-ontology term similarities using information flow by a random walk
Creators: name: Cheng, Liang
name: Jiang, Yue
name: Ju, Hong
name: Sun, Jie
name: Peng, Jiajie
name: Zhou, Meng
name: Hu, Yang
Publisher: name: figshare
Year: 2018
Subjects: subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Chemical Sciences not elsewhere classified
subject: Sociology
subject: FOS: Sociology
subject: Biological Sciences not elsewhere classified
subject: Information Systems not elsewhere classified
subject: Mathematical Sciences not elsewhere classified
subject: Developmental Biology
subject: Marine Biology
subject: Cancer
subject: Virology

description: AUC analysis of the benchmark set and random sets for yeast. (PDF 463 kb)
Data collection and interpretation for cow-calf ranches
Creators: name: Hilton, W. Mark
Publisher: name: American Association of Bovine Practitioners  Conference Proceedings
Year: 2023
Subjects: records
beef production
benchmark

description: Utilizing herd production records to make decisions can be very helpful when dealing with herd health issues. Records are also valuable when examining herd goals as they are an objective source of information that can uncover areas of opportunity.


Another valuable tool is the ability to benchmark a herd’s re­cords against their herd goals and/or to benchmark production data vs. other similar herds.
description: American Association of Bovine Practitioners Conference Proceedings, 2023 Recent Graduate Conference Proceedings
Η Εξωτερική Πολιτική του Προέδρου Bush (πατρός) και το τέλος του Ψυχρού Πολέμου
Creators: name: Θεοδόσης Καρβουναράκης
Publisher: name: Το Βήμα των Κοινωνικών Επιστημών
Year: 2014

description: Η Εξωτερική Πολιτική του Προέδρου Bush (πατρός) και το τέλος του Ψυχρού Πολέμου
description: Το Βήμα των Κοινωνικών Επιστημών, Vol. 16 No. 63 (2014)
Beef cattle implant selection and protocols
Creators: name: Behlke, Eric
Publisher: name: American Association of Bovine Practitioners  Conference Proceedings
Year: 2023
Subjects: beef cattle
implants
implant protocols

description: Growth-promoting implants are a technology that offer beef cattle producers a very large return on investment. However, there are many considerations relative to implanting versus not implanting, selecting the most appropriate implant protocol, and ensuring that implant strategies are compliant with cur­rent regulations.
description: American Association of Bovine Practitioners Conference Proceedings, 2023 Recent Graduate Conference Proceedings
Quantized Integrated Shift Effect in Multigap Topological Phases
Creators: name: Jankowski, Wojciech J.
name: Slager, Robert-Jan
Publisher: name: arXiv
Year: 2024
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: Optics (physics.optics)
subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: We show that certain three-dimensional multigap topological insulators can host quantized integrated shift photoconductivities due to bulk invariants that are defined under reality conditions imposed by additional symmetries. We recast the quantization in terms of the integrated torsion tensor and the non-Abelian Berry connection constituting Chern-Simons forms. Physically, we recognize that the topological quantization emerges purely from virtual transitions contributing to the optical response. Our findings provide another quantized electromagnetic dc response due to the nontrivial band topology, beyond the quantum anomalous Hall effect of Chern insulators and quantized circular photogalvanic effect found in Weyl semimetals.
description: 8+13 pages; 3+4 figures
AL Baladhuri’s Kitab Futuh al- Buldan: Third Century Hijri Humanistic History
Creators: name: Afzal, Nasreen
name: Juzer, Arwa
Publisher: name: Social Science Tribune
Year: 2014

description: AL Baladhuri’s Kitab Futuh al- Buldan: Third Century Hijri Humanistic History
description: Social Science Tribune, Vol. 16 No. 63 (2014)
Deciphering the porcine intestinal microRNA transcriptome
Creators: name: Sharbati, Soroush
name: Friedländer, Marc R
name: Sharbati, Jutta
name: Hoeke, Lena
name: Chen, Wei
name: Keller, Andreas
name: Stähler, Peer F.
name: Rajewsky, Nikolaus
name: Einspanier, Ralf
Publisher: name: Freie Universität Berlin
Year: 2010
Subjects: subject: deep sequencing
subject: mature miRNAs
subject: proximal jejunum
subject: viral miRNAs
subject: distal jejunum
subject: 600 Technik, Medizin, angewandte Wissenschaften::610 Medizin und Gesundheit::610 Medizin und Gesundheit
subject: 500 Naturwissenschaften und Mathematik::590 Tiere (Zoologie)::590 Tiere (Zoologie)

