cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Dissecting the early steps of MLL induced leukaemogenic transformation using a mouse model of AML
Creators: name: Basilico, Silvia
name: Wang, Xiaonan
name: Kennedy, Alison
name: Tzelepis, Konstantinos
name: Giotopoulos, George
name: Kinston, Sarah J.
name: Quiros, Pedro M.
name: Wong, Kim
name: Adams, David J.
name: Carnevalli, Larissa S.
name: Huntly, Brian J. P.
name: Vassiliou, George S.
name: Calero-Nieto, Fernando J.
name: Göttgens, Berthold
Publisher: name: Apollo - University of Cambridge Repository
Year: 2020
Subjects: Article
/631/1647/514/2254
/631/67/1990/283/1897
/631/208/4041
/38/91
/38/22
/38/23
/38/39
/13/31
/42/47
/64/60
/96/21
article

description: Abstract: Leukaemogenic mutations commonly disrupt cellular differentiation and/or enhance proliferation, thus perturbing the regulatory programs that control self-renewal and differentiation of stem and progenitor cells. Translocations involving the Mll1 (Kmt2a) gene generate powerful oncogenic fusion proteins, predominantly affecting infant and paediatric AML and ALL patients. The early stages of leukaemogenic transformation are typically inaccessible from human patients and conventional mouse models. Here, we take advantage of cells conditionally blocked at the multipotent haematopoietic progenitor stage to develop a MLL-r model capturing early cellular and molecular consequences of MLL-ENL expression based on a clear clonal relationship between parental and leukaemic cells. Through a combination of scRNA-seq, ATAC-seq and genome-scale CRISPR-Cas9 screening, we identify pathways and genes likely to drive the early phases of leukaemogenesis. Finally, we demonstrate the broad utility of using matched parental and transformed cells for small molecule inhibitor studies by validating both previously known and other potential therapeutic targets.
Partonic Scattering Cross Sections in the QCD Medium
Creators: name: Ruppert, Joerg
name: Nayak, Gouranga C.
name: Dietrich, Dennis D.
name: Stoecker, Horst
name: Greiner, Walter
Publisher: name: arXiv
Year: 2001
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: High Energy Physics - Theory (hep-th)
subject: Nuclear Theory (nucl-th)
subject: FOS: Physical sciences

description: A medium modified gluon propagator is used to evaluate the scattering cross section for the process gg-->gg in the QCD medium by performing an explicit sum over the polarizations of the gluons. We incorporate a magnetic sreening mass from a non-perturbative study. It is shown that the medium modified cross section is finite, divergence free, and is independent of any ad-hoc momentum transfer cut-off parameters. The medium modified finite cross sections are necessary for a realistic investigation of the production and equilibration of the minijet plasma expected at RHIC and LHC.
description: 11 pages, Latex, 3 figures (eps), typos corrected
Hoplitis (Anthocopa) ornatula Kuhlmann & Gess & Koch & Gess 2011, comb. nov.
Creators: name: Kuhlmann, M.
name: Gess, F. G.
name: Koch, F.
name: Gess, S. K.
Publisher: name: Zenodo
Year: 2011
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Hymenoptera
Megachilidae
Hoplitis
Hoplitis ornatula

description: Hoplitis (Anthocopa) ornatula (Cockerell, 1932) comb. nov.
 Osmia ornatula Cockerell, 1932b: 453–454.
 Female type: B.M. Type HYM.17a.2526 / (Cockerell’s handwriting): Osmia ornatula Ckll. TYPE / (handwritten): Graaf Reinet [sic!], C.P., Oct. 26, J.O. / T. D.A. Cockerell Exp. to Africa 1931. Pres. by Imp. Inst. Ent. B.M. 1932-291 (NHML).
description: Published as part of Kuhlmann, M., Gess, F. G., Koch, F. & Gess, S. K., 2011, Southern African osmiine bees: taxonomic notes, two new species, a key to Wainia, and biological observations (Hymenoptera: Anthophila: Megachilidae), pp. 1-24 in Zootaxa 3108 on page 8
Optimization and learning of quantum programs
Creators: name: Banchi, Leonardo
name: Pereira, Jason
name: Lloyd, Seth
name: Pirandola, Stefano
Publisher: name: arXiv
Year: 2019
Subjects: subject: Quantum Physics (quant-ph)
subject: Other Condensed Matter (cond-mat.other)
subject: Mathematical Physics (math-ph)
subject: Computational Physics (physics.comp-ph)
subject: FOS: Physical sciences

description: A programmable quantum processor is a fundamental model of quantum computation. In this model, any quantum channel can be approximated by applying a fixed universal quantum operation onto an input state and a quantum `program' state, whose role is to condition the operation performed by the processor. It is known that perfect channel simulation is only possible in the limit of infinitely large program states, so that finding the best program state represents an open problem in the presence of realistic finite-dimensional resources. Here we prove that the search for the optimal quantum program is a convex optimization problem. This can be solved either exactly, by minimizing a diamond distance cost function via semi-definite programming, or approximately, by minimizing other cost functions via gradient-based machine learning methods. We apply this general result to a number of different designs for the programmable quantum processor, from the shallow protocol of quantum teleportation, to deeper schemes relying on port-based teleportation and parametric quantum circuits. We benchmark the various designs by investigating their optimal performance in simulating arbitrary unitaries, Pauli and amplitude damping channels.
description: REVTeX 23 pages. 13 figures. Long version of arXiv:1905.01316
title: The perinatal experiences of refugee, migrant and asylum seeker women as part of the implementation of the Oramma Project at the Refugee Reception Center of Alexandria, Northern Greece.
title: Οι περιγεννητικές εμπειρίες προσφύγων, μεταναστών, αιτούντων άσυλο γυναικών στα πλαίσια της εφαρμογής του προγράμματος ORAMMA στη δομή φιλοξενίας προσφύγων Αλεξάνδρειας της Βορείου Ελλάδος.
titleType: AlternativeTitle
Creators: name: Ζιώγου, Ρεβέκκα
Publisher: name: Πανεπιστήμιο Δυτικής Αττικής
Year: 2021
Subjects: Refugee
Migration
Asylum seeker
Perinatal care
Labour
Vulnerable women
Reception centers
Prenatal care
Postnatal care
Perinatal mortality
Maternity care
Antenatal care
Migrant/ refugee/asylum seeker experiences
Qualitative interviews

