cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Theory of Luminescence Spectra of High-Density Electron-Hole Systems: Crossover from Excitonic Bose-Einstein Condenstation to Electron-Hole BCS State
Creators: name: Inagaki, T. J.
name: Aihara, M.
name: Takahashi, A.
Publisher: name: arXiv
Year: 2000
Subjects: subject: Strongly Correlated Electrons (cond-mat.str-el)
subject: Materials Science (cond-mat.mtrl-sci)
subject: FOS: Physical sciences

description: We present a unified theory of luminescence spectra for highly excited semiconductors, which is applicable both to the electron-hole BCS state and to the exciton Bose-Einstein condensate. The crossover behavior between electron-hole BCS state and exciton Bose-Einstein condensate clearly manifests itself in the calculated luminescence spectra. The analysis is based on the Bethe-Salpeter equation combined with the generalized random-phase-approximation, which enables us to consider the multiple Coulomb scattering and the quantum fluctuation associated with the center-of-mass motion of electron-hole pairs. In the crossover regime, the calculated spectra are essentially different from results obtained by the BCS-like mean-field theory and the interacting Boson model. In particular, it is found that the broad spectrum, arising from the recombination of electron-hole BCS state, splits into the P- and P_2-luminescence bands with decreasing the particle density. The dependence of these bands on the carrier density is in good agreement with experiments for highly excited semiconductors.
description: 9 pages, 4 figures, To appear in Solid State Communications
Additional file 1: of Combination treatment with hypofractionated radiotherapy plus IL-2/anti-IL-2 complexes and its theranostic evaluation
Creators: name: Jing, Hua
name: Hettich, Michael
name: Gaedicke, Simone
name: Firat, Elke
name: BartholomĂ¤, Mark
name: Niedermann, Gabriele
Publisher: name: figshare
Year: 2019
Subjects: subject: Space Science
subject: Immunology
subject: FOS: Clinical medicine
subject: Cancer

description: Description of data: Flow cytometry results showing the successful depletion of CD122-positive cells in spleen and lymph nodes 24â h after i.p. injection of CD122-depleting antibodies. (DOCX 312 kb)
Vaccination with Venezuelan equine encephalitis replicons encoding cowpox virus structural proteins protects mice from intranasal cowpox virus challenge
Creators: name: Ray, Caroline A.
name: Collier, Martha L.
name: Thornburg, Natalie J.
name: Liao, Hua-Xin
name: Johnston, Robert E.
name: Pickup, David J.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2007

description: An anti-poxvirus vaccine based on replicon particles of Venezuelan equine encephalitis virus (VRP) is being developed. The cowpox virus genes encoding structural proteins corresponding to vaccinia virus proteins A33, B5, and A27 were each expressed from VRP. High serum IgG titers against these proteins were generated in BALB/c mice vaccinated with each of these VRP. VRP induced both IgG1 and IgG2a with a strong predominance of IgG2a production. The response is long-lasting, as evidenced by the retention of high anti-B5 serum IgG titers through at least 50 weeks after priming immunization. Mice vaccinated with B5-, A33- or A27-VRP individually or together survived intranasal challenge with cowpox virus, with the multivalent vaccine formulation providing more effective protection from weight loss and clinical signs of illness than the monovalent vaccines. These results demonstrate that VRP may provide an effective alternative to vaccinia virus vaccines against poxvirus infection.
Spectra of Cayley graphs of the lamplighter group and random Schrodinger operators
Creators: name: Grigorchuk, Rostislav
name: Simanek, Brian
Publisher: name: arXiv
Year: 2019
Subjects: subject: Geometric Topology (math.GT)
subject: Operator Algebras (math.OA)
subject: Probability (math.PR)
subject: FOS: Mathematics

description: We show that the lamplighter group L has a system of generators for which the spectrum of the discrete Laplacian on the Cayley graph is a union of an interval and a countable set of isolated points accumulating to a point outside this interval. This is the first example of a group with infinitely many gaps in the spectrum of its Cayley graph. The result is obtained by a careful study of spectral properties of a one-parametric family of convolution operators on L. Our results show that the spectrum is a pure point spectrum for each value of the parameter, the eigenvalues are solutions of algebraic equations involving Chebyshev polynomials of the second kind, and the topological structure of the spectrum makes a bifurcation when the parameter passes the points 1 and -1.
description: 30 pages; version 2 contains substantial enhancements and a title change from version 1
Band structures of periodic carbon nanotube junctions and their symmetries analyzed by the effective mass approximation
Creators: name: Tamura, Ryo
name: Tsukada, Masaru
Publisher: name: arXiv
Year: 1998
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: FOS: Physical sciences

