cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Motif Detection Inspired by Immune Memory
Creators: name: Wilson, William
name: Birkin, Phil
name: Aickelin, Uwe
Publisher: name: arXiv
Year: 2010
Subjects: subject: Artificial Intelligence (cs.AI)
subject: Neural and Evolutionary Computing (cs.NE)
subject: Quantitative Methods (q-bio.QM)
subject: FOS: Computer and information sciences
subject: FOS: Biological sciences

description: The search for patterns or motifs in data represents an area of key interest to many researchers. In this paper we present the Motif Tracking Algorithm, a novel immune inspired pattern identification tool that is able to identify variable length unknown motifs which repeat within time series data. The algorithm searches from a completely neutral perspective that is independent of the data being analysed and the underlying motifs. In this paper we test the flexibility of the motif tracking algorithm by applying it to the search for patterns in two industrial data sets. The algorithm is able to identify a population of motifs successfully in both cases, and the value of these motifs is discussed.
description: 12 pages, 4 figures, (ICARIS2007),
Investigating biomarkers of response to CDK4/6 inhibition in combination with anti-estrogen therapy in breast cancer cell lines
Creators: name: Bittner, Madison
Publisher: name: University of British Columbia
Year: 2023

description: Breast cancer is the most common cancer diagnosed in women and remains the second leading cause of cancer related deaths. For decades, anti-estrogen therapy (AET) has been used to treat estrogen receptor positive (ER+) breast cancer. The development of novel targeted therapies, like cyclin dependent kinase 4/6 inhibitors (CDK4/6i), provide additional treatment options for women with late-stage disease. CDK4/6i in combination with AET has delayed cancer progression and is approved for use in metastatic ER+, human epidermal growth factor receptor 2 negative breast cancer. However, it is estimated that almost half of these patients don’t derive a meaningful benefit from this treatment combination, resulting in unnecessary drug toxicities. Furthermore, unnecessary cancer treatment is a burden to the healthcare system, particularly with expensive drugs like CDK4/6i which cost ~$8000 per month of treatment. The identification of predictive biomarkers represents a top cancer research priority. Biomarker testing improves treatment selection so that patients and our health care system derive maximal benefit from these effective but expensive drugs. To date, ER positivity remains the only molecular biomarker for CDK4/6i treatment selection. For this research, I performed a comprehensive literature review of CDK4/6i biomarkers and analyzed publicly available molecular/clinical databases to identify potential biomarkers. I then conducted in vitro tests of palbociclib (CDK4/6i) and tamoxifen (AET) on a comprehensive panel of breast cancer cell lines. From this, I optimized the in vitro experimental assays to ensure they measured the cytostatic activity of palbociclib to accurately rank drug efficacy amongst the cell lines. Next, using reverse phase protein array (RPPA), I performed a discovery-based proteomic analysis to identify biomarkers of resistance to palbociclib +/- tamoxifen. My analysis of public databases failed to identify any statistically significant biomarkers, further highlighting the need for biomarker research. Western blot analysis identified p16 overexpression and Rb loss as markers of resistance to palbociclib. RPPA analyses identified an additional thirteen differentially expressed proteins associated with palbociclib resistance. I also identified twelve proteomic biomarkers of resistance to the combination therapy. This research identifies predictive biomarker candidates for validation and highlights the importance of experimental assay optimization for translatable in vitro testing.
title: Ternary fluid infiltrating with constant composition produces more than twelve reaction sequences controlled by rock composition
Creators: name: Vrijmoed, Johannes
name: Podladchikov, Yury Y.
Publisher: name: Deutsche Geologische Gesellschaft - Geologische Vereinigung e.V. (DGGV)
Year: 2023

description:
In many applications a fluid is injected into rocks for example for CO2 storage, in enhanced geothermal reservoirs, or during oil and gas recovery. The fluid may be out of equilibrium with the rock resulting in chemical reactions at depth. The correct prediction of reaction front velocities depends on a thorough understanding of the theory of chromatography and the changes of density and porosity in reactive transport models. We study the systematics of reaction fronts in multi-component systems. The methodology is based on a finite difference approach for solving the transport problem in combination with precomputed thermodynamic equilibria. These lookup tables are calculated using Gibbs’ minimization and a linear programming approach. They are validated against full analytical solutions of the Gibbs minimization problem. Porosity and density evolution is predicted based on mass conservation. We focus on ternary ideal fluid or melt solutions in equilibrium with pure phases as exact solutions are feasible and here first consider the isothermal case. For a fixed incoming fluid composition, over twelve reaction sequences may form depending on initial rock composition. Within one type of reaction sequence, bulk rock composition still plays are role in determining the speed of the reaction front as well as the fluid compositions that develop along the path. This theoretical understanding allows better predictions of the formation of reaction sequences and the consequences on rock properties upon injection of fluids with dissolved chemical components.
Additional file 4 of Protocol for a hybrid type 2 cluster randomized trial of trauma-focused cognitive behavioral therapy and a pragmatic individual-level implementation strategy
Creators: name: Lyon, Aaron R.
name: Pullmann, Michael D.
name: Dorsey, Shannon
name: Levin, Carol
name: Gaias, Larissa M.
name: Brewer, Stephanie K.
name: Larson, Madeline
name: Corbin, Catherine M.
name: Chayna Davis
name: Muse, Ian
name: Mahima Joshi
name: Reyes, Rosemary
name: Jungbluth, Nathaniel J.
name: Barrett, Rachel
name: Hong, David
name: Gomez, Michael D.
name: Cook, Clayton R.
Publisher: name: figshare
Year: 2021
Subjects: subject: Medicine
subject: Biotechnology
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Cancer
subject: Science Policy
subject: 111714 Mental Health
subject: FOS: Health sciences

