cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Saccharodite bos Zelazny & Webb 2011, sp. nov.
Creators: name: Zelazny, B.
name: Webb, M. D.
Publisher: name: Zenodo
Year: 2011
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Hemiptera
Derbidae
Saccharodite
Saccharodite bos

description: Saccharodite bos Zelazny, sp. nov.
(Fig. 297)
 Description. Forewing length in male 2.7–2.9 mm (mean = 2.8, n = 3). Red mark on frons and base of clypeus shaped like an inverted V; mesonotum in front of red mark light brown. Male genitalia with pygofer narrow. Genital styles oval, proximal dorsal process short with a wide base, its tip curved inwards; distal dorsal process with a broad base, nearly touching proximal process. Apical part of aedeagus with two prominent curved processes at its base, apex with two lobes, the right one with a pointed tip curved to the left.
 Etymology. The species name is a Latin noun (bos = a bull) used in apposition.
 Type material. Holotype ♂, BRUNEI, labels: 1) Brunei, Labi / Bukit Teraja / 30km S.E. of Seria / 21–28.iii.1979 2) Primary mixed/dipterocarp/forest, alt. 60m. 3) light trap 2/ 50m. above ground/ L. Sutton /B.M. 1985-50 (BMNH). Paratypes. 3 ♂ same data as holotype, 2 ♂ same data as holotype but 25 and 75m above ground (fw. 2.7, 2x 2.9) (BMNH); 1 ♂ among Borneo material (BPBM).
 Distribution. North Borneo.
 Diagnosis. Saccharodite bos is externally very similar to Sa. plurima sp. nov., also from Borneo. It can be recognized by the 2 prominent pointed processes at the base of the apical part of the male aedeagus.
description: Published as part of Zelazny, B. & Webb, M. D., 2011, 3071, pp. 1-307 in Zootaxa 3071 on page 149
title: Improving Mobile Positioning Within an Image-Based Hybrid Geocrowdsourcing System
Creators: name: Haumann, John J
Publisher: name: George Mason University
Year: 2024
Subjects: subject: GIS
subject: VGI
subject: Geocrowdsourcing
subject: Volunteered Geographic Information
subject: Neogeography
subject: Geographic Information System

description: The field of Geo-crowdsourced data (GcD), also known as volunteered geographic information (VGI), has grown exponentially within the past fifteen years, from a mostly theoretical idea proposed by academics to a giant industry providing an indispensable service to commercial and government interests alike. Many applications rely on crowdsourced data to provide up-to-date traffic notifications and operation statuses of businesses. GcD is utilized extensively by humanitarian efforts, non-government organizations (NGOs), and the intelligence and defense communities to provide agencies with human geography data, topographic data, and human intelligence data that would have been much harder to collect using traditional methods. Despite the monumental growth and advances of GcD over the past decade, problems stemming from positional accuracy of data sources affect the overall accuracy of GIS. Low positional accuracy is a persistent problem with this data that prevents wider acceptance within the wider GIS industry. The lack of positional accuracy is more severe in some applications over others, especially ones where the user is moving and is dependent on accurate GPS positioning as opposed to reporting applications where general location is sufficient when accompanied by additional information. The aim of the research within this document is to examine if advancements in mobile positioning hardware, the Global Positioning System (GPS), and front-end dashboard interfaces for geo-crowdsourcing applications/programs over the past five years will address the lack of positional accuracy. Improving positional accuracy within GcD will not only encourage wider usage among the GIS field, but it could prove essential for emergency response, military mobility, and mitigating the threat of terrorism.
Multi-objective Evolutionary Approach to Grey-Box Identification of Buck Converter
Creators: name: Hafiz, Faizal
name: Swain, Akshya
name: Mendes, Eduardo M. A. M.
name: Aguirre, Luis
Publisher: name: arXiv
Year: 2019
Subjects: subject: Systems and Control (eess.SY)
subject: Neural and Evolutionary Computing (cs.NE)
subject: FOS: Electrical engineering, electronic engineering, information engineering
subject: FOS: Computer and information sciences

description: The present study proposes a simple grey-box identification approach to model a real DC-DC buck converter operating in continuous conduction mode. The problem associated with the information void in the observed dynamical data, which is often obtained over a relatively narrow input range, is alleviated by exploiting the known static behavior of buck converter as a priori knowledge. A simple method is developed based on the concept of term clusters to determine the static response of the candidate models. The error in the static behavior is then directly embedded into the multi-objective framework for structure selection. In essence, the proposed approach casts grey-box identification problem into a multi-objective framework to balance bias-variance dilemma of model building while explicitly integrating a priori knowledge into the structure selection process. The results of the investigation, considering the case of practical buck converter, demonstrate that it is possible to identify parsimonious models which can capture both the dynamic and static behavior of the system over a wide input range.
Additional file 2 of Multiple aromatic amino acids are involved in potyvirus movement by forming π-stackings to maintain coat protein accumulation
Creators: name: Yan, Zhi-Yong
name: Xu, Xiao-Jie
name: Fang, Le
name: Geng, Chao
name: Tian, Yan-Ping
name: Li, Xiang-Dong
Publisher: name: figshare
Year: 2021
Subjects: subject: Biophysics
subject: Biochemistry
subject: Molecular Biology
subject: Evolutionary Biology
subject: FOS: Biological sciences
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: Cancer
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: Plant Biology
subject: 60506 Virology