description: The band structures of the periodic nanotube junctions are investigated by the effective mass theory and the tight binding model. The periodic junctions are constructed by introducing pairs of a pentagonal defect and a heptagonal defect periodically in the carbon nanotube. We treat the periodic junctions whose unit cell is composed by two kinds of metallic nanotubes with almost same radii, the ratio of which is between 0.7 and 1 . The discussed energy region is near the undoped Fermi level where the channel number is kept to two, so there are two bands. The energy bands are expressed with closed analytical forms by the effective mass theory with some assumptions, and they coincide well with the numerical results by the tight binding model. Differences between the two methods are also discussed. Origin of correspondence between the band structures and the phason pattern discussed in Phys. Rev. B {\bf 53}, 2114, is clarified. The width of the gap and the band are in inverse proportion to the length of the unit cell, which is the sum of the lengths measured along the tube axis in each tube part and along 'radial' direction in the junction part. The degeneracy and repulsion between the two bands are determined only from symmetries.
description: RevTeX, gif file
Characterization of mre11 loss following HSV-1 infection
Creators: name: Gregory, Devon A.
name: Bachenheimer, Steven L.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2008

description: Herpes simplex virus induces the activation of the cellular DNA double strand break response pathway dependent upon initiation of viral DNA replication. The MRN complex, consisting of Mre11, Rad50 and Nbs1, is an essential component of the DNA double strand break response and other reports have documented its presence at sites of viral DNA replication, interaction with ICP8, and its contribution to efficient viral DNA replication. During our characterization of the DSB response following infection of normal human fibroblasts and telomerase-immortalized keratinocytes, we observed the loss of Mre11 protein at late times following infection. The loss was not dependent upon ICP0, the proteasome, or lysosomal protease activity. Like activation of the DSB response pathway, Mre11 loss was prevented under conditions which inhibited viral DNA replication. Analysis of a series of mutant viruses with defects in cleavage and packaging (UL6, UL15, UL17, UL25, UL28, UL32) of viral DNA or in the maturational protease (UL26), failed to identify a viral gene product necessary for Mre11 loss. Inactivation of ATM, a key effector kinase in the DNA double strand break response, had no effect on Mre11 loss and only a moderate effect on HSV yield. Finally, treatment of uninfected cells with the topoisomerase I inhibitor camptothecin, to induce generation of free DNA ends, also resulted in Mre11 loss. These results suggest that Mre11 loss following infection is caused by the generation of free DNA ends during or following viral DNA replication.
Thermodynamics of the two-dimensional black hole in the Teitelboim-Jackiw theory
Creators: name: Lemos, Jose' P. S.
Publisher: name: arXiv
Year: 1996
Subjects: subject: General Relativity and Quantum Cosmology (gr-qc)
subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: The two-dimensional theory of Teitelboim and Jackiw has constant and negative curvature. In spite of this, the theory admits a black hole solution with no singularities. In this work we study the thermodynamics of this black hole using York's formalism.
description: 16 pages, Latex
Hebrus (Hebrusella) machadoi Hoberlandt 1951
Creators: name: Kment, Petr
name: Kolínová, Zdislava
Publisher: name: Zenodo
Year: 2013
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Hemiptera
Hebridae
Hebrus
Hebrus machadoi