description: Additional file 4. Study Consents.
Additional file 1 of Effectiveness of neuromuscular electrical stimulation in severe acute pancreatitis complicated patients with acute respiratory distress syndrome: study protocol for a randomized controlled trial
Creators: name: Zhou, Feng
name: Fan, Dingrong
name: Feng, Yan
name: Zhou, Cuijuan
name: Chen, Xiaodong
name: Ran, Xiaoyun
name: Tan, Botao
Publisher: name: figshare
Year: 2023
Subjects: subject: Medicine
subject: Cell Biology
subject: Physiology
subject: FOS: Biological sciences
subject: Biotechnology
subject: Immunology
subject: FOS: Clinical medicine
subject: Mental Health
subject: Infectious Diseases
subject: FOS: Health sciences
subject: Virology

description: Additional file 1.
title: New insights into the Dinocephalosauridae, a recently recognised clade of Triassic marine archosauromorphs, including the identification of its first European member
Creators: name: Spiekman, Stephan N.F.
Publisher: name: Deutsche Geologische Gesellschaft - Geologische Vereinigung e.V. (DGGV)
Year: 2023

description:
The diversification of marine reptiles played a major part in the Triassic Revolution and represented the first large-scale return of tetrapods to an aquatic environment. Recently, a new marine archosauromorph clade, Dinocephalosauridae, was recognised, considerably increasing the known diversity of Triassic marine reptiles, particularly among the generally terrestrial Archosauromorpha. Its best-known member, Dinocephalosaurus orientalis, superficially resembles plesiosaurs, possessing a hyperelongate neck composed of many cervical vertebrae, an elongate torso, and flipper-like limbs. The osteology of Dinocephalosaurus is virtually completely described based on newly discovered specimens. Up to six metres long, it is characterised by its long tail and even longer neck. The appendicular skeleton exhibits a high degree of skeletal paedomorphosis recalling that of many sauropterygians, but the skull and neck are completely inconsistent with sauropterygian affinities. Its cranial morphology, including the presence of narial fossae, is very similar to that seen in another long-necked archosauromorph, Tanystropheus hydroides, which largely represents a convergence related to an aquatic piscivorous lifestyle. Chinese discoveries such as Dinocephalosaurus merit a re-evaluation of historical European collections. Based on such a revision, we also redescribe Trachelosaurus fischeri, known from a single, disarticulated specimen collected in the 1800s from the Solling Formation (Buntsandstein) of Bernburg, Germany. It possesses short, bifurcating cervical ribs, which are unique among archosauromorphs. Trachelosaurus is confidently recognised as the first European dinocephalosaurid based on a wide range of character states, including its highly presacral vertebral count, wide dorsal transverse processes, holocephalous dorsal ribs, an ilium lacking a preacetabular process, and a rod-like femur.
Additional file 5 of Protocol for a hybrid type 2 cluster randomized trial of trauma-focused cognitive behavioral therapy and a pragmatic individual-level implementation strategy
Creators: name: Lyon, Aaron R.
name: Pullmann, Michael D.
name: Dorsey, Shannon
name: Levin, Carol
name: Gaias, Larissa M.
name: Brewer, Stephanie K.
name: Larson, Madeline
name: Corbin, Catherine M.
name: Chayna Davis
name: Muse, Ian
name: Mahima Joshi
name: Reyes, Rosemary
name: Jungbluth, Nathaniel J.
name: Barrett, Rachel
name: Hong, David
name: Gomez, Michael D.
name: Cook, Clayton R.
Publisher: name: figshare
Year: 2021
Subjects: subject: Medicine
subject: Biotechnology
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Cancer
subject: Science Policy
subject: 111714 Mental Health
subject: FOS: Health sciences

description: Additional file 5. Detailed Measures Table.
Transverse magnetic heat transport on the topological surface
Creators: name: Yokoyama, Takehito
name: Murakami, Shuichi
Publisher: name: arXiv
Year: 2011
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: FOS: Physical sciences

description: We investigate transverse magnetic heat transport on the surface of a topological insulator on which a ferromagnet is attached. We present general expressions of the Nernst coefficient and the thermal Hall conductivity, which are reduced to simple forms at low temperatures. It is shown that the Nernst coefficient and the thermal Hall conductivity show non-monotonous dependence on temperature. At low temperature, they have linear dependence on temperature. From the behavior of the Nernst coefficient at low temperature, one can estimate the magnitude of the gap induced by time-reversal symmetry breaking. Moreover, we find that the Nernst coefficient can be used to map the Berry phase structure. These results open up possibility to control thermal Hall currents magnetically.
description: 4+ pages, 2 figures
Varia Research - SaaS application for efficient online research
Creators: name: Georg Horn, Stefan Hensel
Publisher: name: Zenodo
Year: 2023
Subjects: SaaS
Journalism
Desk Research
Online Research
NLP
Newsroom
News
Software
AI

