bluuebunny/crossref_metadata_2025_split huggingface dataset:
Plant Science Data Integration, from Building Community Standards to Defining a Consistent Data Lifecycle
Authors: Pommier Cyril , Coppens Frederik , Ćwiek-Kupczyńska Hanna , Faria Daniel , Beier Sebastian , Miguel Célia , Michotey Célia , D’Anna Flora , Owen Stuart , Gruden Kristina 
Published: October 2022

AbstractFAIR (Findable, Accessible, Interoperable, Reusable) data principles for plant research build upon experience from other life science domains such as genomics. But plant specificities, e.g. plant-environment interactions or phenotypes, require tailored solutions. Major global players have joined forces to answer that challenge with the Minimal Information About a Plant Phenotyping Experiment (MIAPPE, www.miappe.org) that handles general metadata organization and its companion web service API, the Breeding API (www.brapi.org). Both rely on two established data standards, the MultiCrop Passport Descriptors (MCPD) for identification of plant genetic resources and the Crop Ontology (www.cropontology.org) for trait documentation. Researcher communities’ coordination and collaborative approaches have enabled the success and adoption of MIAPPE and led to a general data lifecycle description by ELIXIR Plant Sciences Community to identify gaps and needed developments. A priority has been placed on addressing the “first mile” of data publishing, i.e. the gathering and documentation of data by the researcher, which enables relevant data findability and reusability. Here we describe the existing ecosystem of tools and standards for plant scientists as well as their history, including their convergence through the use of MIAPPE for describing genotyping datasets.
Data, Duplication, and Decentralisation: Gene Bank Management in the 1980s and 1990s
Authors: Curry Helen Anne 
Published: October 2022

AbstractIn the 1970s, the number of accessions held in national and international seed and gene banks increased steadily. This growth, initially a source of pride, was recognised as a liability by the 1980s. Too many accessions lacked the basic information necessary for researchers to access and use samples knowledgably. Many gene banks came under scrutiny for poor management practices and several found themselves accused of mishandling a ‘global patrimony’ entrusted to their care. In this paper, I explore one response to these concerns that attracted attention from many in the germplasm conservation community: creating linked, standardised databases of collections. Calls for more and better data about accessions often emphasised that these data would make collections easier to use and therefore more valued. Here I take a close look at the early history of data collation and standardisation as a means of ‘rationalising’ collections, a motivation that was not advertised as prominently. This historical example shows the infrastructures developed to facilitate data exchange in the context of seed and gene banking to have been tied up with both mundane imperatives to cut costs and lofty goals of building political bridges—in addition to the often-repeated ambition of making plant breeding more efficient.
Introduction: Figure, Figuring and Configuration
Authors: Lury Celia , Viney William , Wark Scott 
Published: October 2022

AbstractThis introduction will outline the concept and practice of “figure” and “figuration.” The word “figure” can refer to numbers, characters in text or representations of persons or other entities in images or to a movement or series of movements, a diagram or a short succession of notes. In uses such as prefiguring, configuring, and disfiguring, it can refer to a process, opening questions of ordering, causality, premonition, (retrospective) fulfilment, prophecy, anticipation, redemption and pre-emption. As a noun, configuration can refer to an assemblage or the ways in which technologies materialise cultural imaginaries. Figures sit between the representational and the abstract; they can be inhabited and, in being inhabited, can be turned. We conclude by inviting readers to “go figure!”
Figures of Speech: Stuck in the Middle with ‘People Like You’
Authors: Lury Celia 
Published: October 2022

AbstractThis chapter discusses three figures of speech: the organization Not In Our Name (NION), #JeSuisCharlie and #MeToo and describes the ways in which, as figures of speech, they constitute persons through a consideration of the use of names, pronouns and numbers. Concerns include whether the person so constituted is singular or plural, how participation in the figure of speech is configured, whether the persons are recognized to be ‘proper’, and whether and how the persons can speak the truth. The conclusion brings these concerns together in the proposal that what distinguishes the persons of #JeSuisCharlie and #MeToo is that they are ‘stuck in the middle’ with ‘People Like You’.
Distinctive aspects of the placental epigenome and theories as to how they arise
Authors: Pastor William A. , Kwon Sin Young 
Published: October 2022