description: Additional file 2: Figure S1. CP accumulation in the N. benthamiana leaf patches expressing TVBMVCP, TVBMV(Y105A), TVBMV(Y105G), TVBMV(Y147A) or TVBMV(Y147G) at 5 dpai. Ponceau red-stained nitrocellulose membrane-bound RuBisCO large subunit protein (Rubi) was used to show sample loadings. Figure S2. Alignment of 234 full-length CP sequences representing 127 potyviruses. The color scheme of residues shows different hydrophobicity. Blue indicates hydrophilic residues, green indicates neutral residues and black indicates hydrophobic residues. Positions of aromatic residues predicted to form π-stacking in TVBMV CP are indicated by arrowheads. The positions labeled with red and blue arrowheads indicate the completely and incompletely conserved residues for aromatic residues, respectively. Figure S3. Comparison of the predicted 3D model of TVBMV, WMV, PVY and TuMV CPs. Protein Data Bank (PDB) code: 6HXX for PVY CP, 5ODV for WMV CP and 6T34 for TuMV CP. The 3D model of TVBMV CP was predicted using the I-TASSER server. Figure S4. Alignment of TVBMV and WMV CP aromatic residues forming π-stackings.
Short contacts between chains enhancing luminescence quantum yields and carrier mobilities in conjugated copolymers
Creators: name: Thomas, Tudor H.
name: Harkin, David J.
name: Gillett, Alexander J.
name: Lemaur, Vincent
name: Nikolka, Mark
name: Sadhanala, Aditya
name: Richter, Johannes M.
name: Armitage, John
name: Chen, Hu
name: McCulloch, Iain
name: Menke, S. Matthew
name: Olivier, Yoann
name: Beljonne, David
name: Sirringhaus, Henning
Publisher: name: Apollo - University of Cambridge Repository
Year: 2019
Subjects: Article
/639/301/1005/1007
/639/301/1019/1020/1091
/639/766/119/995
/140/125
/120
/128
article

description: Abstract: Efficient conjugated polymer optoelectronic devices benefit from concomitantly high luminescence and high charge carrier mobility. This is difficult to achieve, as interchain interactions, which are needed to ensure efficient charge transport, tend also to reduce radiative recombination and lead to solid-state quenching effects. Many studies detail strategies for reducing these interactions to increase luminescence, or modifying chain packing motifs to improve percolation charge transport; however achieving these properties together has proved elusive. Here, we show that properly designed amorphous donor-alt-acceptor conjugated polymers can circumvent this problem; combining a tuneable energy gap, fast radiative recombination rates and luminescence quantum efficiencies >15% with high carrier mobilities exceeding 2.4 cm2/Vs. We use photoluminescence from exciton states pinned to close-crossing points to study the interplay between mobility and luminescence. These materials show promise towards realising advanced optoelectronic devices based on conjugated polymers, including electrically-driven polymer lasers.
The Selberg zeta function for convex co-compact Schottky groups
Creators: name: Guillope, Laurent
name: Lin, Kevin K.
name: Zworski, Maciej
Publisher: name: arXiv
Year: 2002
Subjects: subject: Differential Geometry (math.DG)
subject: Mathematical Physics (math-ph)
subject: Spectral Theory (math.SP)
subject: FOS: Mathematics
subject: FOS: Physical sciences
subject: 37C30; 11M36; 37F30; 30F40; 37M25

description: We give a new upper bound on the Selberg zeta function for a convex co-compact Schottky group acting on $ {\mathbb H}^{n+1}$: in strips parallel to the imaginary axis the zeta function is bounded by $ \exp (C |s|^δ) $ where $ δ$ is the dimension of the limit set of the group. This bound is more precise than the optimal global bound $ \exp (C |s|^{n+1}) $, and it gives new bounds on the number of resonances (scattering poles) of $ Γ\backslash {\mathbb H}^{n+1} $. The proof of this result is based on the application of holomorphic $ L^2$-techniques to the study of the determinants of the Ruelle transfer operators and on the quasi-self-similarity of limit sets. We also study this problem numerically and provide evidence that the bound may be optimal. Our motivation comes from molecular dynamics and we consider $ Γ\backslash {\mathbb H}^{n+1} $ as the simplest model of quantum chaotic scattering. The proof of this result is based on the application of holomorphic $L^2$-techniques to the study of the determinants of the Ruelle transfer operators and on the quasi-self-similarity of limit sets.
Discovery of immunosuppressive Lupane-type Triterpenoids from Hypericum longistylum
Creators: name: Yan, Shan
name: Feng, Hao
name: Sun, Lingjuan
name: Shi, Zhengyi
name: Hu, Hong
name: Duan, Yulin
name: Guo, Yi
name: Tan, Xiaosheng
name: Chen, Gang
name: Qi, Changxing
name: Zhang, Yonghui
Publisher: name: Taylor & Francis
Year: 2022
Subjects: subject: Medicine
subject: Pharmacology
subject: Chemical Sciences not elsewhere classified
subject: Ecology
subject: FOS: Biological sciences
subject: Immunology
subject: FOS: Clinical medicine
subject: Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Hematology
subject: Virology