description: Background While more than 700 microRNAs (miRNAs) are known in human, a comparably low number has been identified in swine. Because of the close phylogenetic distance to humans, pigs serve as a suitable model for studying e.g. intestinal development or disease. Recent studies indicate that miRNAs are key regulators of intestinal development and their aberrant expression leads to intestinal malignancy. Results Here, we present the identification of hundreds of apparently novel miRNAs in the porcine intestine. MiRNAs were first identified by means of deep sequencing followed by miRNA precursor prediction using the miRDeep algorithm as well as searching for conserved miRNAs. Second, the porcine miRNAome along the entire intestine (duodenum, proximal and distal jejunum, ileum, ascending and transverse colon) was unraveled using customized miRNA microarrays based on the identified sequences as well as known porcine and human ones. In total, the expression of 332 intestinal miRNAs was discovered, of which 201 represented assumed novel porcine miRNAs. The identified hairpin forming precursors were in part organized in genomic clusters, and most of the precursors were located on chromosomes 3 and 1, respectively. Hierarchical clustering of the expression data revealed subsets of miRNAs that are specific to distinct parts of the intestine pointing to their impact on cellular signaling networks. Conclusions In this study, we have applied a straight forward approach to decipher the porcine intestinal miRNAome for the first time in mammals using a piglet model. The high number of identified novel miRNAs in the porcine intestine points out their crucial role in intestinal function as shown by pathway analysis. On the other hand, the reported miRNAs may share orthologs in other mammals such as human still to be discovered.
Hyperon polarization measurements in heavy-ion collisions
Creators: name: Niida, Takafumi
Publisher: name: arXiv
Year: 2024
Subjects: subject: Nuclear Experiment (nucl-ex)
subject: FOS: Physical sciences

description: In non-central heavy-ion collisions, a large orbital angular momentum of the colliding system is produced, which is then partially transferred to the created medium, resulting in the particle polarization on average along the initial angular momentum, known as global polarization. It was predicted almost 20 years ago and the first observation of $Λ$ global polarization was made by the STAR Collaboration in 2017. Since then, a lot of progress have been made in the polarization measurements including global polarization of multistrange hyperons and the polarization along the beam direction induced by azimuthal anisotropic flow. In these proceedings, we present recent experimental progress on the hyperon polarization measurements in heavy-ion collisions.
description: 10 pages, 4 figures, Proceedings of SPIN2023
Additional file 9: Figure S6 of PGAP-X: extension on pan-genome analysis pipeline
Creators: name: Zhao, Yongbing
name: Sun, Chen
name: Zhao, Dongyu
name: Zhang, Yadong
name: You, Yang
name: Jia, Xinmiao
name: Yang, Junhui
name: Wang, Lingping
name: Wang, Jinyue
name: Fu, Haohuan
name: Kang, Yu
name: Chen, Fei
name: Yu, Jun
name: Wu, Jiayan
name: Xiao, Jingfa
Publisher: name: figshare
Year: 2018
Subjects: subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Molecular Biology
subject: Evolutionary Biology
subject: Environmental Sciences not elsewhere classified
subject: Biological Sciences not elsewhere classified
subject: Information Systems not elsewhere classified
subject: Developmental Biology
subject: Marine Biology
subject: Infectious Diseases
subject: FOS: Health sciences

description: The diversity of gene contents in 14 C. trachomatis strains genomes. (DOCX 793Â kb)
DeepLight: Reconstructing High-Resolution Observations of Nighttime Light With Multi-Modal Remote Sensing Data
Creators: name: Zhang, Lixian
name: Dong, Runmin
name: Yuan, Shuai
name: Zhang, Jinxiao
name: Chen, Mengxuan
name: Zheng, Juepeng
name: Fu, Haohuan
Publisher: name: arXiv
Year: 2024
Subjects: subject: Computer Vision and Pattern Recognition (cs.CV)
subject: Image and Video Processing (eess.IV)
subject: FOS: Computer and information sciences
subject: FOS: Electrical engineering, electronic engineering, information engineering