description: Background: Proper perinatal care contributes to the birth of healthy babies and the reduction of maternal and neonatal mortality. As women from Middle Eastern countries get married noticeably young, give birth at such young age and have many children, proper information from a midwife is essential. Purpose: The aim of this study is to investigate the experiences of refugee women in the provision of perinatal care by a midwife in the Refugee Accommodation Center of Alexandria, Imathia, within the context of the ORAMMA project’s guidelines. Sample and Method: This is a qualitative research which was conducted by face to face, in depth interviews. A questionnaire with open-ended questions was used as a guide for data collection. The sample used was pregnant women during the second and third trimester, as well as postnatal women. Results: Refugee women claimed they were satisfied with the care they received at the Refugee Reception Center in Alexandria by their midwife. The main difficulties these women faced were the lack of interpreters during hospital visits, bureaucracy issues, transportation to the hospitals, and cultural-religious problems. Conclusions: Women were satisfied by the services their midwife provided at the Refugee Reception Center in Alexandria. This fact confirms that the perinatal care in Refugee Camps in Greece is at a high level. There is a vital necessity of having more interpreters in hospitals. Health care professionals working with refugees, migrants and asylum seekers must be properly trained in managing any incident that might occur in such a vulnerable group of people, and be aware of their cultural differences, in order to avoid racist behaviors.
MOESM5 of Chromosomal phylogeny and comparative chromosome painting among Neacomys species (Rodentia, Sigmodontinae) from eastern Amazonia
Creators: name: Willam Oliveira Da Silva
name: Pieczarka, Julio
name: Marlyson Rodrigues Da Costa
name: Ferguson-Smith, Malcolm
name: O’Brien, Patricia
name: Mendes-Oliveira, Ana
name: Rossi, Rogério
name: Cleusa Nagamachi
Publisher: name: figshare
Year: 2019
Subjects: subject: Medicine
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Evolutionary Biology
subject: Ecology
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified

description: Additional file 5. Analysis and description of characters and characters states.
Hoplitis (Anthocopa) orthodonta Kuhlmann & Gess & Koch & Gess 2011, comb. nov.
Creators: name: Kuhlmann, M.
name: Gess, F. G.
name: Koch, F.
name: Gess, S. K.
Publisher: name: Zenodo
Year: 2011
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Hymenoptera
Megachilidae
Hoplitis
Hoplitis orthodonta

description: Hoplitis (Anthocopa) orthodonta (Cockerell, 1932) comb. nov.
(Figs 2e–f)
 Osmia orthodonta Cockerell, 1932a: 364.
 Male type: B.M. Type HYM.17a.2527 / (Cockerell’s handwriting): Osmia orthodonta Ckll. TYPE / (handwritten): Graaf Reinet [sic!], C.P., Oct. 26, J.O. / T. D.A. Cockerell Exp. to Africa 1931. Pres. by Imp. Inst. Ent. B.M. 1932-291 (NHML).
description: Published as part of Kuhlmann, M., Gess, F. G., Koch, F. & Gess, S. K., 2011, Southern African osmiine bees: taxonomic notes, two new species, a key to Wainia, and biological observations (Hymenoptera: Anthophila: Megachilidae), pp. 1-24 in Zootaxa 3108 on page 8
Wormhole solutions with a polynomial equation-of-state and minimal violation of the null energy condition
Creators: name: Parsaei, Foad
name: Rastgoo, Sara
Publisher: name: arXiv
Year: 2019
Subjects: subject: General Relativity and Quantum Cosmology (gr-qc)
subject: FOS: Physical sciences

description: This paper discusses wormholes supported by general equation-of-state , resulting in a significant combination of the linear equation-of-state and some other models. Wormhole with a quadratic equation-of-state is studied as a particular example. It is shown that the violation of null energy condition is restricted to some regions in the vicinity of the throat. The combination of barotropic and polytropic equation-of-state has been studied. We consider fluid near the wormhole throat in an exotic regime which at some $r=r_{1}$, the exotic regime is connected to a distribution of asymptotically dark energy regime with $-1
description: 12 pages, 13 figures
Ultrafast melting and recovery of collective order in the excitonic insulator Ta 2 NiSe 5
Creators: name: Bretscher, Hope M.
name: Andrich, Paolo
name: Telang, Prachi
name: Singh, Anupam
name: Harnagea, Luminita
name: Sood, A. K.
name: Rao, Akshay
Publisher: name: Apollo - University of Cambridge Repository
Year: 2021
Subjects: Article
/639/766/119/995
/639/766/119/2795
/639/766/119/999
/140/125
article