description: Varia Research is a SaaS application that helps journalists, content creators, business analysts or academics to streamline their online research processes. With Varia Research, media monitoring and research organization come together in one sleek integrated application, allowing for significant efficiency gains in the online/desk research process. Research information such as bookmarks, notes, files, or contacts can all be stored and organized in dossiers - allowing to find and retrieve relevant documents whenever needed. Machine learning and AI are deeply embedded in the product, granting the further benefits such as automated summaries or analyses for each text document stored in Varia Research. In addition, a "perspectives as a service" approach allows to discover different perspectives around news topics with ease. At the click of a button, users can discover how various news outlets from around the globe are covering the issue that they are researching. Varia Research is available as freemium SaaS product, enabling individual journalists, researchers or content creators to get started at zero cost and bring more efficiency into their day-to-day workflows. For more information, visit www.varia.media The development of the 1.0 live version of Varia Research was supported by the AI4Media program, open call #1.
title: Protection of a shallow karst aquifer in Zambia - Approach and challenges
Creators: name: Rau, Svenja Henrike
name: Micho, Owen
name: Lubaba, Douglas
name: Mwila, Pasca
Publisher: name: Deutsche Geologische Gesellschaft - Geologische Vereinigung e.V. (DGGV)
Year: 2023

description:
BGR and the Zambian government jointly develop and protect the groundwater resources in the country’s capital Lusaka. As one of the fastest growing cities in southern Africa, Lusaka has been facing a sharp increase in the demand for water in recent years.

Sustainable abstraction of groundwater and the protection of the vulnerable karst aquifer supplying Lusaka are two key elements for future urban planning in the face of population growth, annual outbreaks of waterborne diseases and climate change. Geoscientific experts have to ensure that decisions are based on scientific results and technical recommendations and that the importance of protecting the natural resource is being communicated as a priority to the government, industries and society.

Potential new well fields were identified and one objective of the BGR project is the delineation of groundwater protection zones as a case study for Zambia. The development of statutory instruments to make groundwater protection an integral part of the Zambian law secures the resources for the future. The delineation of the zones is based on the approach from Botswana, as the various Western approaches cannot simply be transferred to southern Africa as soil structure, geology, climate and urban areas are often drastically different.

Protecting a karst aquifer with a thin soil cover is scientifically challenging. The population growth and limited urban planning structures combined with insufficient data increase the risk of groundwater contamination in Lusaka. A high level of cooperation between geoscientists, decision-makers, environmental regulators and the society is required to face the various challenges.
title: Temporal and spatial distribution of modern ostracod species of Lago Enriquillo (SW Dominican Republic)
Creators: name: Berndt, Christopher
name: Haberzettl, Torsten
name: Biedermann, Lilly
name: Böttcher, Michael Ernst
name: Matias Marte de Reyes, Berenice
name: Garcia Cocco, Edwin
name: Wrozyna, Claudia
Publisher: name: Deutsche Geologische Gesellschaft - Geologische Vereinigung e.V. (DGGV)
Year: 2023

description:
Understanding modern species´ ecological preferences and distribution are prerequisites for their application as proxies in paleoenvironmental reconstructions. This knowledge is, however, missing for the majority of tropical species. In order to contribute to close this gap we characterize the ostracod fauna of Lago Enriquillo in the Dominican Republic. Located in the Main Development Region of North Atlantic tropical storms it has experienced rapid water level fluctuations in the past that are assumed to be related to storm activities. This highlights the relevance of the lake for reconstructions of changes in precipitation and storm activity. Living ostracods inhabiting Lago Enriquillo were analyzed in March and September (dry and rainy season) 2022 with the aim to understand their temporal and spatial distribution and changes in morphological characteristics (valve size). Lago Enriquillo is a warm (27.8-33.8°C), mesohaline (43.7-46.3 psu) and generally slightly alkaline lake (pH: 7.5-8.1) with a max. water depth of 25 m. The spatially variable ostracod fauna is composed of Cyprideis similis, Perissocytheridea cribrosa and Thalassocypria sarbui. The three species reflect the lake’s seasonality differently in terms of their morphology and population structure. C. similis occurred continuously but is smaller in spring than in autumn. P. cribrosa inhabits the lake only in autumn and shows a distinct distribution dominating littoral areas with seasonal freshwater inflow. T. sarbui forms larger populations only in spring and forms only tentative size clusters. Their occurrence is restricted to water depths above (temporary) minima of oxygen (below 10 – 14 m).
title: Critical external and internal factors for plate tectonics
Creators: name: Henke-Seemann, Oliver
name: Noack, Lena
Publisher: name: Deutsche Geologische Gesellschaft - Geologische Vereinigung e.V. (DGGV)
Year: 2023

description:
Convective mantle flow in terrestrial planets is governed by a temperature- and pressure-dependent rheology. This results in a stagnant-lid regime observed on most terrestrial planets. Plastic deformation can lead to breaking of the strong upper lithosphere, which resembles plate tectonics on Earth. Most efforts to model mantle convection with self-consistent plate tectonics combine Newtonian diffusion creep with a stress-dependent pseudo-plastic rheology in the form of a yield criterion. However, in the uppermost mantle, where stresses are high, deformation is thought to be driven in large parts by deformation via dislocation creep. As numerical models get more robust and capable of more complexity, viscoplastic models should therefore include non-Newtonian dislocation creep.