AbstractThe placenta has a methylome dramatically unlike that of any somatic cell type. Among other distinctions, it features low global DNA methylation, extensive “partially methylated domains” packed in dense heterochromatin and methylation of hundreds of CpG islands important in somatic development. These features attract interest in part because a substantial fraction of human cancers feature the exact same phenomena, suggesting parallels between epigenome formation in placentation and cancer. Placenta also features an expanded set of imprinted genes, some of which come about by distinctive developmental pathways. Recent discoveries, some from far outside the placental field, shed new light on how the unusual placental epigenetic state may arise. Nonetheless, key questions remain unresolved.
Optimal Convergence Rate in the Quantum Zeno Effect for Open Quantum Systems in Infinite Dimensions
Authors: Möbus Tim , Rouzé Cambyse 
Published: October 2022

AbstractIn open quantum systems, the quantum Zeno effect consists in frequent applications of a given quantum operation, e.g., a measurement, used to restrict the time evolution (due, for example, to decoherence) to states that are invariant under the quantum operation. In an abstract setting, the Zeno sequence is an alternating concatenation of a contraction operator (quantum operation) and a $$C_0$$

C
0

-contraction semigroup (time evolution) on a Banach space. In this paper, we prove the optimal convergence rate $$\mathcal {O}(\tfrac{1}{n})$$

O
(

1
n

)

of the Zeno sequence by proving explicit error bounds. For that, we derive a new Chernoff-type $$\sqrt{n}$$

n

-Lemma, which we believe to be of independent interest. Moreover, we generalize the convergence result for the Zeno effect in two directions: We weaken the assumptions on the generator, inducing the Zeno dynamics generated by an unbounded generator, and we improve the convergence to the uniform topology. Finally, we provide a large class of examples arising from our assumptions.
Redox conditions and a moderate anthropogenic impairment of groundwater quality reflected on the microbial functional traits in a volcanic aquifer
Authors: Melita Marco , Amalfitano Stefano , Preziosi Elisabetta , Ghergo Stefano , Frollini Eleonora , Parrone Daniele , Zoppini Annamaria 
Published: October 2022

AbstractGroundwater is an important freshwater resource and hosts specialized microbial assemblages providing fundamental ecosystem services. The current knowledge on the role of aquatic microorganisms in subsurface ecosystems is still limited. This work aimed to explore the links between groundwater hydrogeochemical properties and microbial community traits in a volcanic unconfined aquifer, moderately impacted by anthropic activities. The main physical and chemical parameters of groundwater samples were analyzed, along with microbial biomass (total cell counts, ATP-active biomass concentration), potential metabolic activity, and physiological profiles at the microbial community level (Biolog ™ EcoPlates). The results showed the coexistence of oxidizing and reducing groundwater conditions across the study area. We discriminated two groups of oxidizing/reducing groundwater samples (Ox and Red), each including two subgroups with different chemical conditions attributed to contrasting levels of anthropogenic impact for non-intensive agricultural practices and waste disposal activities (Ox − and Ox + ; Red − and Red +). Although the microbial biomass was likely not affected by changing redox, the microbial metabolic potential and functional diversity changed significantly. In the Ox samples, the community-level physiological profiles were different, mainly owing to the utilization of carboxylic acids (Ox −  > Ox +) and carbohydrates (Ox +  > Ox −). In the Red samples, a wider set of organic substrates were consumed by the microbial communities, including those less bioavailable (e.g., phenols). Significant differences were also found between Red − and Red + , mainly owing to the relative increase in the utilization of amino acids in Red − , polymers and amines in Red + , along with the active biomass. By reflecting the local redox conditions and moderate levels of anthropogenic impact, the applied approach highlighted changes of microbial metabolic potential and physiological profiles that imply direct repercussions on biogeochemical cycling and the ecosystem services provided by groundwater microorganisms.
Lokale Therapie von venösen Ulzera mit niedrig dosiertem rekombinantem, humanem „granulocyte-macrophage colony-stimulating factor“ (rhu GM-CSF), 10 Jahre Nachbeobachtung
Authors: Jaschke Erna , Umlauft Julian , Palmer-Reichel Karin , Oberaigner Wilhelm , Schmuth Matthias 
Published: October 2022

Zusammenfassung
Hintergrund
Venöse Ulcera cruris treten in 1 % der Bevölkerung in industrialisierten Ländern auf. Ihre Behandlung ist schwierig und kostspielig. Eine komplette Abheilung zu erzielen ist langwierig, und die Rezidivrate ist hoch, bis zu 69 % im ersten Jahr nach der Abheilung.