description: Abstract: The layered chalcogenide Ta2NiSe5 has been proposed to host an excitonic condensate in its ground state, a phase that could offer a unique platform to study and manipulate many-body states at room temperature. However, identifying the dominant microscopic contribution to the observed spontaneous symmetry breaking remains challenging, perpetuating the debate over the ground state properties. Here, using broadband ultrafast spectroscopy we investigate the out-of-equilibrium dynamics of Ta2NiSe5 and demonstrate that the transient reflectivity in the near-infrared range is connected to the system’s low-energy physics. We track the status of the ordered phase using this optical signature, establishing that high-fluence photoexcitations can suppress this order. From the sub-50 fs quenching timescale and the behaviour of the photoinduced coherent phonon modes, we conclude that electronic correlations provide a decisive contribution to the excitonic order formation. Our results pave the way towards the ultrafast control of an exciton condensate at room temperature.
Additional file 2: of DNA methylome-wide alterations associated with estrogen receptor-dependent effects of bisphenols in breast cancer
Creators: name: Z. Awada
name: R. Nasr
name: R. Akika
name: V. Cahais
name: C. Cuenin
name: M. Zhivagui
name: Z. Herceg
name: A. Ghantous
name: N. Zgheib
Publisher: name: figshare
Year: 2019
Subjects: subject: Biochemistry
subject: Space Science
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Cancer
subject: Plant Biology

description: Supporting Tables S1â S4. (DOCX 24.9 kb)
Microscopic Calculation of the Constitutive Relations
Creators: name: Brouder, Christian
name: Rossano, Stephanie
Publisher: name: arXiv
Year: 2002
Subjects: subject: Classical Physics (physics.class-ph)
subject: FOS: Physical sciences

description: Homogenization theory is used to calculate the macroscopic dielectric constant from the quantum microscopic dielectric function in a periodic medium. The method can be used to calculate any macroscopic constitutive relation, but it is illustrated here for the case of electrodynamics of matter. The so-called cell problem of homogenization theory is solved and an explicit expression is given for the macroscopic dielectric constant in a form akin to the Clausius-Mossotti or Lorentz-Lorenz relation. The validity of this expression is checked by showing that the macroscopic dielectric constant is causal and has the expected symmetry properties, and that the average of the microscopic energy density is the macroscopic one. Finally, the general expression is applied to Bloch eigenstates. Finally, the corresponding many-body problem is briefly discussed.
description: 14 pages, 2 figures
Correct estimate of the probability of false detection of the matched filter in weak-signal detection problems. III (Peak distribution method versus the Gumbel distribution method)
Creators: name: Vio, R.
name: Andreani, P.
name: Biggs, A.
name: Hayatsu, N.
Publisher: name: arXiv
Year: 2019
Subjects: subject: Instrumentation and Methods for Astrophysics (astro-ph.IM)
subject: FOS: Physical sciences

description: The matched filter (MF) represents one of the main tools to detect signals from known sources embedded in the noise. In the Gaussian case the noise is assumed to be the realization of a Gaussian random field (GRF). The most important property of the MF, the maximization of the probability of detection subject to a constant probability of false detection or false alarm (PFA), makes it one of the most popular techniques. However, the MF technique relies upon the a priori knowledge of the number and the position of the searched signals in the GRF which usually are not available. A typical way out is to assume that the position of a signal coincides with one of the peaks in the matched filtered data. A detection is claimed when the probability that a given peak is due only to the noise (i.e. the PFA) is smaller than a prefixed threshold. In this case the probability density function (PDF) of the amplitudes has to be used for the computation of the PFA, which is different from the Gaussian. Moreover, the probability that a detection is false depends on the number of peaks present in the filtered GRF, the greater the number of peaks in a GRF, the higher the probability of peaks due to the noise that exceed the detection threshold. If not taken into account, the PFA can be severely underestimated. Many solutions proposed to this problem are non-parametric hence not able to exploit all the available information. This limitation has been overcome by means of two efficient parametric approaches, one based on the PDF of the peak amplitudes of a smooth and isotropic GRF whereas the other uses the Gumbel distribution (the asymptotic PDF of the corresponding extreme). Simulations and ALMA maps show that, although the two methods produce almost identical results, the first is more flexible and allows us to check the reliability of the detection procedure.
description: A&A, in press, 2019
Effects of age-related hearing loss and hearing aid experience on sentence processing
Creators: name: Vogelzang, Margreet
name: Thiel, Christiane M.
name: Rosemann, Stephanie
name: Rieger, Jochem W.
name: Ruigendijk, Esther
Publisher: name: Apollo - University of Cambridge Repository
Year: 2021
Subjects: Article
/631/378/2612
/631/378
/631/378/2619
article

description: Funder: Carl von Ossietzky Universität Oldenburg (3092)
description: Abstract: Age-related hearing loss typically affects the hearing of high frequencies in older adults. Such hearing loss influences the processing of spoken language, including higher-level processing such as that of complex sentences. Hearing aids may alleviate some of the speech processing disadvantages associated with hearing loss. However, little is known about the relation between hearing loss, hearing aid use, and their effects on higher-level language processes. This neuroimaging (fMRI) study examined these factors by measuring the comprehension and neural processing of simple and complex spoken sentences in hard-of-hearing older adults (n = 39). Neither hearing loss severity nor hearing aid experience influenced sentence comprehension at the behavioral level. In contrast, hearing loss severity was associated with increased activity in left superior frontal areas and the left anterior insula, but only when processing specific complex sentences (i.e. object-before-subject) compared to simple sentences. Longer hearing aid experience in a sub-set of participants (n = 19) was associated with recruitment of several areas outside of the core speech processing network in the right hemisphere, including the cerebellum, the precentral gyrus, and the cingulate cortex, but only when processing complex sentences. Overall, these results indicate that brain activation for language processing is affected by hearing loss as well as subsequent hearing aid use. Crucially, they show that these effects become apparent through investigation of complex but not simple sentences.
Multidimensional cryptocurrencies fuel next-generation trade
Creators: name: Zipah Limited
Publisher: name: Zenodo
Year: 2022