description: Hebrus (Hebrusella) machadoi Hoberlandt, 1951
 Hebrus (Hebrusella) machadoi Hoberlandt, 1951a: 40–44, Figs 129–136 (original description, key).
PARATYPE (♀ macr.): ‘VI-VII.48 Tshikapa [hw] / Dundo, Angola / A. B. Machado lg. [p] // Ang. [p] No 880. 4 / coll. A.B.Machado [p] // Paratypus [p, red label] // Paratypus [p] / Hebrus / (Hebrusella) / machadoi / sp. n. ♀ [hw] / Det. L. Hoberlandt, 19[p]50 [hw, red label] // ♀ | ♀ | ♀ | ♀ [p]’.
 Note. Collection also includes two slides with legs, antennae and hemelytron of additional paratype specimens (Slide Box 2).
 Current status. Valid species: Hebrus (Hebrusella) machadoi machadoi (see POISSON 1955).
description: Published as part of Kment, Petr & Kolínová, Zdislava, 2013, Catalogue of type specimens of true bugs (Hemiptera: Heteroptera) deposited in the National Museum, Prague, Czech Republic, pp. 821-890 in Acta Entomologica Musei Nationalis Pragae 53 (2) on page 836, DOI: 10.5281/zenodo.5740731
Effects of QCD Resummation on $W^+h$ and $t\bar b$ Production at the Tevatron
Creators: name: Mrenna, S.
name: Yuan, C. -P.
Publisher: name: arXiv
Year: 1997
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: The resummation of multiple soft gluon emission affects the production rate and kinematic distributions of $W^+h$ (where h is a Higgs boson) and $t \bar b$ pairs at the Tevatron with $\sqrt{s}=2$ TeV. Using the Collins-Soper-Sterman resummation formalism, the production rate is enhanced over the next-to-leading-order (NLO) prediction by 2-3% for the $W^+h$ process, for Higgs boson masses between 80-120 GeV, and over 3% for the $t\bar b$ process for $m_t=175$ GeV. After resummation, the $t\bar b$ rate changes by 12-13% when $m_t$ is varied by $\pm 5$ GeV. Various kinematic distributions are presented for the individual final state particles and for the pair. The explicit radiation of hard gluons in NLO QCD is included also for the $t\bar b$ final state.
description: 9 pages, 12 Postscript figures, in RevTeX format, uses epsf.tex
Simulation of a Single Polymer Chain in Solution by Combining Lattice Boltzmann and Molecular Dynamics
Creators: name: Ahlrichs, Patrick
name: Duenweg, Burkhard
Publisher: name: arXiv
Year: 1999
Subjects: subject: Soft Condensed Matter (cond-mat.soft)
subject: FOS: Physical sciences

description: In this paper we establish a new efficient method for simulating polymer-solvent systems which combines a lattice Boltzmann approach for the fluid with a continuum molecular dynamics (MD) model for the polymer chain. The two parts are coupled by a simple dissipative force while the system is driven by stochastic forces added to both the fluid and the polymer. Extensive tests of the new method for the case of a single polymer chain in a solvent are performed. The dynamic and static scaling properties predicted by analytical theory are validated. In this context, the influence of the finite size of the simulation box is discussed. While usually the finite size corrections scale as L^{-1} (L denoting the linear dimension of the box), the decay rate of the Rouse modes is only subject to an L^{-3} finite size effect. Furthermore, the mapping to an existing MD simulation of the same system is done so that all physical input values for the new method can be derived from pure MD simulation. Both methods can thus be compared quantitatively, showing that the new method allows for much larger time steps. Comparison of the results for both methods indicates systematic deviations due to non-perfect match of the static chain conformations.
description: 17 pages, 12 figures, submitted to J. Chem. Phys
Merragata lindbergi Poisson 1954
Creators: name: Kment, Petr
name: Kolínová, Zdislava
Publisher: name: Zenodo
Year: 2013
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Hemiptera
Hebridae
Merragata
Merragata lindbergi

description: Merragata lindbergi Poisson, 1954
 Merragata lindbergi Poisson, 1954: 2–3, Figs 2A–G (original description).
A paratype is deposited in NMPC: SYNTYPE (J macr.): ‘Tenerife / Puerto de S. Juan [p] / 18. 1. [hw] 49 Lindberg // J [p] // Paratypus [p] / Merragata
 / Lindbergi / Poiss. [hw, red label] // SYNTYPUS / MERRAGATA / LINDBERGI / Poisson, 1954 / labelled: P.
KMENT 2013 [p, red label]’.
 Current status. Junior synonym of Merragata hebroides White, 1877 (see DRAKE & CHAPMAN 1958, DRAKE & COBBEN 1960, ANDERSEN 1995, MOREIRA et al. 2011).
 Remarks. POISSON (1954) described the species based on 2JJ and 4♀♀ without designating a holotype, so all the specimens must be regarded as syntypes (see ANDERSEN 1995).
description: Published as part of Kment, Petr & Kolínová, Zdislava, 2013, Catalogue of type specimens of true bugs (Hemiptera: Heteroptera) deposited in the National Museum, Prague, Czech Republic, pp. 821-890 in Acta Entomologica Musei Nationalis Pragae 53 (2) on pages 837-838, DOI: 10.5281/zenodo.5740731
Ectromelia virus BTB/kelch proteins, EVM150 and EVM167, interact with cullin-3-based ubiquitin ligases
Creators: name: Furukawa, Manabu
name: Barry, Michele
name: Xiong, Yue
name: Van Buuren, Nicholas
name: Garneau, Robyn
name: Campbell, Stephanie
name: Wilton, Brianne A.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2008