description: The phytochemistry study of Hypericum longistylum afforded one new degraded lupane-type triterpenoid, triterhyper A (1), and seven known congeners (2–8). The structures of those natural products were identified by extensive spectroscopic techniques and single crystal diffraction tests. Notably, triterhyper A (1) possessing an unusual 28-nor-lupane skeleton. More significantly, compounds 1–3 exhibited potential inhibitory effects on murine splenocytes proliferation stimulated by anti-CD3/anti-CD28 monoclonal antibodies (mAbs) and lipopolysaccharide (LPS), with IC50 values ranging from (4.56 ± 0.45) μM to (18.34 ± 2.34) μM, highlighting that those isolates as potential lead compounds in the development of immunosuppressive drugs for autoimmune disease treatment.
Neural Semantic Parsing with Anonymization for Command Understanding in General-Purpose Service Robots
Creators: name: Walker, Nick
name: Peng, Yu-Tang
name: Cakmak, Maya
Publisher: name: arXiv
Year: 2019
Subjects: subject: Robotics (cs.RO)
subject: Computation and Language (cs.CL)
subject: FOS: Computer and information sciences

description: Service robots are envisioned to undertake a wide range of tasks at the request of users. Semantic parsing is one way to convert natural language commands given to these robots into executable representations. Methods for creating semantic parsers, however, rely either on large amounts of data or on engineered lexical features and parsing rules, which has limited their application in robotics. To address this challenge, we propose an approach that leverages neural semantic parsing methods in combination with contextual word embeddings to enable the training of a semantic parser with little data and without domain specific parser engineering. Key to our approach is the use of an anonymized target representation which is more easily learned by the parser. In most cases, this simplified representation can trivially be transformed into an executable format, and in others the parse can be completed through further interaction with the user. We evaluate this approach in the context of the RoboCup@Home General Purpose Service Robot task, where we have collected a corpus of paraphrased versions of commands from the standardized command generator. Our results show that neural semantic parsers can predict the logical form of unseen commands with 89% accuracy. We release our data and the details of our models to encourage further development from the RoboCup and service robotics communities.
description: To appear in RoboCup 2019: Robot World Cup XXIII, Springer
Proteogenomic analysis of Inhibitor of Differentiation 4 (ID4) in basal-like breast cancer
Creators: name: Baker, Laura A.
name: Holliday, Holly
name: Roden, Daniel
name: Krisp, Christoph
name: Wu, Sunny Z.
name: Junankar, Simon
name: Serandour, Aurelien A.
name: Mohammed, Hisham
name: Nair, Radhika
name: Sankaranarayanan, Geetha
name: Law, Andrew M. K.
name: McFarland, Andrea
name: Simpson, Peter T.
name: Lakhani, Sunil
name: Dodson, Eoin
name: Selinger, Christina
name: Anderson, Lyndal
name: Samimi, Goli
name: Hacker, Neville F.
name: Lim, Elgene
name: Ormandy, Christopher J.
name: Naylor, Matthew J.
name: Simpson, Kaylene
name: Nikolic, Iva
name: O’Toole, Sandra
name: Kaplan, Warren
name: Cowley, Mark J.
name: Carroll, Jason S.
name: Molloy, Mark
name: Swarbrick, Alexander
Publisher: name: Apollo - University of Cambridge Repository
Year: 2020
Subjects: Research Article
Breast cancer
Transcription factor
Helix-loop-helix
DNA damage

description: Funder: National Health and Medical Research Council; doi: http://dx.doi.org/10.13039/501100000925
description: Abstract: Background: Basal-like breast cancer (BLBC) is a poorly characterised, heterogeneous disease. Patients are diagnosed with aggressive, high-grade tumours and often relapse with chemotherapy resistance. Detailed understanding of the molecular underpinnings of this disease is essential to the development of personalised therapeutic strategies. Inhibitor of differentiation 4 (ID4) is a helix-loop-helix transcriptional regulator required for mammary gland development. ID4 is overexpressed in a subset of BLBC patients, associating with a stem-like poor prognosis phenotype, and is necessary for the growth of cell line models of BLBC through unknown mechanisms. Methods: Here, we have defined unique molecular insights into the function of ID4 in BLBC and the related disease high-grade serous ovarian cancer (HGSOC), by combining RIME proteomic analysis, ChIP-seq mapping of genomic binding sites and RNA-seq. Results: These studies reveal novel interactions with DNA damage response proteins, in particular, mediator of DNA damage checkpoint protein 1 (MDC1). Through MDC1, ID4 interacts with other DNA repair proteins (γH2AX and BRCA1) at fragile chromatin sites. ID4 does not affect transcription at these sites, instead binding to chromatin following DNA damage. Analysis of clinical samples demonstrates that ID4 is amplified and overexpressed at a higher frequency in BRCA1-mutant BLBC compared with sporadic BLBC, providing genetic evidence for an interaction between ID4 and DNA damage repair deficiency. Conclusions: These data link the interactions of ID4 with MDC1 to DNA damage repair in the aetiology of BLBC and HGSOC.
D14.1 - report on mapping results to identify barriers and facilitators in implementing personalized medicine.
Creators: name: Taha, Abdelrahman
name: Osti, Tommaso
name: Pezzullo, Angelo Maria
name: Boccia, Stefania
Publisher: name: Zenodo
Year: 2025
Subjects: Next-Generation Sequencing (NGS
Cancer genomics
Decision Support Tool (DST)
oncology Decision Support Tool (oncDST)
Clinical Decision System
Public health genomics
Personalized medicine
EU4HEALTH
Digital framework
Precision Oncology
Data interoperability
CancerResearch
Oncology
Genomics
Healthcare Innovation
Pediatric Leukemia
Cancer In Pregnancy
Clinical Guidelines
Decision Support
Data Sharing
Ethics In Genomics
CFIR Framework
Healthcare Barriers
Precision Medicine
Polygenic Risk Scores
Breast Cancer
CAN.HEAL
EU4Health
cancer genomics
personalized medicine
public health genomics

description: This report presents an analysis of the objectives outlined in Deliverable 14.1, focusing on mapping activities within the Can.Heal project and identifying key barriers and facilitators for implementing personalized medicine strategies in Europe. The background section contextualizes these efforts within the broader project framework, followed by an overview of the methodology, including the application of the CFIR framework and the development of a structured data collection approach.