description: We introduce multidimensional currencies that can underpin next-generation governance capabilities for complex marketplaces and commercial ecosystems. The addition of non-monetary parameters in an nD currency system can help regulate the use of the currency itself, as well as give rise to novel properties that could influence the policy and evolution of the associated ecosystem.
Freezers, Dry Ice and Phase-Change Materials for Cold Chain Equipment in Ultra Low Temperature Logistics
Creators: name: Sparavigna, Amelia Carolina
Publisher: name: Zenodo
Year: 2021
Subjects: Freezers
Dry Ice
PCM
PCC
Composite Materials
Phase Change Composites
Thermal Management
Latent Heat Storage
Ultra Low Temperature Logistics
Cold Chain
Materials Science
, Logistics

description: Freezers and dry ice are used for cold chains. Besides them, phase change materials (PCMs) are also involved. A PCM is a substance absorbing and releasing energy at phase transition. The substance is therefore useful for heating and cooling applications. Here we review some facts about the use of freezer, dry-ice and PCMs for equipment in Ultra Low Temperature Logistics.
Hoplitis (Anthocopa) piliventris Kuhlmann & Gess & Koch & Gess 2011, comb. nov.
Creators: name: Kuhlmann, M.
name: Gess, F. G.
name: Koch, F.
name: Gess, S. K.
Publisher: name: Zenodo
Year: 2011
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Hymenoptera
Megachilidae
Hoplitis
Hoplitis piliventris

description: Hoplitis (Anthocopa) piliventris (Friese, 1913) comb. nov.
(Figs 2g –h)
 Osmia piliventris Friese, 1913a: 591–592.
 Male type: Capland / (Friese’s handwriting): Osmia piliventris ♂ 1913 Friese det. / (red label): Type / Coll. Friese / Zool. Mus. Berlin (ZMHB).
description: Published as part of Kuhlmann, M., Gess, F. G., Koch, F. & Gess, S. K., 2011, Southern African osmiine bees: taxonomic notes, two new species, a key to Wainia, and biological observations (Hymenoptera: Anthophila: Megachilidae), pp. 1-24 in Zootaxa 3108 on page 8
Polarization-Controlled Cavity Input-Output Relations
Creators: name: Lei, Fuchuan
name: Ward, Jonathan M.
name: Romagnoli, Priscila
name: Chormaic, Síle Nic
Publisher: name: arXiv
Year: 2019
Subjects: subject: Optics (physics.optics)
subject: FOS: Physical sciences

description: Cavity input-output relations (CIORs) describe a universal formalism relating each of the far-field amplitudes outside the cavity to the internal cavity fields. Conventionally, they are derived based on a weak-scattering approximation. In this context, the amplitude of the off-resonant field remains nearly unaffected by the cavity, with the high coupling efficiency into cavity modes being attributed to destructive interference between the transmitted (or reflected) field and the output field from the cavity. In this Letter, we show that, in a whispering gallery resonator-waveguide coupled system, in the strong-scattering regime, the off-resonant field approaches to zero, but more than 90% coupling efficiency can still be achieved due to the Purcell-enhanced channeling. As a result, the CIORs turn out to be essentially different than in the weak-scattering regime. With this fact, we propose that the CIOR can be tailored by controlling the scattering strength. This is experimentally demonstrated by the transmission spectra exhibiting either bandstop or bandpass-type behavior according to the polarization of the input light field.
description: 6 pages, 4 figures
Journal für mein Nachhaltigkeits-Selbstexperiment
Creators: name: Beecroft, Richard
name: Trenks, Helena
name: Baumgärtner, Volkmar
Publisher: name: Karlsruher Institut für Technologie (KIT)
Year: 2025
Subjects: Selbstexperiment
Nachhaltigkeit
transformatives Lernen
Konsum
Achtsamkeit
Reallabor

description: Im Rahmen der Aktionstage „Frühlingstage der Nachhaltigkeit am KIT“ des ZAK wurde von 2018 bis 2022 der Workshop „Nachhaltigkeit im Selbstexperiment“ angeboten. In diesem Workshop entwickelten und führten Studierende eigene Nachhaltigkeits-Selbstexperimente durch. Das Format umfasste zwei Blockveranstaltungen, zwischen denen das selbst gewählte Selbstexperiment umgesetzt und in einem Journal dokumentiert wurde. Dieses Journal, das auf Deutsch und Englisch verfügbar ist, führt mit Leitfragen durch den gesamten Prozess und dient als Struktur für die Dokumentation und Reflexion der Studierenden.
Best Values for the CP-odd Meson-Nucleon Couplings from Supersymmetry
Creators: name: Pospelov, Maxim
Publisher: name: arXiv
Year: 2001
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: Nuclear Theory (nucl-th)
subject: FOS: Physical sciences