description: Cellular proteins containing BTB and kelch domains have been shown to function as adapters for the recruitment of substrates to cullin-3-based ubiquitin ligases. Poxviruses are the only family of viruses known to encode multiple BTB/kelch proteins, suggesting that poxviruses may modulate the ubiquitin pathway through interaction with cullin-3. Ectromelia virus encodes four BTB/kelch proteins and one BTB-only protein. Here we demonstrate that two of the ectromelia virus encoded BTB/kelch proteins, EVM150 and EVM167, interacted with cullin-3. Similar to cellular BTB proteins, the BTB domain of EVM150 and EVM167 was necessary and sufficient for cullin-3 interaction. During infection, EVM150 and EVM167 localized to discrete cytoplasmic regions, which co-localized with cullin-3. Furthermore, EVM150 and EVM167 co-localized and interacted with conjugated ubiquitin, as demonstrated by confocal microscopy and co-immunoprecipitation. Our findings suggest that the ectromelia virus encoded BTB/kelch proteins, EVM150 and EVM167, interact with cullin-3 potentially functioning to recruit unidentified substrates for ubiquitination.
The reconstruction of Ni and Rh (001) surfaces upon Carbon, Nitrogen, or Oxygen adsorption
Creators: name: Alfe`, Dario
name: de Gironcoli, Stefano
name: Baroni, Stefano
Publisher: name: arXiv
Year: 1998
Subjects: subject: Materials Science (cond-mat.mtrl-sci)
subject: FOS: Physical sciences

description: Nickel and Rhodium (001) surfaces display a similar - as from STM images - clock reconstruction when half a monolayer of C/Ni, N/Ni or O/Rh is adsorbed; no reconstruction is observed instead for O/Ni. Adsorbate atoms sit at the center of the black squares of a chess-board, $c(2\times 2)$, pattern and two different reconstructions are actually compatible with the observed STM images - showing a $(2\times 2)p4g$ pattern - according to whether a rotation of the black or white squares occurs. We report on a first - principles study of the structure of X/Ni(001) and X/Rh(001) surfaces (X=C,N,O) at half a monolayer coverage, performed using density-functional theory. Our findings are in agreement with all available experimental information and shed new light on the mechanisms responsible for the reconstructions. We show that the same substrate may display different reconstructions - or no reconstruction - upon adsorption of different atomic species, depending on the relative importance of the chemical and steric factors which determine the reconstruction.
description: 18 pages, 5 figures
Photon inner product and the Gauss linking number
Creators: name: Ashtekar, Abhay
name: Corichi, Alejandro
Publisher: name: arXiv
Year: 1996
Subjects: subject: General Relativity and Quantum Cosmology (gr-qc)
subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: It is shown that there is an interesting interplay between self-duality, loop representation and knots invariants in the quantum theory of Maxwell fields in Minkowski space-time. Specifically, in the loop representation based on self-dual connections, the measure that dictates the inner product can be expressed as the Gauss linking number of thickened loops.
description: 18 pages, Revtex. No figures. To appear in Class. Quantum Grav
Bacillometra woytkowskii Hungerford 1935
Creators: name: Kment, Petr
name: Kolínová, Zdislava
Publisher: name: Zenodo
Year: 2013
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Hemiptera
Hydrometridae
Bacillometra
Bacillometra woytkowskii