Fragestellung
In dieser Studie untersuchten wir, ob durch die lokale Therapie der venösen Ulzera mit niedrig dosiertem GM-CSF die Abheilraten verbessert und Rezidive verringert werden können.

Methoden
Wir behandelten alle konsekutiven Patienten mit einem chronisch venösen Ulkus lokal mit einer niedrig dosierten GM-CSF-Lösung (10 µg/ml 0,9 %ige Kochsalzlösung, entsprechend einer Dosis von1,0–2,3 µg/cm2 Wundoberfläche). Alle Patienten waren über mehrere Wochen (median 8 Wochen) erfolglos mit anderen Lokaltherapien vorbehandelt. Bei allen Patienten erfolgte begleitend eine adäquate Therapie der venösen Insuffizienz.

Ergebnisse
Von 130 Patienten sind bei 119 (91,5 %) Patienten die Ulzera komplett abgeheilt. Lokale oder systemische Nebenwirkungen wurden nicht beobachtet. Die mittlere Abheilzeit war 24 Wochen (median 14 Wochen). Wir konnten alle 119 abgeheilten Patienten nachverfolgen. Die mediane Nachbeobachtungszeit betrug 84 Monate. Die Rezidivrate betrug nach 1 Jahr 5,2 %, nach 4 Jahren 18,9 %, nach 10 Jahren 32,0 %

Schlussfolgerung
Die Behandlung venöser Ulzera mit lokal appliziertem, niedrig dosiertem GM-CSF erwies sich als sichere, hochwirksame und kostengünstige Therapie. Die Abheilrate ist ebenso hoch wie in der ESCHAR Studie (Effects of Surgery and Compression on Healing And Recurrence in venous ulceration), und die Rezidivrate ist niedriger als in der Literatur angegeben. Die GM-CSF-Therapie erfolgte ausschließlich ambulant. Es waren keine Spitalaufenthalte notwendig.
Bachmann–Howard derivatives
Authors: Freund Anton 
Published: October 2022

AbstractIt is generally accepted that H. Friedman’s gap condition is closely related to iterated collapsing functions from ordinal analysis. But what precisely is the connection? We offer the following answer: In a previous paper we have shown that the gap condition arises from an iterative construction on transformations of partial orders. Here we show that the parallel construction for linear orders yields familiar collapsing functions. The iteration step in the linear case is an instance of a general construction that we call ‘Bachmann–Howard derivative’. In the present paper, we focus on the unary case, i.e., on the gap condition for sequences rather than trees and, correspondingly, on addition-free ordinal notation systems. This is partly for convenience, but it also allows us to clarify a phenomenon that is specific to the unary setting: As shown by van der Meeren, Rathjen and Weiermann, the gap condition on sequences admits two linearizations with rather different properties. We will see that these correspond to different recursive constructions of sequences.
Motor cortex excitability in chronic low back pain
Authors: Corti E. J. , Marinovic W. , Nguyen A. T. , Gasson N. , Loftus A. M. 
Published: October 2022

AbstractChronic pain is associated with dysfunctional cortical excitability. Research has identified altered intracortical motor cortex excitability in Chronic Lower Back Pain (CLBP). However, research identifying the specific intracortical changes underlying CLBP has been met with inconsistent findings. In the present case–control study, we examined intracortical excitability of the primary motor cortex using transcranial magnetic stimulation (TMS) in individuals with CLBP. Twenty participants with CLBP (Mage = 54.45 years, SDage = 15.89 years) and 18 age- and gender-matched, pain-free controls (M = 53.83, SD = 16.72) were included in this study. TMS was applied to the hand motor area of the right hemisphere and motor evoked potentials (MEPs) were recorded from the first dorsal interosseous muscle of the contralateral hand. Resting motor threshold (rMT) and MEP amplitude were measured using single-pulse stimulation. Short interval intracortical inhibition (SICI) and intracortical facilitation (ICF) were assessed using paired-pulse stimulation. Individuals with CLBP had significantly higher rMT (decreased corticospinal excitability) and lower ICF compared to controls. No significant differences were found in MEP amplitude and SICI. These findings add to the growing body of evidence that CLBP is associated with deficits in intracortical modulation involving glutamatergic mechanisms.
The effect of nasal Staphylococcus aureus colonization and antibiotic treatment on disease activity in ANCA-associated vasculitis: a retrospective cohort study in the Netherlands
Authors: Schaap Caroline M. , Krol Roline M. , Remmelts Hilde H. F. , Klaasen Ruth , Hagen E. Christiaan , Spierings Julia , Heijstek Marloes W. 
Published: October 2022