description: In the supersymmetric models, the dominant sources of the hadronic flavor-diagonal CP violation at low energy are the theta term and the chromoelectric dipole moments of quarks. Using QCD sum rules, we estimate the preferred range and the best values for the CP-odd meson-nucleon coupling constants induced by these operators. When the theta term is removed by the axion mechanism, the size of the most important isospin triplet pion-nucleon coupling is estimated to be \bar g_{πNN}^{(1)} = 2 times 10^{-12}(tilde d_u - tilde d_d), where chromoelectric dipole moments are given in units of 10^{-26} cm.
description: Reference added
Disorder in a two-domain neuronal Ca 2+ -binding protein regulates domain stability and dynamics using ligand mimicry
Creators: name: Staby, Lasse
name: Kemplen, Katherine R.
name: Stein, Amelie
name: Ploug, Michael
name: Clarke, Jane
name: Skriver, Karen
name: Heidarsson, Pétur O.
name: Kragelund, Birthe B.
Publisher: name: Apollo - University of Cambridge Repository
Year: 2020
Subjects: Original Article
NCS-1
Frequenin
IDP
EF-hand
Protein folding
Order–disorder interplay

description: Funder: Lundbeckfonden; doi: http://dx.doi.org/10.13039/501100003554
description: Funder: Villum Fonden (DK)
description: Abstract: Understanding the interplay between sequence, structure and function of proteins has been complicated in recent years by the discovery of intrinsically disordered proteins (IDPs), which perform biological functions in the absence of a well-defined three-dimensional fold. Disordered protein sequences account for roughly 30% of the human proteome and in many proteins, disordered and ordered domains coexist. However, few studies have assessed how either feature affects the properties of the other. In this study, we examine the role of a disordered tail in the overall properties of the two-domain, calcium-sensing protein neuronal calcium sensor 1 (NCS-1). We show that loss of just six of the 190 residues at the flexible C-terminus is sufficient to severely affect stability, dynamics, and folding behavior of both ordered domains. We identify specific hydrophobic contacts mediated by the disordered tail that may be responsible for stabilizing the distal N-terminal domain. Moreover, sequence analyses indicate the presence of an LSL-motif in the tail that acts as a mimic of native ligands critical to the observed order–disorder communication. Removing the disordered tail leads to a shorter life-time of the ligand-bound complex likely originating from the observed destabilization. This close relationship between order and disorder may have important implications for how investigations into mixed systems are designed and opens up a novel avenue of drug targeting exploiting this type of behavior.
Additional file 1: of DNA methylome-wide alterations associated with estrogen receptor-dependent effects of bisphenols in breast cancer
Creators: name: Z. Awada
name: R. Nasr
name: R. Akika
name: V. Cahais
name: C. Cuenin
name: M. Zhivagui
name: Z. Herceg
name: A. Ghantous
name: N. Zgheib
Publisher: name: figshare
Year: 2019
Subjects: subject: Biophysics
subject: Biochemistry
subject: Space Science
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Cancer

description: Supporting Figures S1â S16. (DOCX 8.22 kb)
The relationship between usage and citations in an open access mega-journal
Creators: name: McGillivray, Barbara
name: Astell, Mathias
Publisher: name: Apollo - University of Cambridge Repository
Year: 2019
Subjects: Article
Article metrics
Citation metrics
Usage metrics
Citations
Usage
Downloads
HTML views
Correlation
Interdisciplinary
Mega-journal
Scientific Reports
Bibliometrics
Scientometrics
Open access
Scholarly articles

description: Abstract: How do the level of usage of an article, the timeframe of its usage and its subject area relate to the number of citations it accrues? This paper aims to answer this question through an observational study of usage and citation data collected about the multidisciplinary, open access mega-journal Scientific Reports. This observational study answers these questions using the following methods: an overlap analysis of most read and top-cited articles; Spearman correlation tests between total citation counts over two years and usage over various timeframes; a comparison of first months of citation for most read and all articles; a Wilcoxon test on the distribution of total citations of early cited articles and the distribution of total citations of all other articles. All analyses were performed in using the programming language R. As Scientific Reports is a multidisciplinary journal covering all natural and clinical sciences, we also looked at the differences across subjects. We found a moderate correlation between usage in the first year and citations in the first two years since publication (Spearman correlation coefficient of 0.49, α = 0.05), and that articles with high usage in the first six months are more likely to have their first citation earlier (Wilcoxon = 1,811,500, p < 0.0001), which is also related to higher citations in the first two years (Wilcoxon = 8,071,200, p < 0.0001). As this final assertion is inferred based on the results of the other elements of this paper, it would require further analysis.
Hoplitis (Anthocopa) reginae Kuhlmann & Gess & Koch & Gess 2011, comb. nov.
Creators: name: Kuhlmann, M.
name: Gess, F. G.
name: Koch, F.
name: Gess, S. K.
Publisher: name: Zenodo
Year: 2011
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Hymenoptera
Megachilidae
Hoplitis
Hoplitis reginae

description: Hoplitis (Anthocopa) reginae (Cockerell, 1932) comb. nov.
 Osmia reginae Cockerell, 1932c: 438–439.
 Female type: B.M. Type HYM.17a.2529 / (Cockerell’s handwriting): Osmia reginae Ckll. TYPE / (handwritten): Elisabethville, Sept. 14, J.O. / T. D.A. Cockerell, B.M. 1936-415 (NHML).
description: Published as part of Kuhlmann, M., Gess, F. G., Koch, F. & Gess, S. K., 2011, Southern African osmiine bees: taxonomic notes, two new species, a key to Wainia, and biological observations (Hymenoptera: Anthophila: Megachilidae), pp. 1-24 in Zootaxa 3108 on page 8
MOESM4 of Chromosomal phylogeny and comparative chromosome painting among Neacomys species (Rodentia, Sigmodontinae) from eastern Amazonia
Creators: name: Willam Oliveira Da Silva
name: Pieczarka, Julio
name: Marlyson Rodrigues Da Costa
name: Ferguson-Smith, Malcolm
name: O’Brien, Patricia
name: Mendes-Oliveira, Ana
name: Rossi, Rogério
name: Cleusa Nagamachi
Publisher: name: figshare
Year: 2019
Subjects: subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Evolutionary Biology
subject: Ecology
subject: Plant Biology
subject: Computational Biology