Key findings from Work Packages (WPs) 6, 10, and 12 highlight advancements in cancer research and healthcare. WP6 explores cancer in pregnancy and pediatric leukemia, addressing diagnostic challenges and network development. WP10 enhances oncology decision support tools through data centralization and collaboration. WP12 examines the legal and ethical dimensions of cancer genomics, emphasizing data-sharing standards and patient rights.

The CFIR framework analysis identifies critical facilitators—such as literature reviews and centralized expertise—as well as barriers, including evidence gaps and administrative constraints. Successful implementation strategies hinge on adaptability, cost considerations, and patient needs, with engagement strategies like network-building playing a vital role in overcoming challenges and fostering collaboration.
Mechanical denaturation of DNA: existence of a low temperature denaturation
Creators: name: Orlandini, Enzo
name: Bhattacharjee, Somendra M.
name: Marenduzzo, Davide
name: Maritan, Amos
name: Seno, Flavio
Publisher: name: arXiv
Year: 2001
Subjects: subject: Statistical Mechanics (cond-mat.stat-mech)
subject: Quantitative Biology (q-bio)
subject: FOS: Physical sciences
subject: FOS: Biological sciences

description: Recent theoretical predictions on DNA mechanical separation induced by pulling forces are numerically tested within a model in which self-avoidance for DNA strands is fully taken into account. DNA strands are described by interacting pairs of self avoiding walks (SAW) which are pulled apart by a force applied at the two extremities. The whole phase diagram is spanned by extensive Monte Carlo (MC) simulations and the existence of a low temperature denaturation is confirmed. The basic features of the phase diagram and the re-entrant phase boundary are also obtained with a simple heuristic argument based on an energy-entropy estimate.
description: 14 pages, 4 figures
MOESM1 of Remote homology searches identify bacterial homologues of eukaryotic lipid transfer proteins, including Chorein-N domains in TamB and AsmA and Mdm31p
Creators: name: Levine, Timothy
Publisher: name: figshare
Year: 2019
Subjects: subject: Biophysics
subject: Biochemistry
subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Molecular Biology
subject: Physiology
subject: Pharmacology
subject: Evolutionary Biology
subject: 69999 Biological Sciences not elsewhere classified
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: Developmental Biology
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: 60506 Virology
subject: Computational Biology

description: Additional file 1: Figure S1. Predicted structural elements in short bacterial TULIP domains. Comparison of conserved structural elements in DUF2993 (16 examples) with DUF1439 (2 examples, top) and DUF2140. (2 examples, bottom). Residues are coloured according to the ClustalX scheme. Insertions are shown with the number of residues (e.g. “+ 14”) . Deletions are indicated by a black bar across the missing residues. Most DUF2993s have either a very short second β-strand or it is absent. There are also deletions in the final loop. 109 aa of Rv0817c align with the 127 aa core of YceB, both of which are shorter than DUF4403-C (180 aa) and DUF4403-N (220 aa). In Rv0817c, a further 28 aa align with 38 aa of YceB that forms the β-dimerization interface. The reduction in residues in DUF2993’s TULIP derives from (i) deletions before and in the second β-strand, as in DUF2140; (ii) short loops, especially the final loop; (iii) reduced residues in the final helix (14 fewer), covering the same distance by forming an extended polypeptide.
MOESM2 of Remote homology searches identify bacterial homologues of eukaryotic lipid transfer proteins, including Chorein-N domains in TamB and AsmA and Mdm31p
Creators: name: Levine, Timothy
Publisher: name: figshare
Year: 2019
Subjects: subject: Biochemistry
subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Evolutionary Biology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: Inorganic Chemistry
subject: FOS: Chemical sciences
subject: Science Policy
subject: Plant Biology

description: Additional file 2. MSAs for pairwise comparisons in HHpred (see Table 1).
Additional file 1 of Multiple aromatic amino acids are involved in potyvirus movement by forming π-stackings to maintain coat protein accumulation
Creators: name: Yan, Zhi-Yong
name: Xu, Xiao-Jie
name: Fang, Le
name: Geng, Chao
name: Tian, Yan-Ping
name: Li, Xiang-Dong
Publisher: name: figshare
Year: 2021
Subjects: subject: Biophysics
subject: Biochemistry
subject: Molecular Biology
subject: Evolutionary Biology
subject: FOS: Biological sciences
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: Cancer
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: Plant Biology
subject: 60506 Virology

description: Additional file 1: Table S1. Centroid distances between rings of aromatic residues in TVBMV CP. Table S2. Centroid distances between rings of aromatic residues in WMV CP. Table S3. Primers used in this study.
Additional file 1: of Decreased rotational flow and circumferential wall shear stress as early markers of descending aorta dilation in Marfan syndrome: a 4D flow CMR study
Creators: name: A. Guala
name: G. Teixido-Tura
name: L. Dux-Santoy
name: C. Granato
name: A. Ruiz-Muñoz
name: F. Valente
name: L. Galian-Gay
name: L. Gutiérrez
name: T. González-Alujas
name: K. Johnson
name: O. Wieben
name: A. Sao Avilés
name: A. Evangelista
name: J. Rodriguez-Palomares
Publisher: name: figshare
Year: 2019
Subjects: subject: Space Science
subject: Medicine
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: Developmental Biology