AbstractThe aim of this study was to identify the role of nasal Staphylococcus aureus (S. aureus) colonization and the effect of systemic or local antibiotic treatment on disease activity in patients with antineutrophil cytoplasmic antibodies (ANCA) associated vasculitis and ear nose and throat (ENT) involvement. Clinical, laboratory and histological data from all patients with ANCA-associated vasculitis and ENT involvement, who were diagnosed in two medical centres in The Netherlands between 1981 and 2020, were retrospectively collected. Nasal S. aureus colonization was defined as at least one positive nasal swab during follow-up. Data on systemic (cotrimoxazole and azithromycin) and local (mupirocin) antibiotic use were collected. Disease activity was divided into systemic and local disease activity. Univariate analyses and regression analyses (negative binomial Poisson and binary regression) were used. Two-hundred and thirteen patients were available for analysis. Median follow-up time was 8 (IQR 3–17) years. S. aureus colonization was tested in 100 (46.9%) cases of whom 44 patients (44%) tested positive. In these 100 patients, systemic and local disease activity at baseline and at last visit were comparable between patients with and without S. aureus colonization. Twenty-eight of the 44 S. aureus positive patients received antibiotics aimed at eradication of S. aureus. No statistically significant difference was found between the treated versus non-treated group with regard to systemic and local disease activity. Nasal S. aureus colonization does not influence systemic or local disease activity. Antibiotic treatment aimed at eradication did not modify disease activity.
Low rate of function-limiting side effects with high-dose adjuvant radiotherapy in high-grade soft tissue extremity sarcomas: a retrospective single-center analysis over 10 years
Authors: Koeksal Muemtaz , van der Hoek Maike , Scafa Davide , Koch David , Leitzen Christina , Schmeel Leonard C. , Feldmann Georg , Strauss Andreas , Koob Sebastian , Giordano Frank A. 
Published: October 2022

Abstract
Background
Over the years, radiotherapy has been established as a tool to improve local control for high-grade sarcomas. Although the European Society for Medical Oncology guidelines has taken notice of a shift toward a neoadjuvant radiotherapy approach, the American Society for Radiation Oncology guidelines clearly favor a neoadjuvant approach, citing debilitating long-term adverse effects when radiotherapy is applied postoperatively. In this study, we examined these irradiation-associated adverse events for adjuvant radiotherapy and focused on the prognostic factors for disease outcome, including local control.

Methods
In this retrospective study, data for 106 patients with extremity soft-tissue sarcomas diagnosed between 1997 and 2021, of which 40 received adjuvant radiotherapy, were collected from the clinical and radiological information systems of a high-volume sarcoma treatment center. These data were then analyzed for radiation-associated side effects as well as predictive factors for overall survival, disease-free survival, local control, and surgical complications.

Results
Radiotherapy was beneficial to patients improving local control, especially for high-grade sarcomas, even when those were resected with negative margins. Side effects due to radiotherapy occurred in 87.5% of the patients, and these effects primarily included radiation dermatitis in 67.5%; however, only 40.0% had any adverse event of ≥ grade 2 according to Common Terminology Criteria for Adverse Events. Long-term function-limiting side effects occurred in 45.0% of the patients; 10% exhibited ≥ grade 2 function-limiting adverse events. Greater time between surgery and adjuvant radiotherapy was beneficial for the patients, whereas joint infiltrating sarcomas were associated with more severe long term, function-limiting adverse events. 28.3% of the patients experienced a recurrence at any location (median time 18.35 months) and in 16% the recurrence was local (median time 16.11 months), resulting in 1, 3, and 5 year disease-free survival rates of 74.1, 58.9, and 38.5% and local control rates of 78.7, 61.6, and 42.8% were observed, respectively.