description: Additional file 4: Table S3. Chromosomal rearrangements among seven karyotypes of six Neacomys species, based on chromosome painting with Hylaeamys megacephalus probes (HME) [10].
Quantum states of confined hydrogen plasma species: Monte Carlo calculations
Creators: name: Longo, Gaia Micca
name: Longo, Savino
name: Giordano, Domenico
Publisher: name: arXiv
Year: 2019
Subjects: subject: Chemical Physics (physics.chem-ph)
subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: The diffusion Monte Carlo method with symmetry-based state selection is used to calculate the quantum energy states of H$_2^+$ confined into potential barriers of atomic dimensions (a model for these ions in solids). Special solutions are employed permitting one to obtain satisfactory results with rather simple native code. As a test case, $^2Π_u$ and $^2Π_g$ states of H$_2^+$ ions under spherical confinement are considered. The results are interpreted using the correlation of H$_2^+$ states to atomic orbitals of H atoms lying on the confining surface and perturbation calculations. The method is straightforwardly applied to cavities of any shape and different hydrogen plasma species (at least one-electron ones, including H) for future studies with real crystal symmetries.
description: 7 pages, 6 figures, 42 bibliographic references
Sallam et al._2022_supplemental_tables.docx
Creators: name: Sallam, Moh
name: Savoia, Simone
name: de Koning, Dirk Jan
name: Strandberg, Erling
name: Benhajali, Haifa
Publisher: name: figshare
Year: 2022
Subjects: subject: 70201 Animal Breeding
subject: FOS: Animal and dairy science

description: Supplemental tables for the manuscript Sallam et al. (2022): Across-countries genomic prediction using national breedingvalues or multitrait across-countries evaluation breeding values
Sallam et al._2022_supplemental_tables.docx
Creators: name: Sallam, Moh
name: Benhajali, Haifa
name: Savoia, Simone
name: de Koning, Dirk Jan
name: Strandberg, Erling
Publisher: name: figshare
Year: 2022
Subjects: subject: 70201 Animal Breeding
subject: FOS: Animal and dairy science

description: Supplemental tables for the manuscript Sallam et al. (2022):Across-countries genomic prediction using national breeding values or multitrait across-countries evaluation breeding valuesM. Sallam, H. Benhajali, S. Savoia, D. J. de Koning, and E. Strandberg
** Manuscript in Journal of Dairy Science
Additional file 1 of Placing equity at the heart of eHealth implementation: a qualitative pilot study
Creators: name: Heinsch, Milena
name: Tickner, Campbell
name: Kay-Lambkin, Frances
Publisher: name: figshare
Year: 2022
Subjects: subject: Space Science
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: Cancer
subject: Inorganic Chemistry
subject: FOS: Chemical sciences
subject: Science Policy
subject: Computational Biology

description: Additional file 1. Consolidated criteria for reporting qualitative studies (COREQ): 32-item checklist.
Understanding Flaky Tests: The Developer's Perspective
Creators: name: Eck, Moritz
name: Palomba, Fabio
name: Castelluccio, Marco
name: Bacchelli, Alberto
Publisher: name: arXiv
Year: 2019
Subjects: subject: Software Engineering (cs.SE)
subject: FOS: Computer and information sciences

description: Flaky tests are software tests that exhibit a seemingly random outcome (pass or fail) when run against the same, identical code. Previous work has examined fixes to flaky tests and has proposed automated solutions to locate as well as fix flaky tests--we complement it by examining the perceptions of software developers about the nature, relevance, and challenges of this phenomenon. We asked 21 professional developers to classify 200 flaky tests they previously fixed, in terms of the nature of the flakiness, the origin of the flakiness, and the fixing effort. We complement this analysis with information about the fixing strategy. Subsequently, we conducted an online survey with 121 developers with a median industrial programming experience of five years. Our research shows that: The flakiness is due to several different causes, four of which have never been reported before, despite being the most costly to fix; flakiness is perceived as significant by the vast majority of developers, regardless of their team's size and project's domain, and it can have effects on resource allocation, scheduling, and the perceived reliability of the test suite; and the challenges developers report to face regard mostly the reproduction of the flaky behavior and the identification of the cause for the flakiness. Data and materials [https://doi.org/10.5281/zenodo.3265785].
Additional file 3: of Bayesian analysis of herd-level risk factors for bovine digital dermatitis in New Zealand dairy herds
Creators: name: Yang, Dan
name: Gates, M.
name: MĂźller, Kristina
name: Laven, Richard
Publisher: name: figshare
Year: 2019
Subjects: subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Biotechnology
subject: Environmental Sciences not elsewhere classified
subject: Sociology
subject: FOS: Sociology
subject: Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Science Policy

description: Results of the sensitivity analysis for Multivariable model 1. (DOCX 18 kb)
Hoplitis (Anthocopa) rhodognatha Kuhlmann & Gess & Koch & Gess 2011, comb. nov.
Creators: name: Kuhlmann, M.
name: Gess, F. G.
name: Koch, F.
name: Gess, S. K.
Publisher: name: Zenodo
Year: 2011
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Hymenoptera
Megachilidae
Hoplitis
Hoplitis rhodognatha