description: Nighttime light (NTL) remote sensing observation serves as a unique proxy for quantitatively assessing progress toward meeting a series of Sustainable Development Goals (SDGs), such as poverty estimation, urban sustainable development, and carbon emission. However, existing NTL observations often suffer from pervasive degradation and inconsistency, limiting their utility for computing the indicators defined by the SDGs. In this study, we propose a novel approach to reconstruct high-resolution NTL images using multi-modal remote sensing data. To support this research endeavor, we introduce DeepLightMD, a comprehensive dataset comprising data from five heterogeneous sensors, offering fine spatial resolution and rich spectral information at a national scale. Additionally, we present DeepLightSR, a calibration-aware method for building bridges between spatially heterogeneous modality data in the multi-modality super-resolution. DeepLightSR integrates calibration-aware alignment, an auxiliary-to-main multi-modality fusion, and an auxiliary-embedded refinement to effectively address spatial heterogeneity, fuse diversely representative features, and enhance performance in $8\times$ super-resolution (SR) tasks. Extensive experiments demonstrate the superiority of DeepLightSR over 8 competing methods, as evidenced by improvements in PSNR (2.01 dB $ \sim $ 13.25 dB) and PIQE (0.49 $ \sim $ 9.32). Our findings underscore the practical significance of our proposed dataset and model in reconstructing high-resolution NTL data, supporting efficiently and quantitatively assessing the SDG progress.
description: This paper has been accepted in IJCAI 2024
Additional file 3: of InfAcrOnt: calculating cross-ontology term similarities using information flow by a random walk
Creators: name: Cheng, Liang
name: Jiang, Yue
name: Ju, Hong
name: Sun, Jie
name: Peng, Jiajie
name: Zhou, Meng
name: Hu, Yang
Publisher: name: figshare
Year: 2018
Subjects: subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Physiology
subject: Mathematical Sciences not elsewhere classified
subject: Developmental Biology
subject: Infectious Diseases
subject: FOS: Health sciences

description: The correlation between the term similarity by state-of-art methods and prior knowledge in HPO project. (PDF 145 kb)
Στάσεις και Αντιλήψεις Εκπαιδευτικών σχετικά με το Διαζύγιο και την Προσαρμογή των Παιδιών Χωρισμένων Γονέων
Creators: name: Χρυσή Χατζηχρήστου
name: Αικατερίνη Γκαρή
name: Κωνσταντίνος Μυλωνάς
name: Βασιλική Καρίτσα
name: Αγορίτσα Τσιόβουλου
name: Παναγιώτης Γιαβρίμης
Publisher: name: Το Βήμα των Κοινωνικών Επιστημών
Year: 2014

description: Στάσεις και Αντιλήψεις Εκπαιδευτικών σχετικά με το Διαζύγιο και την Προσαρμογή των Παιδιών Χωρισμένων Γονέων
description: Το Βήμα των Κοινωνικών Επιστημών, Vol. 16 No. 63 (2014)
Characterisation of porin genes from Mycobacterium fortuitumand their impact on growth
Creators: name: Sharbati, Soroush
name: Schramm, Kira
name: Rempel, Sonja
name: Wang, Hwa
name: Andrich, Ronny
name: Tykiel, Verena
name: Kunisch, Ralph
name: Lewin, Astrid
Publisher: name: Freie Universität Berlin
Year: 2009
Subjects: subject: mscL
subject: amino acid exchange
subject: Hsp60 promoter
subject: pathogenic mycobacterium
subject: rapidly grow mycobacterium
subject: 600 Technik, Medizin, angewandte Wissenschaften::610 Medizin und Gesundheit::610 Medizin und Gesundheit
subject: 500 Naturwissenschaften und Mathematik::570 Biowissenschaften; Biologie::572 Biochemie