Conclusion
Recurrences may be avoided with high-dose radiation, especially for high-grade G2 and G3 sarcomas, even after complete R0 resection. This resulted in a low rate of severe long-term function-limiting adverse events. Thus, adjuvant radiotherapy should be seriously considered when planning patient treatment, especially when treating patients that present with high-grade sarcomas.
Serious gaming and virtual reality in the multimodal training of laparoscopic inguinal hernia repair: a randomized crossover study
Authors: Lang Franziska , Willuth E. , Haney C. M. , Felinska E. A. , Wennberg E. , Kowalewski K. F. , Schmidt M. W. , Wagner M. , Müller-Stich B. P. , Nickel F. 
Published: October 2022

Abstract
Background
The aim of this study was to assess the transferability of surgical skills for the laparoscopic hernia module between the serious game Touch Surgery™ (TS) and the virtual reality (VR) trainer Lap Mentor™. Furthermore, this study aimed to collect validity evidence and to discuss “sources of validity evidence” for the findings using the laparoscopic inguinal hernia module on TS.

Methods
In a randomized crossover study, medical students (n = 40) in their clinical years performed laparoscopic inguinal hernia modules on TS and the VR trainer. TS group started with “Laparoscopic Inguinal Hernia Module” on TS (phase 1: Preparation, phase 2: Port Placement and Hernia Repair), performed the module first in training, then in test mode until proficiency was reached. VR group started with “Inguinal Hernia Module” on the VR trainer (task 1: Anatomy Identification, task 2: Incision and Dissection) and also performed the module until proficiency. Once proficiency reached in the first modality, the groups performed the other training modality until reaching proficiency. Primary endpoint was the number of attempts needed to achieve proficiency for each group for each task/phase.

Results
Students starting with TS needed significantly less attempts to reach proficiency for task 1 on the VR trainer than students who started with the VR trainer (TS = 2.7 ± 0.6 vs. VR = 3.2 ± 0.7; p = 0.028). No significant differences for task 2 were observed between groups (TS = 2.3 ± 1.1 vs. VR = 2.1 ± 0.8; p = 0.524). For both phases on TS, no significant skill transfer from the VR trainer to TS was observed. Aspects of validity evidence for the module on TS were collected.

Conclusion
The results show that TS brought additional benefit to improve performances on the VR trainer for task 1 but not for task 2. Skill transfer from the VR trainer to TS could not be shown. VR and TS should thus be used in combination with TS first in multimodal training to ensure optimal training conditions.
Konsensusstatement der Migräne- und Kopfschmerzgesellschaften (DMKG, ÖKSG & SKG) zur Therapiedauer der medikamentösen Migräneprophylaxe
Authors: Goßrau Gudrun , Förderreuther Stefanie , Ruscheweyh Ruth , Ruschil Victoria , Sprenger Till , Lewis David , Kamm Katharina , Freilinger Tobias , Neeb Lars , Malzacher Volker , Meier Uwe , Gehring Klaus , Kraya Torsten , Dresler Thomas , Schankin Christoph J. , Gantenbein Andreas R. , Brössner Gregor , Zebenholzer Karin , Diener Hans-Christoph , Gaul Charly , Jürgens Tim P. 
Published: October 2022

ZusammenfassungMigräne ist die häufigste neurologische Erkrankung und kann mit einem hohen Grad der Beeinträchtigung einhergehen. Neben nichtmedikamentösen Ansätzen zur Reduktion der Migränefrequenz stehen medikamentöse Migräneprophylaxen zur Verfügung. Zur Indikation und Anwendung liegen evidenzbasierte Leitlinien der Deutschen Migräne- und Kopfschmerzgesellschaft (DMKG) und Deutschen Gesellschaft für Neurologie (DGN), Österreichischen Kopfschmerzgesellschaft (ÖKSG) sowie Schweizer Kopfwehgesellschaft (SKG) vor. Für therapierelevante Fragen wie z. B. der notwendigen und sinnvollen Dauer einer medikamentösen Migräneprophylaxe können aus bisherigen Studiendaten keine Rückschlüsse gezogen werden. Ziel dieser Übersicht ist die Formulierung von Empfehlungen zur Therapiedauer bei wirksamer medikamentöser Migräneprophylaxe, die die aktuelle Datenlage und – bei fehlenden Daten – die Expertenmeinungen berücksichtigen.