description: Hoplitis (Anthocopa) rhodognatha (Cockerell, 1932) comb. nov.
 Osmia rhodognatha Cockerell, 1932c: 438.
 Female type: (handwritten): Graaf Reinet [sic!], C.P., Oct. 26, A.M. / (Cockerell’s handwriting): Osmia rhodognatha Ckll. TYPE / B.M. Type HYM.17a.2718 (NHML).
description: Published as part of Kuhlmann, M., Gess, F. G., Koch, F. & Gess, S. K., 2011, Southern African osmiine bees: taxonomic notes, two new species, a key to Wainia, and biological observations (Hymenoptera: Anthophila: Megachilidae), pp. 1-24 in Zootaxa 3108 on page 8
Recyclable palladium-catalyzed carbonylative annulation of 2-iodoanilines with acid anhydrides: A practical synthesis of 2-alkylbenzoxazinones
Creators: name: Zhou, Zebiao
name: Huang, Bin
name: Cai, Mingzhong
Publisher: name: Taylor & Francis
Year: 2021
Subjects: subject: Biochemistry
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Environmental Sciences not elsewhere classified
subject: Chemical Sciences not elsewhere classified
subject: Biological Sciences not elsewhere classified

description: A highly efficient heterogeneous palladium-catalyzed carbonylative annulation of 2-iodoanilines and acid anhydrides has been developed. The reaction proceeds effectively in toluene using N,N-diisopropylethylamine (DiPEA) as the base at 100 °C under 2 bar of CO and provides a novel, general, and practical method for the assembly of a wide variety of 2-alkylbenzoxazinones with high functional group tolerance and good to excellent yields. This supported palladium complex can be readily separated from the product and recovered by a simple filtration of the reaction solution and reused up to seven times with almost consistent catalytic efficiency.
The endotoxin hypothesis of neurodegeneration
Creators: name: Brown, Guy C.
Publisher: name: Apollo - University of Cambridge Repository
Year: 2019
Subjects: Review
Endotoxin
Neurodegeneration
Alzheimer’s disease
Parkinson’s disease
Microglia
Inflammation
Neuroinflammation
Lipopolysaccharide
Gut microbiome
Bacteria

description: Abstract: The endotoxin hypothesis of neurodegeneration is the hypothesis that endotoxin causes or contributes to neurodegeneration. Endotoxin is a lipopolysaccharide (LPS), constituting much of the outer membrane of gram-negative bacteria, present at high concentrations in gut, gums and skin and in other tissue during bacterial infection. Blood plasma levels of endotoxin are normally low, but are elevated during infections, gut inflammation, gum disease and neurodegenerative disease. Adding endotoxin at such levels to blood of healthy humans induces systemic inflammation and brain microglial activation. Adding high levels of endotoxin to the blood or body of rodents induces microglial activation, priming and/or tolerance, memory deficits and loss of brain synapses and neurons. Endotoxin promotes amyloid β and tau aggregation and neuropathology, suggesting the possibility that endotoxin synergises with different aggregable proteins to give different neurodegenerative diseases. Blood and brain endotoxin levels are elevated in Alzheimer’s disease, which is accelerated by systemic infections, including gum disease. Endotoxin binds directly to APOE, and the APOE4 variant both sensitises to endotoxin and predisposes to Alzheimer’s disease. Intestinal permeability increases early in Parkinson’s disease, and injection of endotoxin into mice induces α-synuclein production and aggregation, as well as loss of dopaminergic neurons in the substantia nigra. The gut microbiome changes in Parkinson’s disease, and changing the endotoxin-producing bacterial species can affect the disease in patients and mouse models. Blood endotoxin is elevated in amyotrophic lateral sclerosis, and endotoxin promotes TDP-43 aggregation and neuropathology. Peripheral diseases that elevate blood endotoxin, such as sepsis, AIDS and liver failure, also result in neurodegeneration. Endotoxin directly and indirectly activates microglia that damage neurons via nitric oxide, oxidants and cytokines, and by phagocytosis of synapses and neurons. The endotoxin hypothesis is unproven, but if correct, then neurodegeneration may be reduced by decreasing endotoxin levels or endotoxin-induced neuroinflammation.
Additional file 2 of Placing equity at the heart of eHealth implementation: a qualitative pilot study
Creators: name: Heinsch, Milena
name: Tickner, Campbell
name: Kay-Lambkin, Frances
Publisher: name: figshare
Year: 2022
Subjects: subject: Space Science
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: Cancer
subject: Inorganic Chemistry
subject: FOS: Chemical sciences
subject: Science Policy
subject: Computational Biology

description: Additional file 2. Interview Schedule for eCliPSE Pilot Study – Qualitative Interviews with Clinicians and Practice Managers.
Wainia (Caposmia) algoensis
Creators: name: Kuhlmann, M.
name: Gess, F. G.
name: Koch, F.
name: Gess, S. K.
Publisher: name: Zenodo
Year: 2011
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Hymenoptera
Megachilidae
Wainia
Wainia algoensis