In our models we employ a composite viscosity, combining both Newtonian and Non-Newtonian power laws in a viscoplastic approach. We study the influence of varying rheologies on plate tectonics simulations, by testing several internal and external parameters, such as grain size and surface temperature. In a 2D-spherical annulus geometry we employ an interior structure model for an Earth-like planet to obtain local information on thermodynamics properties of the main minerals present in Earth’s mantle. We evaluate the models by computing common diagnostic values used to recognize plate-like surface deformation. The goal of this study is to identify key planetary factors for the occurrence or absence of plate tectonics.
Swapping Evaluation: A Memory-Scalable Solution for Answer-On-Demand Tabling
Creators: name: de Guzman, Pablo Chico
name: Carro, Manuel
name: Warren, David S.
Publisher: name: arXiv
Year: 2010
Subjects: subject: Programming Languages (cs.PL)
subject: FOS: Computer and information sciences

description: One of the differences among the various approaches to suspension-based tabled evaluation is the scheduling strategy. The two most popular strategies are local and batched evaluation. The former collects all the solutions to a tabled predicate before making any one of them available outside the tabled computation. The latter returns answers one by one before computing them all, which in principle is better if only one answer (or a subset of the answers) is desired. Batched evaluation is closer to SLD evaluation in that it computes solutions lazily as they are demanded, but it may need arbitrarily more memory than local evaluation, which is able to reclaim memory sooner. Some programs which in practice can be executed under the local strategy quickly run out of memory under batched evaluation. This has led to the general adoption of local evaluation at the expense of the more depth-first batched strategy. In this paper we study the reasons for the high memory consumption of batched evaluation and propose a new scheduling strategy which we have termed swapping evaluation. Swapping evaluation also returns answers one by one before completing a tabled call, but its memory usage can be orders of magnitude less than batched evaluation. An experimental implementation in the XSB system shows that swapping evaluation is a feasible memory-scalable strategy that need not compromise execution speed.
description: 16 pages, 5 figures, published in TPLP 2010
Averting the magnetic braking catastrophe on small scales: disk formation due to Ohmic dissipation
Creators: name: Dapp, Wolf B.
name: Basu, Shantanu
Publisher: name: arXiv
Year: 2010
Subjects: subject: Solar and Stellar Astrophysics (astro-ph.SR)
subject: FOS: Physical sciences

description: We perform axisymmetric resistive MHD calculations that demonstrate that centrifugal disks can indeed form around Class 0 objects despite magnetic braking. We follow the evolution of a prestellar core all the way to near-stellar densities and stellar radii. Under flux-freezing, the core is braked and disk formation is inhibited, while Ohmic dissipation renders magnetic braking ineffective within the first core. In agreement with observations that do not show evidence for large disks around Class 0 objects, the resultant disk forms in close proximity to the second core and has a radius of only $\approx 10~R_{\odot}$ early on. Disk formation does not require enhanced resistivity. We speculate that the disks can grow to the sizes observed around Class II stars over time under the influence of both Ohmic dissipation and ambipolar diffusion, as well as internal angular momentum redistribution.
description: 4 pages, 3 figures, accepted by A&A Letters
Blurring boundaries : towards the collective team grokking of software product requirements
Creators: name: Fuller, Robert C.
Publisher: name: University of British Columbia
Year: 2023

description: As market expectations of software products continues to become more sophisticated and the competitive landscape for software products grows in intensity, the difference between successful and unsuccessful software products is rapidly becoming less a function of software development methods and more one of how deeply and collectively cross-functional software product development teams achieve a tacit understanding of the product domain, thus creating a context for the team to understand the product requirements and a valid context for the implicit and explicit decision-making that occurs throughout the product development life cycle. Although deep domain understanding cannot be obtained through prevailing requirements engineering methods the way they are usually practiced, many software product development teams do manage to achieve varying degrees of collective grokking of the product domain. However, little is known about what factors support or impede these teams in collectively achieving this deep understanding. Looking to identify factors that would explain why some teams collectively grok the product domain more deeply than others, I used the Constructivist Grounded Theory research method over a period of three years to study individuals and teams across seven software companies that create products for a diverse range of markets. I found that certain factors of the corporate organisational structure and the product planning process play a significant role in product development teams’ potential to collectively develop deep domain understanding. These factors also impact individual and development team dynamics. I identify two essential metaphorical dynamics of broadening the lens and blurring boundaries that successful cross-functional product teams employ to fully embrace product ownership, visioning, and planning toward achieving this rich context for understanding product requirements. This study concludes also that the highly specialised nature of many organisational models and development processes is contraindicated for cross-functional product development teams in achieving this deep collective understanding and calls for a revisiting of the mechanistic organisational and product planning practices for software product development. Further, it calls for a shift of emphasis in requirements engineering towards a greater focus on the human factors in requirements engineering, specifically the collective and tacit understanding of requirements and their context.
title: Marcus Tullius Cicero – First Speech Against Catiline
title: Introduction, text, vocabulary, translation, commentary
titleType: AlternativeTitle
title: Μάρκος Τούλλιος Κικέρωνας – Πρώτος Κατιλινιακός Λόγος
title: Εισαγωγή, κείμενο, λεξιλόγιο, μετάφραση, σχόλια
titleType: AlternativeTitle
Creators: name: Garani, Myrto
Publisher: name: Kallipos, Open Academic Editions
Year: 2023
Subjects: Κικέρων
Κατιλίνας
Λατινική ρητορεία
Λατινική φιλολογία
Ρωμαϊκή ρητορεία
Ρωμαϊκή ιστορία
Ρωμαϊκή ρητορική
Λατινική λογοτεχνία
Cicero
Catiline
Latin rhetoric
Latin philology
Roman oratory
Roman history
Roman rhetoric
Latin literature
Λατινική πεζογραφία
Latin prose