description: Background Highly pathogenic mycobacteria like Mycobacterium tuberculosis are characterised by their slow growth and their ability to reside and multiply in the very hostile phagosomal environment and a correlation between the growth rate of mycobacteria and their pathogenicity has been hypothesised. Here, porin genes from M. fortuitum were cloned and characterised to address their impact on the growth rate of fast-growing and pathogenic mycobacteria. Results Two genes encoding porins orthologous to MspA from M. smegmatis, porM1 and porM2, were cloned from M. fortuitum strains, which were originally isolated from human patients. Both porin genes were at least partially able to complement the mutations of a M. smegmatis mutant strain lacking the genes mspA and mspC with respect to the growth rate. PorM1 and porM2 were present in different strains of M. fortuitum including the type strain. Comparative expression analysis of porM genes revealed divergent porin expression among analysed M. fortuitum strains. Repression of the expression of porins by antisense technique decreased the growth rates of different M. fortuitum. The effects of over-expression of porM1 as well as porM2 varied depending on the strain and the concentration of antibiotic added to the medium and indicated that PorM1 and PorM2 enhance the growth of M. fortuitum strains, but also the diffusion of the antibiotic kanamycin into the cells. Conclusion This study demonstrates the important role of porin expression in growth as well as antibiotic susceptibility of the opportunistic bacterium M. fortuitum.
C-GAIL: Stabilizing Generative Adversarial Imitation Learning with Control Theory
Creators: name: Luo, Tianjiao
name: Pearce, Tim
name: Chen, Huayu
name: Chen, Jianfei
name: Zhu, Jun
Publisher: name: arXiv
Year: 2024
Subjects: subject: Machine Learning (cs.LG)
subject: Systems and Control (eess.SY)
subject: FOS: Computer and information sciences
subject: FOS: Electrical engineering, electronic engineering, information engineering

description: Generative Adversarial Imitation Learning (GAIL) trains a generative policy to mimic a demonstrator. It uses on-policy Reinforcement Learning (RL) to optimize a reward signal derived from a GAN-like discriminator. A major drawback of GAIL is its training instability - it inherits the complex training dynamics of GANs, and the distribution shift introduced by RL. This can cause oscillations during training, harming its sample efficiency and final policy performance. Recent work has shown that control theory can help with the convergence of a GAN's training. This paper extends this line of work, conducting a control-theoretic analysis of GAIL and deriving a novel controller that not only pushes GAIL to the desired equilibrium but also achieves asymptotic stability in a 'one-step' setting. Based on this, we propose a practical algorithm 'Controlled-GAIL' (C-GAIL). On MuJoCo tasks, our controlled variant is able to speed up the rate of convergence, reduce the range of oscillation and match the expert's distribution more closely both for vanilla GAIL and GAIL-DAC.
Η διάσταση της οικονομικής πολιτικής στην αλληλογραφία μεταξύ των David Hume και Adam Smith
Creators: name: Γιώργος Ξυράφας
Publisher: name: Το Βήμα των Κοινωνικών Επιστημών
Year: 2014

description: Η διάσταση της οικονομικής πολιτικής στην αλληλογραφία μεταξύ των David Hume και Adam Smith
description: Το Βήμα των Κοινωνικών Επιστημών, Vol. 16 No. 63 (2014)
Additional file 4: of InfAcrOnt: calculating cross-ontology term similarities using information flow by a random walk
Creators: name: Cheng, Liang
name: Jiang, Yue
name: Ju, Hong
name: Sun, Jie
name: Peng, Jiajie
name: Zhou, Meng
name: Hu, Yang
Publisher: name: figshare
Year: 2018
Subjects: subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Physiology
subject: Information Systems not elsewhere classified
subject: Mathematical Sciences not elsewhere classified
subject: Developmental Biology

description: The correlation between the term similarity by state-of-art methods and prior knowledge in PubMed. (PDF 134 kb)
Ivrii's conjecture for some cases in outer and symplectic billiards
Creators: name: Sharipova, Anastasiia
Publisher: name: arXiv
Year: 2024
Subjects: subject: Dynamical Systems (math.DS)
subject: Symplectic Geometry (math.SG)
subject: FOS: Mathematics