description: Bacillometra woytkowskii Hungerford, 1935
 Bacillometra woytkowskii Hungerford, 1935: 119−123, Figs 1 male, a, b; 2 female, a,b (original description, key).
Two paratypes are deposited in NMPC.
PARATYPE (J macr.): ‘ Peru S A / Recardo Palma / Nov. 27-29 1934 / F. Woytkowski [p] // 1250 m above sea / 44 km E of Lima / (see letter) [p] // J [p] // P A R A T Y P E / Bacillometra / woytkowskii / H. B. Hungerford [p, blue label]’.
PARATYPE (♀): ‘ Peru S A / Recardo Palma / Nov. 27-29 1934 / F. Woytkowski [p] // 1250 m above sea / 44 km E of Lima / (see letter) [p] // ♀ [p] // P A R A T Y P E / Bacillometra / woytkowskii / H. B. Hungerford [p, blue label]’.
 Current status. Valid species: Bacillometroides woytkowskii (Hungerford, 1935) (see POLHE- MUS & POLHEMUS 2010, HECKMAN 2011).
description: Published as part of Kment, Petr & Kolínová, Zdislava, 2013, Catalogue of type specimens of true bugs (Hemiptera: Heteroptera) deposited in the National Museum, Prague, Czech Republic, pp. 821-890 in Acta Entomologica Musei Nationalis Pragae 53 (2) on page 838, DOI: 10.5281/zenodo.5740731
Diffusion and the BFKL Pomeron
Creators: name: Forshaw, J. R.
name: Sutton, P. J.
Publisher: name: arXiv
Year: 1997
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: We study the high energy behaviour of elastic scattering amplitudes within the leading logarithm approximation. In particular, we cast the amplitude in a form which allows us to study the internal dynamics of the BFKL Pomeron for general momentum transfer. We demonstrate that the momentum transfer acts as an effective infrared cut-off which ensures that the dominant contribution arises from short distance physics.
description: 15 pages (LaTeX), 8 postscript figures
Microvelia (Microvelia) angolensis Hoberlandt 1951
Creators: name: Kment, Petr
name: Kolínová, Zdislava
Publisher: name: Zenodo
Year: 2013
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Hemiptera
Veliidae
Microvelia
Microvelia angolensis

description: Microvelia (Microvelia) angolensis Hoberlandt, 1951
 Microvelia (Microvelia) angolensis Hoberlandt, 1951a: 24–27, Figs 48–57 (original description).
Five paratypes are deposited in NMPC:
PARATYPE (J apter.): ‘Dundo, Lunda / Angola [p] III.48 [hw] /A. B. Machado lgt. [p] //Ang. [p] No. 608.3 [hw] / coll. A. B. Machado [p] // Paratypus [p, red label] // Paratypus [p] / Microvelia / angolensis / n. sp. f. apt.J [hw] / Det. L. Hoberlandt, 19[p]50 [hw, red label] // J|J|J|J [p] // Mus. Nat. Pragae / Inv. [p] 1209 [hw, orange label]’.
PARATYPES (2 JJ apter.): ‘Dundo, Lunda / Angola [p] III. 48 [hw] / A. B. Machado lgt. [p] // Ang. [p] No. 608.3 [hw] / coll. A.B. Machado [p] // Paratypus [p, red label] // Paratypus [p] / Microvelia / angolensis / n. sp. f. apt. J [hw] / Det. L. Hoberlandt, 19[p]50 [hw, red label] // Mus. Nat. Pragae / Inv. [p] 1210, 1211 [respectively; hw, orange label]’.
PARATYPE (J apter.): ‘N. Mus. Praha / č. k. [p] / Heteroptera / Zpr. M. Z. / (608.3) 1950 [hw] / Dundo Lunda III. 1948 / lgt. A. Machado [hw, white label with black frame submarginally] // Microvelia (s. str.) / angolensis / apt. J sp.n. [hw] / Det. L. Hoberlandt, 19[p]50 [hw, red label is mounted on a slide, male genitalia and all legs except the right hind leg are removed; male one fore and both middle legs mounted on two separate slides. All the slides deposited in Slide
PARATYPE (♀ apter.): ‘Dundo, Lunda / Angola [p] III. 48 [hw] / A B Machado lgt.. 608.3 [hw] / coll. A.B. Machado [p] // Paratypus [p, red label] // Paratypus [p] / Microvelia /. apt. ♀ [hw] / Det. L. Hoberlandt, 19[p]50 [hw, red label] // ♀ | ♀ | ♀ | ♀ [p] // Mus. Nat. Pragae /, orange label]’.
 Current status. Valid species.
description: Published as part of Kment, Petr & Kolínová, Zdislava, 2013, Catalogue of type specimens of true bugs (Hemiptera: Heteroptera) deposited in the National Museum, Prague, Czech Republic, pp. 821-890 in Acta Entomologica Musei Nationalis Pragae 53 (2) on pages 839-840, DOI: 10.5281/zenodo.5740731
Additional file 1: of Determinants and outcomes of access-related blood-stream infections among Irish haemodialysis patients; a cohort study
Creators: name: Husham Mohamed
name: Ali, Alaa
name: Browne, Leonard
name: OâConnell, Nuala
name: Casserly, Liam
name: Stack, Austin
name: Hussein, Wael
Publisher: name: figshare
Year: 2019
Subjects: subject: Medicine
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Biotechnology
subject: Ecology
subject: Sociology
subject: FOS: Sociology
subject: Developmental Biology
subject: Science Policy
subject: 110309 Infectious Diseases
subject: FOS: Health sciences