description: This textbook is an annotated student’s edition with a translation of the First Catilinarian Speech, a rhetorical speech that Marcus Tullius Cicero gave to the senate in the year of his consulship in 63 B.C. accusing a senator, Lucius Sergius Catilina of treason. The book is addressed mainly to undergraduate and postgraduate students, but also to the educated general reader. It includes four introductory chapters: Roman rhetoric, the life and work of Cicero, the historical background of the speech, and special topics on the First Catilinarian Speech (purpose of the speech, generic classification, metaphorical imagery, editorial issues, comparison of the First Catilinarian speech with the other three Catilinarian speeches, philosophical echoes, the reception of the Catilinarian discourses from antiquity to the present day). Six chapters follow each articulated in six sections (introductory note, text, vocabulary, translation, commentary, bibliography). The textbook makes extensive use of multimedia material, such as pictures, maps, videos, audio files, etc. Graphs and tables with chronologies and various historical data are also used for a better understanding of the work.
description: Το σύγγραμμα αυτό είναι μια χρηστική έκδοση του Πρώτου Κατιλινιακού λόγου, που εκφώνησε ο Μάρκος Τούλλιος Κικέρωνας τη χρονιά της υπατείας του, το 63 π.Χ., κατηγορώντας τον συγκλητικό Λεύκιο Σέργιο Κατιλίνα ότι συνωμοτεί για να ανατρέψει το δημοκρατικό πολίτευμα. Το σύγγραμμα απευθύνεται κυρίως σε προπτυχιακούς και μεταπτυχιακούς φοιτητές φιλολογικών τμημάτων, αλλά και στον πεπαιδευμένο γενικό αναγνώστη. Περιλαμβάνει τέσσερα εισαγωγικά κεφάλαια για τη ρωμαϊκή ρητορική, τον βίο και το έργο του Κικέρωνα, το ιστορικό υπόβαθρο του λόγου, καθώς και ειδικά θέματα για τον Πρώτο Κατιλινιακό λόγο (σκοπός και ειδολογική κατάταξη του λόγου, εικονοποιία, εκδοτικά ζητήματα λόγω μεταγενέστερης δημοσίευσης του λόγου, σύγκριση του Πρώτου Κατιλινιακού με τους άλλους τρεις Κατιλινιακούς λόγους, φιλοσοφικά στοιχεία, πρόσληψη των Κατιλινιακών λόγων από την αρχαιότητα μέχρι τη σημερινή εποχή). Ακολουθούν έξι κεφάλαια που αρθρώνονται το καθένα σε έξι ενότητες (εισαγωγικό σημείωμα, κείμενο, λεξιλόγιο, μετάφραση, σχόλια, βιβλιογραφία). Το βιβλίο κάνει εκτεταμένη χρήση πολυμεσικού υλικού, όπως εικόνων, χαρτών, βίντεο, ηχητικών αρχείων κλπ. Για την καλύτερη κατανόηση του έργου χρησιμοποιούνται επίσης γραφήματα και πίνακες με χρονολόγια και διάφορα ιστορικά στοιχεία.
On the Geometry of Constant Angle Surfaces in $Sol_3$
Creators: name: Lopez, Rafael
name: Munteanu, Marian Ioan
Publisher: name: arXiv
Year: 2010
Subjects: subject: Differential Geometry (math.DG)
subject: FOS: Mathematics
subject: 53B25

description: In this paper we classify all surfaces in the 3-dimensional Lie group $Sol_3$ whose normals make constant angle with a left invariant vector field.
description: 13 pages with 4 figures
Additional file 1 of Effect of under triage on early mortality after major pediatric trauma: a registry-based propensity score matching analysis
Creators: name: François-Xavier Ageron
name: Porteaud, Jordan
name: Jean-Noël Evain
name: Millet, Anne
name: Greze, Jules
name: Vallot, Cécile
name: Albrice Levrat
name: Mortamet, Guillaume
name: Bouzat, Pierre
Publisher: name: figshare
Year: 2021
Subjects: subject: Medicine
subject: Biotechnology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Science Policy
subject: 110309 Infectious Diseases
subject: FOS: Health sciences

description: Additional file 1: eTable 1: Checklist of the Strengthening the Reporting of Observational Studies in Epidemiology (STROBE) guidelines. eFigure1: Grading protocol of severe trauma children in the TRENAU network. eFigure 2: Algorithm for the direction of severe trauma patients (adluts and children) in the TRENAU network. eFigure 3: Flowchart of the study. eFigure 4: Crude, inverse probability treatment weighting (IPTW) method and propensity score (Ps) matching analyses to assess the risk of early death in under triaged children according to the Injury Severity Score definition.
title: Late Quaternary deformation, strain partitioning, and growth of the fold and thrust belt of The Western Himalaya
Creators: name: Dey, Saptarshi
name: Thiede, Rasmus C.
name: Jonas, Kordt
name: Bookhagen, Bodo
name: Arrowsmith, Ramon
name: Chauhan, Naveen
Publisher: name: Deutsche Geologische Gesellschaft - Geologische Vereinigung e.V. (DGGV)
Year: 2023