description: Numerical results included in Fig. 2.(DOCX 27 kb)
MOESM3 of Remote homology searches identify bacterial homologues of eukaryotic lipid transfer proteins, including Chorein-N domains in TamB and AsmA and Mdm31p
Creators: name: Levine, Timothy
Publisher: name: figshare
Year: 2019
Subjects: subject: Biophysics
subject: Biochemistry
subject: Microbiology
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Biotechnology
subject: Evolutionary Biology
subject: 69999 Biological Sciences not elsewhere classified
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: Inorganic Chemistry
subject: FOS: Chemical sciences
subject: Science Policy
subject: 110309 Infectious Diseases
subject: FOS: Health sciences

description: Additional file 3. Pairwise comparisons in HHpred, corresponding to results in Figs.Â 3a and 5c. Also, included for comparison: BPI_N vs BPI_C.
Quark mass dependence of the one-loop three-gluon vertex in arbitrary dimension
Creators: name: Davydychev, A. I.
name: Osland, P.
name: Saks, L.
Publisher: name: arXiv
Year: 2001
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: The one-loop off-shell massive quark contribution to the three-gluon vertex is calculated in an arbitrary space-time dimension. The results for all relevant on-shell and symmetric limits are obtained directly from the general off-shell results. The analytic structure of the results for the relevant massive scalar integrals is also discussed.
description: 21 pages, including 2 figures
DDIEM: drug database for inborn errors of metabolism
Creators: name: Abdelhakim, Marwa
name: McMurray, Eunice
name: Syed, Ali Raza
name: Kafkas, Senay
name: Kamau, Allan Anthony
name: Schofield, Paul N
name: Hoehndorf, Robert
Publisher: name: Apollo - University of Cambridge Repository
Year: 2020
Subjects: Research
Inherited metabolic diseases
Inborn errors of metabolism
Orphan disease
Ontology
Drug effect
Drug repositioning
Therapeutic procedure

description: Abstract: Background: Inborn errors of metabolism (IEM) represent a subclass of rare inherited diseases caused by a wide range of defects in metabolic enzymes or their regulation. Of over a thousand characterized IEMs, only about half are understood at the molecular level, and overall the development of treatment and management strategies has proved challenging. An overview of the changing landscape of therapeutic approaches is helpful in assessing strategic patterns in the approach to therapy, but the information is scattered throughout the literature and public data resources. Results: We gathered data on therapeutic strategies for 300 diseases into the Drug Database for Inborn Errors of Metabolism (DDIEM). Therapeutic approaches, including both successful and ineffective treatments, were manually classified by their mechanisms of action using a new ontology. Conclusions: We present a manually curated, ontologically formalized knowledgebase of drugs, therapeutic procedures, and mitigated phenotypes. DDIEM is freely available through a web interface and for download at http://ddiem.phenomebrowser.net.
MOESM3 of First complete genome sequence and comparative analysis of Salmonella enterica subsp. diarizonae serovar 61:k:1,5,(7) indicates host adaptation traits to sheep
Creators: name: Uelze, Laura
name: Borowiak, Maria
name: Carlus Deneke
name: CĂŠcile Jacobs
name: IstvĂĄn SzabĂł
name: Tausch, Simon
name: Malorny, Burkhard
Publisher: name: figshare
Year: 2019
Subjects: subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Evolutionary Biology
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: 110309 Infectious Diseases
subject: FOS: Health sciences

description: Additional file 3: Figure S2. Mauve alignment of 16-SA00356, SA20044251, NCTC10381, MZ0080, HZS154 and 11-01853. Colored blocks indicate individual locally collinear blocks (LCB). Homologous LCBs are connected with lines. 16-SA00356 is set as the reference genome.
Saccharodite carens Zelazny & Webb 2011, sp. nov.
Creators: name: Zelazny, B.
name: Webb, M. D.
Publisher: name: Zenodo
Year: 2011
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Hemiptera
Derbidae
Saccharodite
Saccharodite carens