description: Wainia (Caposmia) algoensis (Brauns, 1926)
(Figs 5c–d, 7–d)
 Osmia algoensis Brauns, 1926: 214–215.
 Osmia (Caposmia) algoensis Brauns: Peters 1984: 360, 379–381.
 Wainia (Caposmia) algoensis (Brauns): Griswold and Michener 1998: 234; Gess and Gess 2011.
 Nesting. The specimens of W. (C.) algoensis in the Albany Museum are from coastal bush, Port Elizabeth, Kentonon-Sea and from coastal dunes at Riet River Mouth. None of the specimens were from snail shells, however, it seems likely that this species, like W. (C.) elizabethae, nests in snail shells.
description: Published as part of Kuhlmann, M., Gess, F. G., Koch, F. & Gess, S. K., 2011, Southern African osmiine bees: taxonomic notes, two new species, a key to Wainia, and biological observations (Hymenoptera: Anthophila: Megachilidae), pp. 1-24 in Zootaxa 3108 on page 10
Whole-Brain Models to Explore Altered States of Consciousness from the Bottom Up
Creators: name: Cofré, Rodrigo
name: Herzog, Rubén
name: Mediano, Pedro A.M.
name: Piccinini, Juan
name: Rosas, Fernando E.
name: Sanz Perl, Yonatan
name: Tagliazucchi, Enzo
Publisher: name: Apollo - University of Cambridge Repository
Year: 2020
Subjects: whole-brain models
altered states of consciousness
signatures of consciousness
integrated information theory
psychedelics

description: The scope of human consciousness includes states departing from what most of us experience as ordinary wakefulness. These altered states of consciousness constitute a prime opportunity to study how global changes in brain activity relate to different varieties of subjective experience. We consider the problem of explaining how global signatures of altered consciousness arise from the interplay between large-scale connectivity and local dynamical rules that can be traced to known properties of neural tissue. For this purpose, we advocate a research program aimed at bridging the gap between bottom-up generative models of whole-brain activity and the top-down signatures proposed by theories of consciousness. Throughout this paper, we define altered states of consciousness, discuss relevant signatures of consciousness observed in brain activity, and introduce whole-brain models to explore the biophysics of altered consciousness from the bottom-up. We discuss the potential of our proposal in view of the current state of the art, give specific examples of how this research agenda might play out, and emphasize how a systematic investigation of altered states of consciousness via bottom-up modeling may help us better understand the biophysical, informational, and dynamical underpinnings of consciousness.
The Political Economy of Embodied Technologies
Creators: name: Hochman, Gal
name: Zilberman, David
name: Hochman, Gal
name: Zilberman, David
Publisher: name: Unknown
Year: 2016
Subjects: subject: Environmental Economics and Policy
subject: Political Economy
subject: Research and Development/Tech Change/Emerging Technologies
subject: Embodied technologies
subject: political uncertainty
subject: standard
subject: tax
subject: environmental policy

description: The presumption of this paper is that some governments value the environment, but others do not. Assuming political uncertainty and capital-intensive technologies, this circumstance yields a political economic process that emphasizes the effect of using current policy to influence future outcomes. The result of the analysis suggests that the optimal dynamic tax is larger than the Pigovian tax and that a standard results in more employment and output and yields higher adoption rates, thus achieving a predetermined pollution target with a lower political economic cost than a tax – with policy outcomes being more resilient to political change.
Additional file 1 of Is oxygen therapy beneficial for normoxemic patients with acute heart failure? A propensity score matched study
Creators: name: Yu, Yue
name: Yao, Ren-Qi
name: Zhang, Yu-Feng
name: Wang, Su-Yu
name: Xi, Wang
name: Wang, Jun-Nan
name: Huang, Xiao-Yi
name: Yao, Yong-Ming
name: Wang, Zhi-Nong
Publisher: name: figshare
Year: 2021
Subjects: subject: Space Science
subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Chemical Sciences not elsewhere classified
subject: Biological Sciences not elsewhere classified
subject: Science Policy
subject: Hematology
subject: Infectious Diseases
subject: FOS: Health sciences

description: Additional file 1.
Pegadas: A Portal for Management and Activities Planning with Games and Environments for Education in Health
Creators: name: Costa, Thaise
name: Machado, Liliane
name: Valença, Ana Maria Gondim
name: Winckler, Marco
name: Moraes, Ronei
Publisher: name: arXiv
Year: 2019
Subjects: subject: Human-Computer Interaction (cs.HC)
subject: FOS: Computer and information sciences

description: Applications for learning and training have been developed and highlighted as important tools in health education. Despite the several approaches and initiatives, these tools have not been used in an integrated way. The specific skills approached by each application, the absence of a consensus about how to integrate them in the curricula, and the necessity of evaluation tools that standardize their utilization are the main difficulties. Considering these issues, Portal of Games and Environments Management for Designing Activities in Health (Pegadas) was designed and developed as a web portal that offers the services of organizing and sequencing serious games and virtual environments and evaluating the performance of the user in these activities. This article presents the structure of Pegadas, including the proposal of an evaluation model based on learning objectives. The results indicate its potential to collaborate with human resources training from the proposal of the sequencing, allowing a linked composition of activities and providing the reinforcement or complement of tasks and contents in a progressive scale with planned educational objective-based evaluation. These results can contribute to expand the discussions about ways to integrate the use of these applications in health curricula.
MOESM3 of Chromosomal phylogeny and comparative chromosome painting among Neacomys species (Rodentia, Sigmodontinae) from eastern Amazonia
Creators: name: Willam Oliveira Da Silva
name: Pieczarka, Julio
name: Marlyson Rodrigues Da Costa
name: Ferguson-Smith, Malcolm
name: O’Brien, Patricia
name: Mendes-Oliveira, Ana
name: Rossi, Rogério
name: Cleusa Nagamachi
Publisher: name: figshare
Year: 2019
Subjects: subject: Genetics
subject: FOS: Biological sciences
subject: Evolutionary Biology
subject: Ecology
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified

description: Additional file 3: Table S2. Chromosome character data matrix of non-additive multi-state character employed in the Maximum Parsimony analysis.