description:
Constraining millennial-scale fault slip rates and understanding the related structural architecture in active orogenic wedges might provide important assessment of future seismic risk evaluations. An increasing number of Holocene and Late Pleistocene deformation rates have been reported throughout the Western Himalayan frontal fold-and-thrust belt (FTB), which have illustrated that the deformation is divided along several arc-parallel fault splays rooted to the Main Himalayan Thrust décollement. Studies also report complex pattern of out of sequence faulting, as well as spatiotemporal variations in fault growth and lateral heterogeneity of the FTB. However, what drives this lateral heterogeneity is debated until now.

Late Pleistocene – Holocene deformed fluvial strath terraces across active faults in western Himalayan provide a measure of time-averaged fault slip rates along the Himalayan Frontal Thrust (HFT) and the Medlicott Wadia Thrust (MWT). While the Quaternary slip rates along the HFT varies from 3 – 12 mm/y, the slip rates from the ~700 km- long MWT is steadily high (7 – 9 mm/y).In contrast, previously published balanced cross-sections proposed slip rates of ~1 – 2 mm/y along the MWT. So from million-year to millennial timescale, there exists a significant temporal variation in fault activity. Single fault system like the MWT accommodate up to 50 - 60% of the total measured geodetic rates on Holocene/Late Quaternary timescales. These results document significant strain partitioning within the Sub-Himalaya and steady - high slip on the MWT which, beside the HFT could host the next big seismic event and damage the human-infested north India.
Additional file 1 of EndHiC: assemble large contigs into chromosome-level scaffolds using the Hi-C links from contig ends
Creators: name: Wang, Sen
name: Wang, Hengchao
name: Jiang, Fan
name: Wang, Anqi
name: Liu, Hangwei
name: Zhao, Hanbo
name: Yang, Boyuan
name: Xu, Dong
name: Zhang, Yan
name: Fan, Wei
Publisher: name: figshare
Year: 2023
Subjects: subject: Genetics
subject: FOS: Biological sciences
subject: Biotechnology
subject: Ecology
subject: Biological Sciences not elsewhere classified
subject: Information Systems not elsewhere classified
subject: Cancer
subject: Plant Biology
subject: Computational Biology

description: Additional file 1. Supplementary figures and tables.
Additional file 1 of Table Talk: revision of an observational tool to characterize the feeding environment in early care and education settings
Creators: name: Swindle, Taren
name: Phelps, Josh
name: McBride, Nicole M.
name: Selig, James P.
name: Rutledge, Julie M.
name: Manyam, Swapna
Publisher: name: figshare
Year: 2021
Subjects: subject: Neuroscience
subject: Biotechnology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: Science Policy
subject: 111714 Mental Health
subject: FOS: Health sciences

description: Additional file 1.
The CESSDA Vocabulary Service: A New State-of-the-Art Tool for Creating and Publishing Controlled Terms Lists
Creators: name: Ionescu, Sanda
name: Jääskeläinen, Taina
Publisher: name: Zenodo
Year: 2019
Subjects: DDI
CESSDA
controlled vocabulary
metadata
NADDI2019

description: The DDI Alliance has been creating and publishing its own controlled vocabularies since 2005. These are targeted for specific DDI classes, but are external to DDI and may be used with other metadata standards.

In its new core metadata model, CESSDA recommends the use of DDI controlled vocabularies where available, as well as the creation of new lists, as needed. To support this effort, CESSDA has financed the development of a state-of-the-art tool that facilitates the creation, translation and publication of controlled vocabularies and automates a significant part of the process. The tool is now in its final testing phase and is scheduled to go live this spring.

Our poster will introduce this new web-based tool in the context of our ongoing controlled vocabularies work and will highlight some of its most prominent features, such as cross-vocabulary searches, group sharing and editing, support for multiple language translations, automated versioning, one-click publishing, and multi-format downloads.
MOESM1 of Guidelines for cell-type heterogeneity quantification based on a comparative analysis of reference-free DNA methylation deconvolution software
Creators: name: Decamps, Clémentine
name: Privé, Florian
name: Bacher, Raphael
name: Jost, Daniel
name: Waguet, Arthur
name: Houseman, Eugene
name: Lurie, Eugene
name: Lutsik, Pavlo
name: Milosavljevic, Aleksandar
name: Scherer, Michael
name: Blum, Michael
name: Richard, Magali
Publisher: name: figshare
Year: 2020
Subjects: subject: Space Science
subject: Medicine
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Biological Sciences not elsewhere classified
subject: Information Systems not elsewhere classified
subject: Mathematical Sciences not elsewhere classified
subject: Cancer
subject: Hematology
subject: Plant Biology