description: Saccharodite carens Zelazny, sp. nov.
(Fig. 298)
 Description. Forewings broad, 1.7 times longer than wide, length in male about 3.2 mm. Colour stramineous to light brown, faintly orange in front of eyes. Forewings glassy, uniformly and lightly infuscated; veins light brown, but last subcostal sector and adjacent section of costa orange; 4 dark spots on base of Sc+R. Hindwings including veins faintly infuscated. In profile junction of vertex and face slightly angulated; subantennal process connected to margins of facial carinae by a ridge; rostrum slightly surpassing post trochanters. Forewings with Sc+R fork at middle of wing; basal median cell broad, about 2 times as wide as basal cell between Sc+R and M; a small triangle at base of Ms1. Male genitalia with pygofer narrow. Genital styles elongated; proximal dorsal process broad, the short tip curved inwards; distal dorsal process elongated. Aedeagus with apical portion long and narrow, divided by a deep, longitudinal groove, and ending in 2 short lobes, the right one pointed.
 Etymology. The species name is a Latin participle (carens = missing) which remains unchanged in all gender forms.
 Type material. Holotype ♂ (forewing 3.2 mm), EAST MALAYSIA: NORTH BORNEO; no data, among North Borneo material in a genital capsule which also contained specimens of Sa. lucifera, a species only reported so far from North Borneo (BPBM).
 Distribution. North Borneo.
 Diagnosis. Saccharodite carens belongs to the large group of Saccharodite species which have in profile a slightly angulated junction of vertex and face, broad forewings, and a broad proximal dorsal process on the male genital styles (e.g. Sa. kagoshimana (Matsumura) which is also found in Borneo or Sa. imperiali Zelazny from the Philippines). It can be easily recognized by the uniformly infuscated wings and the nearly colourless body.
description: Published as part of Zelazny, B. & Webb, M. D., 2011, 3071, pp. 1-307 in Zootaxa 3071 on page 149
Comment on "Fun and frustration with quarkonium in a 1+1 dimension," by R. S. Bhalerao and B. Ram [Am. J. Phys. 69 (7), 817-818 (2001)]
Creators: name: Cavalcanti, R. M.
Publisher: name: arXiv
Year: 2002
Subjects: subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: We present the correct solution of the Dirac equation in 1+1 dimensions with the Lorentz scalar potential V(x)=g|x|.
description: 2 pages. Accepted for publication in the American Journal of Physics
Ab initio nonrigid X-ray nanotomography
Creators: name: Odstrcil, Michal
name: Holler, Mirko
name: Raabe, Jörg
name: Sepe, Alessandro
name: Sheng, Xiaoyuan
name: Vignolini, Silvia
name: Schroer, Christian G.
name: Guizar-Sicairos, Manuel
Publisher: name: Apollo - University of Cambridge Repository
Year: 2019
Subjects: Article
/639/925/930/2735
/639/624/1107/328/968
/639/766/400/1106
/123
/145
/119
article

description: Abstract: Reaching the full potential of X-ray nanotomography, in particular for biological samples, is limited by many factors, of which one of the most serious is radiation damage. Although sample deformation caused by radiation damage can be partly mitigated by cryogenic protection, it is still present in these conditions and, as we exemplify here using a specimen extracted from scales of the Cyphochilus beetle, it will pose a limit to the achievable imaging resolution. We demonstrate a generalized tomographic model, which optimally follows the sample morphological changes and attempts to recover the original sample structure close to the ideal, damage-free reconstruction. Whereas our demonstration was performed using ptychographic X-ray tomography, the method can be adopted for any tomographic imaging modality. Our application demonstrates improved reconstruction quality of radiation-sensitive samples, which will be of increasing relevance with the higher brightness of 4th generation synchrotron sources.
The impact of farmers' risk preferences on the design of an individual yield crop insurance
Creators: name: Piet, Laurent
name: Bougherara, Douadia
name: Piet, Laurent
name: Bougherara, Douadia
Publisher: name: Unknown
Year: 2016
Subjects: subject: Agricultural and Food Policy
subject: Risk and Uncertainty
subject: yield
subject: crop insurance
subject: cumulative prospect theory
subject: premium subsidy
subject: France

description: Kahneman and Tversky's Cumulative Prospect Theory (CPT) has proved to be better suited for representing risk preferences than von Neumann and Morgenstern's Expected Utility Theory (EUT). We argue that neglecting this may explain to some extent why farmers do not contract crop insurance as much as they are expected to. We model the decision to contract an individual yield crop insurance for a sample of 186 French farmers. We show that 21% of the farmers who would be expected to contract assuming that their preferences are EUT, would actually not do so if their true preferences were in fact CPT.
Decisive Role of Fragmentation Functions in Hard Hadron Production
Creators: name: Zhang, Xiaofei
name: Fai, George
name: Levai, Peter
Publisher: name: arXiv
Year: 2002
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: Nuclear Theory (nucl-th)
subject: FOS: Physical sciences

description: It is demonstrated that the fragmentation functions at large momentum fraction play a key role in hard hadron production from relativistic proton-proton collisions. We find that this region of the fragmentation functions is not strongly constrained by the electron-positron data. This freedom can be used (together with the transverse momentum distribution of partons) to reproduce hard pion-to-proton ratio data in relativistic proton-proton collisions.
description: 4 pages, 3 figures
Spin-charge coupled transport in van der Waals systems with random tunneling
Creators: name: Rodriguez-Vega, M.
name: Schwiete, G.
name: Rossi, Enrico
Publisher: name: arXiv
Year: 2019
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: FOS: Physical sciences

description: We study the electron and spin transport in a van der Waals system formed by one layer with strong spin-orbit coupling and a second layer without spin-orbit coupling, in the regime when the interlayer tunneling is random. We find that in the layer without intrinsic spin-orbit coupling spin-charge coupled transport can be induced by two distinct mechanisms. First, the gapless diffusion modes of the two isolated layers hybridize in the presence of tunneling, which constitutes a source of spin-charge coupled transport in the second layer. Second, the random tunneling introduces spin-orbit coupling in the effective disorder-averaged single-particle Hamiltonian of the second layer. This results in non-trivial spin transport and, for sufficiently strong tunneling, in spin-charge coupling. As an example, we consider a van der Waals system formed by a two-dimensional electron gas (2DEG)--such as graphene--and the surface of a topological insulator (TI) and show that the proximity of the TI induces a coupling of the spin and charge transport in the 2DEG. In addition, we show that such coupling can be tuned by varying the doping of the TI's surface. We then obtain, for a simple geometry, the current-induced non-equilibrium spin accumulation (Edelstein effect) caused in the 2DEG by the coupling of charge and spin transport.
description: 5+1 pages, 1 figure
HOW TO ANALYZE BIOECONOMY?
Creators: name: Maciejczak, Mariusz
name: Maciejczak, Mariusz
Publisher: name: Unknown
Year: 2015
Subjects: subject: Environmental Economics and Policy
subject: bioeconomy
subject: bioeconomy model
subject: analytical framework