description: We give a proof for $(2n + 1,n)$ and $(2n, n-1)$-periodic Ivrii's conjecture for planar outer billiards. We also give new simple geometric proofs for the 3 and 4-periodic cases for outer and symplectic billiards, and generalize for higher dimensions in case of symplectic billiards.
description: 10 pages, 8 figures
Computational modelling of friction stir processing
Creators: name: Fagan, Timothy
Publisher: name: Monash University
Year: 2017
Subjects: Uncategorized

description: Friction Stir Processing (FSP) is a new and exciting processing technique to locally modify the grain structure and improve mechanical properties of metals. Numerical modelling of the process will allow for improved understanding of the deeply complex thermo-mechanical processes that occur within this seemingly simple technique. An accurate numerical model will increase understanding of the process and reduce the number of experimental trials required to achieve the desired result. In FSP, a cylindrical non-consumable tool, generally consisting of a pin and shoulder, is rotated and plunged into the surface of a metal workpiece. The larger diameter shoulder prevents the surface of the metal workpiece from flowing outwards, while the specially designed pin induces a stirring action, producing a combination of frictional and adiabatic heating allowing the metal to flow around the pin from the advancing side to the retreating side. Localised severe plastic deformation occurs generally resulting in grain refinement. It is the grain refinement that has attracted the attention of many researchers and prompted development of numerical models. The typical numerical methods applied in literature rely on Eulerian or Lagrangian meshes which struggle to overcome large mesh deformation and track material history respectively. In addition, phenomenological models are generally applied which do not have a physical basis. To this end, this work will implement a particle based numerical method with a physically based constitutive law. The proposed three-dimensional fully-coupled thermo-mechanical model is able to concurrently determine the temperature field, material flow and microstructure evolution dependent on the processing conditions of FSP. The results of the complete model agree well with experimental thermocouple measurements, material flow and microstructure development.
Special Joyce structures and hyperkähler metrics
Creators: name: Tulli, Iván
Publisher: name: arXiv
Year: 2024
Subjects: subject: Differential Geometry (math.DG)
subject: High Energy Physics - Theory (hep-th)
subject: Algebraic Geometry (math.AG)
subject: FOS: Mathematics
subject: FOS: Physical sciences

description: Joyce structures were introduced by T. Bridgeland in the context of the space of stability conditions of a three-dimensional Calabi-Yau category and its associated Donaldson-Thomas invariants. In subsequent work, T. Bridgeland and I. Strachan showed that Joyce structures satisfying a certain non-degeneracy condition encode a complex hyperkähler structure on the tangent bundle of the base of the Joyce structure. In this work we give a definition of an analogous structure over an affine special Kähler (ASK) manifold, which we call a special Joyce structure. Furthermore, we show that it encodes a real hyperkähler (HK) structure on the tangent bundle of the ASK manifold, possibly of indefinite signature. Particular examples include the semi-flat HK metric associated to an ASK manifold (also known as the rigid c-map metric) and the HK metrics associated to certain uncoupled variations of BPS structures over the ASK manifold. Finally, we relate the HK metrics coming from special Joyce structures to HK metrics on the total space of algebraic integrable systems.
description: 31 pages. v2: Definition of special Joyce structure generalized to allow for a complex-valued J. Main result unchanged. Appendix B and references added
Using Linear Regression to Explore Environmental Factors Affecting Vector-borne Diseases
Creators: name: Adams, Andy
name: Adams, Jessica
name: Bray, John
name: Imbierowicz, Tami
name: Lenhart, Suzanne
name: Martin, Breonna
Publisher: name: QUBES Educational Resources
Year: 2020

description: In this activity students will use linear regression to analyze real data on vector-borne diseases and explore how environmental factors such as climate change or population density influence the transmission of these diseases.
Additional file 5: of InfAcrOnt: calculating cross-ontology term similarities using information flow by a random walk
Creators: name: Cheng, Liang
name: Jiang, Yue
name: Ju, Hong
name: Sun, Jie
name: Peng, Jiajie
name: Zhou, Meng
name: Hu, Yang
Publisher: name: figshare
Year: 2018
Subjects: subject: Cell Biology
subject: Molecular Biology
subject: Physiology
subject: FOS: Biological sciences
subject: Chemical Sciences not elsewhere classified
subject: Sociology
subject: FOS: Sociology
subject: Biological Sciences not elsewhere classified
subject: Information Systems not elsewhere classified
subject: Marine Biology
subject: Cancer