description: Additional file 1: Figure S1. Overview of in silico simulations. Figure S2. Variation of the estimated A MAE depending of the number of patients. Figure S3. Distribution of cell types proportions according to the parameter α0. Figure S4. Variation of the estimated A MAE depending of the cells used for simulations. Figure S5. Impact of the initialization method of RefFreeEwas for a stable Dirichlet simulation. Figure S6. Effect of A matrix initialization on algorithms performances. Figure S7. Impact of the FDR threshold for the removing of confounding factors. Figure S8. Impact of pre-processing for a stable Dirichlet. Figure S9. Determining K is robust to variations in accounting for confounders. Figure S10. Determining K by RefFreeEWAS and MeDeCom. Figure S11. Correlation between estimated and real cell type-specific methylation profiles for a Dirichlet of α0 = 10,000. Figure S12. Efficiency of the pipeline on heterogeneous clinical LUAD tumor samples. Figure S13. Efficiency of the pipeline on heterogeneous clinical LUSC tumor samples. Figure S14. Variation of the error metric: Mean Absolute Error and Root-Mean-Square Error. Figure S15. Impact of lambda parameter for MeDeCom. Figure S16: Effect of probe type on simulations
Band structure of hydrogenated Si nanosheets and nanotubes
Creators: name: Guzmán-Verri, G. G.
name: Voon, L. C. Lew Yan
Publisher: name: arXiv
Year: 2011
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: Materials Science (cond-mat.mtrl-sci)
subject: FOS: Physical sciences

description: The band structure of fully hydrogenated Si nanosheets and nanotubes are elucidated by the use of an empirical tight-binding model. The hydrogenated Si sheet is a semiconductor with indirect band gap of about 2.2 eV. The symmetries of the wave functions allow us to explain the origin of the gap. We predict that, for certain chiralities, hydrogenated Si nanotubes represent a new type of semiconductor, one with co-existing direct and indirect gaps of exactly the same magnitude. This behavior is different from the Hamada rule established for non-hydrogenated carbon and silicon nanotubes. Comparison to an ab initio calculation is made.
description: 9 pages, 4 figures, to appear in J. Phys.: Condens. Matter
Energy in one dimensional linear waves in a string
Creators: name: Burko, Lior M.
Publisher: name: arXiv
Year: 2010
Subjects: subject: Classical Physics (physics.class-ph)
subject: FOS: Physical sciences

description: We consider the energy density and energy transfer in small amplitude, one-dimensional waves on a string, and find that the common expressions used in textbooks for the introductory physics with calculus course give wrong results for some cases, including standing waves. We discuss the origin of the problem, and how it can be corrected in a way appropriate for the introductory calculus based physics course.
description: 5 pages
title: Improving Sample Metadata Descriptions in Earth and Environmental Sciences by using the FAIR SAMPLES Template
Creators: name: Brauser, Alexander
name: Wiezcorek, Mareike
name: Baldewein, Linda
name: Frenzel, Simone
name: Heim, Birgit
name: Kleeberg, Ulrike
name: Leefmann, Tim
name: Norden, Ben
name: Elger, Kirsten
Publisher: name: Deutsche Geologische Gesellschaft - Geologische Vereinigung e.V. (DGGV)
Year: 2023

description:
Physical samples are key elements in the geosciences, providing tangible evidence of geologic and environmental phenomena and often represent the source for scientific findings. The International Generic Sample Number (IGSN) is a globally unique and resolvable persistent identifier (PID) for physical samples. It links the sample with its online description and enables the unambiguous identification, location, and citation of samples in digital research infrastructures.

The FAIR WISH project, funded by the Helmholtz Metadata Collaboration HMC, aims to further standardise IGSN metadata and support scientists in describing their samples for IGSN registration via standardised metadata that are human- and machine actionable. The FAIR SAMPLES template enables the provision of rich sample descriptions for different Geo-Bio-Samples. The template is built as a modular Microsoft Excel spreadsheet to meet the practices of the broader research community. It includes controlled vocabularies to describe sample types, sampling methodology, material, etc., and integrates persistent identifiers (ORCID, ROR) to acknowledge the persons and organisations involved in the sampling process as well as links to text or data publications relevant for the samples. The template further represents the basis for semi-automated creation of metadata XML files that are required for IGSN registration.

Currently, the template is being tested by several heterogeneous projects in the field of Earth and environmental sciences. The data processing workflows and software developed in this project will be completed by the end of 2023 and may serve as a blueprint for other organisations aiming to implement standardised procedures for registering physical samples.
Additional file 2 of A minimal 3D model of mosquito flight behaviour around the human baited bed net
Creators: name: Jones, Jeff
name: Murray, Gregory P D
name: McCall, Philip J
Publisher: name: figshare
Year: 2021
Subjects: subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: Ecology
subject: FOS: Biological sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences

description: Additional file 2. Model Parameter Selection. Virtual mosquito turn angle (RA parameter) affects foraging and occupancy behaviour and flight path tortuosity. Top Figure illustrating how RA parameter affect arena occupancy and flight path tortuosity. Bottom Figure showing individual effects of SA and RA parameters on sensing the attractant plume. A general description of model parameter selection follows.
The obstacle problem for quasilinear stochastic PDE's
Creators: name: Matoussi, Anis
name: Stoica, Lucretiu
Publisher: name: arXiv
Year: 2010
Subjects: subject: Probability (math.PR)
subject: FOS: Mathematics