description: The paper is an attempt to describe theoretical foundations, scope with boundaries as well as a framework for analysis of emerging concept of bioeconomy. Based on the literature review and complex system theory and contextual theory there was proposed a holistic approach to perceive dimentions of bioeconomy system and ways to analyse them.
3D sedimentary architecture showing the inception of an Ice Age
Creators: name: Løseth, H.
name: Dowdeswell, J. A.
name: Batchelor, C. L.
name: Ottesen, D.
Publisher: name: Apollo - University of Cambridge Repository
Year: 2020
Subjects: Article
/704/106/413
/704/2151/213
/704/2151/213/4116
/704/2151/215
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article

description: Abstract: Northeast Atlantic climate shifted into the Quaternary Ice Age around 2.6 M yr ago. Until now, however, the detailed changes associated with this inception of an Ice Age have remained obscure. New high-quality three-dimensional seismic data reveal a detailed geological record of buried surfaces, landforms and sedimentary architecture over vast parts of the Norwegian North Sea. Here, we show the sequence of near-coast geological events spanning the Northeast Atlantic inception of an Ice Age. We identify the location of immediate pre-glacial fluvially derived sandy systems where rivers from the Norwegian mainland built marine deltas. The stratigraphic position of a large submarine channel, formed by enhanced meltwater from initial build-up of local glaciers, is also shown. Finally, we document the transition to full ice-sheet growth over Scandinavia from the ice sheet’s earliest position to the later pattern of debris-flow lobes reaching the present-day shelf edge.
The impact of R&D expenditures on bioeconomy innovativeness
Creators: name: Matras-Bolibok, Anna
name: Matras-Bolibok, Anna
Publisher: name: Unknown
Year: 2015
Subjects: subject: Environmental Economics and Policy
subject: Research and Development/Tech Change/Emerging Technologies
subject: R&D expenditures
subject: innovation
subject: bioeconomy
subject: biotechnology

description: The paper aims at empirical evaluation of the impact of R&D expenditures on the bioeconomy innovativeness. The research is based on the cross-sectional analyses of correlation and regression between the value of biotech R&D expenditures and the number of biotech patents granted in the EU countries. In particular, the study attempts to assess a relative effectiveness of R&D expenditures in public and business sectors. The data for the analysis were extracted from the OECD Statistical Database and Eurostat Database covering the period 2009-2014. Given the availability of data the examined sample covers 11 countries. The results indicate a positive and statistically significant impact of biotech R&D expenditures on bioeconomy innovativeness in the pooled sample of countries and suggest a higher effectiveness of private sources of funding.
Additional file 7 of Inverse correlation between Interleukin-34 and gastric cancer, a potential biomarker for prognosis
Creators: name: Liu, Qinghua
name: Zhang, Ying
name: Zhang, Jiwei
name: Tao, Kun
name: Hambly, Brett D.
name: Bao, Shisan
Publisher: name: figshare
Year: 2020
Subjects: subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Biotechnology
subject: Immunology
subject: FOS: Clinical medicine
subject: Cancer
subject: Computational Biology

description: Additional file 7: Table S1. Univariate analysis of MCSF and clinicopathological factors affecting survival of patients with GC in TNM III–IV.
Additional file 1 of Moving apart together: co-movement of a symbiont community and their ant host, and its importance for community assembly
Creators: name: Parmentier, T.
name: R. Claus
name: De Laender, F.
name: Bonte, D.
Publisher: name: figshare
Year: 2021
Subjects: subject: Ecology
subject: FOS: Biological sciences

description: Additional file 1: Supporting Figs. S1, S2 and S3. S1. Map of red wood ant nest distribution in site WV and site OB. S2: Overview of the sampling of the myrmecophiles. S3: Relative abundances of the 12 most widely distributed myrmecophile species along the spatial gradient.
ECONOMICS OF OIL PUMPKIN SEED PRODUCTION
Creators: name: Nábrádi, András
name: Hajnalka, Madai
name: Lapis, Miklós
name: Nábrádi, András
name: Hajnalka, Madai
name: Lapis, Miklós
Publisher: name: Unknown
Year: 2015
Subjects: subject: Crop Production/Industries
subject: greening
subject: oil pumpkin seed
subject: profitability

description: Regulations of new CAP reforms moving from product to producer support and now to a more land based approach. This is in response to the challenges facing the sector, many of which are driven by factors that are external to agriculture. These have been identified as economic, environmental and territorial. To achieve these long-term goals, the existing CAP instruments had to be adapted. The reform therefore focused on the operational objectives of delivering more effective policy instruments, designed to improve the competitiveness of the agricultural sector and its sustainability over the long term. Accordingly there is a great need to restructure the formal crop rotation and to introduce new alternative crops as food industrial crops and vegetables. Both cases have high invested special asset and manual work requirement. This paper as a case study gives an analysis of oil pumpkin seed production, which serves as an example of economic and technological planning a formal crop production farm over 100 hectares. The new crop was introduced as a possibility to face with diversification under the new CAP regime of greening. The economic analysis covers five years of production and financial data on the basis of the given crop rotation.
Saccharodite cervetta Zelazny & Webb 2011, sp. nov.
Creators: name: Zelazny, B.
name: Webb, M. D.
Publisher: name: Zenodo
Year: 2011
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Hemiptera
Derbidae
Saccharodite
Saccharodite cervetta