description: Disease-related biological process confirmed by literature mining. (PDF 102 kb)
Blue and Green-Mode Energy-Efficient Nanoparticle-Based Chemiresistive Sensor Array Realized by Rapid Ensemble Learning
Creators: name: Wang, Zeheng
name: Cooper, James Scott
name: Usman, Muhammad
name: van der Laan, Timothy
Publisher: name: arXiv
Year: 2024
Subjects: subject: Machine Learning (cs.LG)
subject: Computational Engineering, Finance, and Science (cs.CE)
subject: Systems and Control (eess.SY)
subject: FOS: Computer and information sciences
subject: FOS: Electrical engineering, electronic engineering, information engineering

description: The rapid advancement of Internet of Things (IoT) necessitates the development of optimized nanoparticle-based Chemiresistive Sensor (CRS) arrays that are energy-efficient, specific, and sensitive. This study introduces an optimization strategy that employs a rapid ensemble learning-based model committee approach to achieve these goals. Utilizing machine learning models such as Elastic Net Regression, Random Forests, and XGBoost, among others, the strategy identifies the most impactful sensors in a CRS array for accurate classification. A weighted voting mechanism is introduced to aggregate the models' opinions in sensor selection, thereby setting up two distinct working modes, termed "Blue" and "Green". The Blue mode operates with all sensors for maximum detection capability, while the Green mode selectively activates only key sensors, significantly reducing energy consumption without compromising detection accuracy. The strategy is validated through theoretical calculations and Monte Carlo simulations, demonstrating its effectiveness and accuracy. The employed optimization strategy elevates the detection capability of CRS arrays while also pushing it closer to theoretical limits, promising significant implications for the development of low-cost, easily fabricable next-generation IoT sensor terminals.
description: Accepted by ACS Applied Nano Materials
Targeting bioactive heterocycles: synthetic studies toward zaragozic acids, a new concise route to 5-disubstituted hydantoins and synthesis of profluorescent nucleobase analogues
Creators: name: McKay, Victoria Alison
Publisher: name: Monash University
Year: 2017
Subjects: Uncategorized

description: The family of structurally unrivalled fungal metabolites, the zaragozic acids (ZAs), have been a favoured synthetic challenge of organic chemists for over 20 years. ZAs uniquely contain a highly oxygenated 4,6,7 trihydroxy 2,8 dioxabicyclo[3.2.1]octane-3,4,5-tri-carboxylic acid core; a construct including six contiguous stereocentres, four of which are quaternary sites. Chapters 1 and 2 describe the discovery and biological significance of the ZAs – extensively covering recent works published toward their synthesis – concluding with our intended synthetic approach toward development of the ZA core. Chapter 3 encompasses research and conclusions concerning the synthesis of pinacol reaction substrates and their transition-metal-mediated coupling – including the elucidation of a number of novel heterocycles during these processes. Chapter 4 describes the optimisation and scope of a new, concise protocol deriving 5-disubstituted imidazoldine-2,4-diones from α ketoacids and carbodiimides, and applies the new method to the construction of an analogue of the marine metabolite, Polyandrocarpamide D. Chapter 5 communicates our synthetic work toward the development of pro-fluorescent derivatives of fluorescent isomorphic nucleosides. The maximal homology of isomorphic nucleosides ensures that these non-native nucleosides are well tolerated upon incorporation into DNA or RNA, with only minimal impact on sequence folding, while still allowing discrete localisation, and expedient sensitivity and responsiveness to microenvironments. Chapter 5 includes description of our investigations toward a robust synthetic methodology for the production of “pro-fluorescent” C 5/C 6-reduced, uridine/thymidine nucleobase analogues. These analogues possess the potential to report on oxidative microenvironments; whereby exposure to oxidative conditions in vivo or in vitro results in conversion to their fluorescent counterparts, consequently expressing analysable photophysical characteristics. Our synthetic approach to the desired C-5/C-6-reduced base motif utilises a pathway developed by the Perlmutter group, using [3+3]-sigmatropic rearrangement of an acyl hydroxamic acid, followed by intramolecular trapping of the substrate during a Curtius reaction, to obtain the profluorescent nucleobase analogue.