description: We prove an existence and uniqueness result for the obstacle problem of quasilinear parabolic stochastic PDEs. The method is based on the probabilistic interpretation of the solution by using the backward doubly stochastic differential equation.
description: Published in at http://dx.doi.org/10.1214/09-AOP507 the Annals of Probability (http://www.imstat.org/aop/) by the Institute of Mathematical Statistics (http://www.imstat.org)
Additional file 1 of Disruption of the Novel Small Protein RBR7 Leads to Enhanced Plant Resistance to Blast Disease
Creators: name: Shi, Hui
name: Xiong, Qing
name: Zhao, Zhangjie
name: Zhou, Lian
name: Yin, Junjie
name: Lu, Xiang
name: Chen, Xuewei
name: Wang, Jing
Publisher: name: figshare
Year: 2023
Subjects: subject: Genetics
subject: FOS: Biological sciences
subject: Plant Biology

description: Additional file 1. Fig. S1. Leaf phenotype of rbr7 before M.oryzae inoculation. Fig. S2. Rice blast fungus resistance phenotype of rbr7 with punch inoculation. Fig. S3. Cosegregation analysis of the deletion region inr br7. Fig. S4. Expression of adjacent genes to the deletion region in rbr7. Fig. S5. Rice blast inoculation phenotype of the complemented lines. Fig. S6. Morphological phenotype of Kit, rbr7 and Rbr7-comp. Fig. S7. Rice blast inoculation phenotype of the knockout lines. Fig. S8. Detection of RBR7-GFP protein in subcellular localization. Fig. S9. Leaf phenotype of rbr7 in a growth chamber.
NFDI4Chem: Shaping Digital and Cultural Change in Chemistry
Creators: name: Herres-Pawlis, Sonja
Publisher: name: Zenodo
Year: 2021
Subjects: Research Data Management
Cultural Change
NFDI4Chem

description: More and more chemical digital research data are generated. So, new concepts are essential: In which data formats can data be stored in the long term? How and where can data be stored? Which information of the experiment / the simulation should be noted in the metadata? How can these data be made accessible for group members and other researchers? How can these data be made findable for researchers and AI algorithms? In chemistry, NFDI4Chem tackles the challenges of research data management nationally but also internationally (e.g in the context of IUPAC, EOSC und RDA).[1-3] NFDI4Chem is a consortium consisting of representatives from universities and non-university research institutions, infrastructure facilities and the German Chemical Society, the Bunsen Society and the German Pharmaceutical Society. The focus of the NFDI4Chem consortium is on the molecule itself, its properties and reactions. The project started on 1st October 2020 and this talk will recapitulate the challenges and first steps already done. Moreover, it highlights best practice examples for the chemical community.
description: {"references": ["https://riojournal.com/article/55852/"]}
Additional file 7 of A minimal 3D model of mosquito flight behaviour around the human baited bed net
Creators: name: Jones, Jeff
name: Murray, Gregory P D
name: McCall, Philip J
Publisher: name: figshare
Year: 2021
Subjects: subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: Ecology
subject: FOS: Biological sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences

description: Additional file 7. Table regional occupancy. Peri-bed net region occupancy. Mean time per mosquito (s) occupying each region surrounding the bed net for each condition. Regions and their subregions indicated on left side. Mean counts and Standard Deviation per condition. Summary table indicating total activity time per mosquito (m) for net surface contacts and occupancy within peri-bed net regions.
Modular Random Boolean Networks
Creators: name: Poblanno-Balp, Rodrigo
name: Gershenson, Carlos
Publisher: name: arXiv
Year: 2011
Subjects: subject: Cellular Automata and Lattice Gases (nlin.CG)
subject: Adaptation and Self-Organizing Systems (nlin.AO)
subject: Molecular Networks (q-bio.MN)
subject: FOS: Physical sciences
subject: FOS: Biological sciences
subject: F.1.1; H.3.4; J.3

description: Random Boolean networks (RBNs) have been a popular model of genetic regulatory networks for more than four decades. However, most RBN studies have been made with random topologies, while real regulatory networks have been found to be modular. In this work, we extend classical RBNs to define modular RBNs. Statistical experiments and analytical results show that modularity has a strong effect on the properties of RBNs. In particular, modular RBNs have more attractors and are closer to criticality when chaotic dynamics would be expected, compared to classical RBNs.
description: 33 pages, 14 figures, 11 tables. Corrected version, added experiments with large networks confirming results. Accepted in Artificial Life
MS27 Code repository for standard Dataselect-WS from new non-standard big datasets in seismology
Creators: name: Quinteros, Javier
name: Cristiano, Luigia
Publisher: name: Zenodo
Year: 2021
Subjects: EOSC
Open Science
Seismology

description: This milestone presents the repository of reference including different services and tools to provide new seismological data types in standard formats. An analysis of the challenges related to the inclusion of big datasets in seismological data centers, regarding data formats and services was published in a high-impact-factor journal (Seismological Research Letters). On this manuscript, we present initial conclusions from the user survey mentioned earlier and summarize the landscape in seismology regarding big datasets and what this implies for standard services and data formats in the community. Potential solutions are also discussed. Other outcomes from the Task 6.7 are also presented in this report. For instance, a User Survey answered by seismologists working with big datasets. Discover the EOSC-Pillar use case 6.7 https://bit.ly/3vsLdC8