description: Saccharodite cervetta Zelazny, sp. nov.
(Fig. 300)
 Description. Forewing length in male about 3.2 mm. Frons and base of clypeus with a bright red mark with a light centre. Male genitalia with pygofer narrow. Genital styles rounded, proximal dorsal process short and pointed; distal dorsal process elongated with a club-shaped tip. Aedeagus with two thin blades attached to the ventral surface of the stem in its apical half; the left one ending in one, the right one ending in two pointed processes; these pointed processes are the most caudal parts of the aedeagus and are located at the base of the apical portion; an additional blade arises from the dorsal side of the aedeagus stem, on the right side; apical part broad, directed cephalad; near apex on the right side with a long, pointed, slightly curved process directed to the right; at the apex an additional, slender but not pointed, process directed forward; apical part membranous below the latter apical process, covered with minute spines or sensory organs.
 Note. Very similar to Saccharodite plurima sp. nov. The above description has been shortened, due to this similarity.
 Etymology. The species name is a Latin noun (cervetta = a small deer) used in apposition.
 Type material. Holotype ♂, BRUNEI; labels 1) Brunei, Labi / Bukit Teraja / 30km S.E. of Seria / 21–28.iii.1979 2) Primary mixed/dipterocarp/forest, alt. 60m. 3) light trap 2/ 50m. above ground/ S.L. Sutton /B.M. 1985-50 (BMNH). Paratype. Same data as holotype but 75 m above ground, 1 ♂ (fw. 3.2) (BMNH).
 Distribution. North Borneo.
 Diagnosis. Saccharodite cervetta is similar externally to Sa. plurima sp. nov., also from Borneo, and other related species. It is characterized by the complicated structure of processes and blades on the male aedeagus.
description: Published as part of Zelazny, B. & Webb, M. D., 2011, 3071, pp. 1-307 in Zootaxa 3071 on page 150
Using Mw dependence of surface dynamics of glassy polymers to probe the length scale of free surface mobility
Creators: name: Chai, Yu
name: Salez, Thomas
name: Forrest, James
Publisher: name: arXiv
Year: 2019
Subjects: subject: Soft Condensed Matter (cond-mat.soft)
subject: Disordered Systems and Neural Networks (cond-mat.dis-nn)
subject: FOS: Physical sciences

description: We describe a series of surface levelling experiments in glassy polystyrene (PS) of varying molecular weight. The evolution through a mobile surface layer is described by the glassy thin film equation that was introduced and used in a previous work. Excellent agreement with the data is achieved, with surface mobility as the single free parameter. Different molecular-weight dependencies in mobility are then observed above and below the glass transition. The results are discussed in terms of surface-chain anchoring in the bulk matrix, and the length scale for surface mobility.
Asymptotic Properties of Linear Field Equations in Anti-de Sitter Space
Creators: name: Holzegel, Gustav
name: Luk, Jonathan
name: Smulevici, Jacques
name: Warnick, Claude
Publisher: name: Apollo - University of Cambridge Repository
Year: 2019
Subjects: Article

description: Abstract: We study the global dynamics of the wave equation, Maxwell’s equation and the linearized Bianchi equations on a fixed anti-de Sitter (AdS) background. Provided dissipative boundary conditions are imposed on the dynamical fields we prove uniform boundedness of the natural energy as well as both degenerate (near the AdS boundary) and non-degenerate integrated decay estimates. Remarkably, the non-degenerate estimates “lose a derivative”. We relate this loss to a trapping phenomenon near the AdS boundary, which itself originates from the properties of (approximately) gliding rays near the boundary. Using the Gaussian beam approximation we prove that non-degenerate energy decay without loss of derivatives does not hold. As a consequence of the non-degenerate integrated decay estimates, we also obtain pointwise-in-time decay estimates for the energy. Our paper provides the key estimates for a proof of the non-linear stability of the anti-de Sitter spacetime under dissipative boundary conditions. Finally, we contrast our results with the case of reflecting boundary conditions.
Predictability of Subluminal and Superluminal Wave Equations
Creators: name: Eperon, Felicity C.
name: Reall, Harvey S.
name: Sbierski, Jan J.
Publisher: name: Apollo - University of Cambridge Repository
Year: 2019
Subjects: Article

description: Abstract: It is sometimes claimed that Lorentz invariant wave equations which allow superluminal propagation exhibit worse predictability than subluminal equations. To investigate this, we study the Born–Infeld scalar in two spacetime dimensions. This equation can be formulated in either a subluminal or a superluminal form. Surprisingly, we find that the subluminal theory is less predictive than the superluminal theory in the following sense. For the subluminal theory, there can exist multiple maximal globally hyperbolic developments arising from the same initial data. This problem does not arise in the superluminal theory, for which there is a unique maximal globally hyperbolic development. For a general quasilinear wave equation, we prove theorems establishing why this lack of uniqueness occurs, and identify conditions on the equation that ensure uniqueness. In particular, we prove that superluminal equations always admit a unique maximal globally hyperbolic development. In this sense, superluminal equations exhibit better predictability than generic subluminal equations.