description: Table S1. Number of patients and type of access in each month in the observation period. Table S2. Number of patient months in total and in 2015, 2016 by access type. Table S3. Baseline characteristics by age group in the whole study population. (DOC 83 kb)
Human non-CpG methylation patterns display both tissue-specific and inter-individual differences suggestive of underlying function
Creators: name: Titcombe, Philip
name: Murray, Robert
name: Hewitt, Matthew
name: Antoun, Elie
name: Cooper, Cyrus
name: Inskip, Hazel M
name: Holbrook, Joanna D
name: Godfrey, Keith M
name: Lillycrop, Karen
name: Hanson, Mark
name: Barton, Sheila J
Publisher: name: Taylor & Francis
Year: 2022
Subjects: subject: Biochemistry
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Neuroscience
subject: Physiology
subject: Biotechnology
subject: Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Mental Health
subject: Plant Biology

description: DNA methylation (DNAm) in mammals is mostly examined within the context of CpG dinucleotides. Non-CpG DNAm is also widespread across the human genome, but the functional relevance, tissue-specific disposition, and inter-individual variability has not been widely studied. Our aim was to examine non-CpG DNAm in the wider methylome across multiple tissues from the same individuals to better understand non-CpG DNAm distribution within different tissues and individuals and in relation to known genomic regulatory features. DNA methylation in umbilical cord and cord blood at birth, and peripheral venous blood at age 12–13 y from 20 individuals from the Southampton Women’s Survey cohort was assessed by Agilent SureSelect methyl-seq. Hierarchical cluster analysis (HCA) was performed on CpG and non-CpG sites and stratified by specific cytosine environment. Analysis of tissue and inter-individual variation was then conducted in a second dataset of 12 samples: eight muscle tissues, and four aliquots of cord blood pooled from two individuals. HCA using methylated non-CpG sites showed different clustering patterns specific to the three base-pair triplicate (CNN) sequence. Analysis of CAC sites with non-zero methylation showed that samples clustered first by tissue type, then by individual (as observed for CpG methylation), while analysis using non-zero methylation at CAT sites showed samples grouped predominantly by individual. These clustering patterns were validated in an independent dataset using cord blood and muscle tissue. This research suggests that CAC methylation can have tissue-specific patterns, and that individual effects, either genetic or unmeasured environmental factors, can influence CAT methylation.
Angle-resolved photoemission in doped charge-transfer Mott insulators
Creators: name: Alexandrov, A. S.
name: Dent, C. J.
Publisher: name: arXiv
Year: 1999
Subjects: subject: Superconductivity (cond-mat.supr-con)
subject: FOS: Physical sciences

description: A theory of angle-resolved photoemission (ARPES) in doped cuprates and other charge-transfer Mott insulators is developed taking into account the realistic (LDA+U) band structure, (bi)polaron formation due to the strong electron-phonon interaction, and a random field potential. In most of these materials the first band to be doped is the oxygen band inside the Mott-Hubbard gap. We derive the coherent part of the ARPES spectra with the oxygen hole spectral function calculated in the non-crossing (ladder) approximation and with the exact spectral function of a one-dimensional hole in a random potential. Some unusual features of ARPES including the polarisation dependence and spectral shape in YBa2Cu3O7 and YBa2Cu4O8 are described without any Fermi-surface, large or small. The theory is compatible with the doping dependence of kinetic and thermodynamic properties of cuprates as well as with the d-wave symmetry of the superconducting order parameter.
description: 8 pages (RevTeX), 10 figures, submitted to Phys. Rev. B
Microvelia arca Drake 1958
Creators: name: Kment, Petr
name: Kolínová, Zdislava
Publisher: name: Zenodo
Year: 2013
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Hemiptera
Veliidae
Microvelia
Microvelia arca

description: Microvelia arca Drake, 1958
 Microvelia arca Drake, 1958: 59−60, Fig. 1 (original description).
Three paratypes are deposited in NMPC:
PARATYPES (2 JJ apter.): ‘Linha Facao / St. Catarina / Bras. [p] V [hw] 57 / F C. J. Drake / Coll. 1956 [p] // J [p] // PARATYPE / By C. J. Drake [p] / Microvelia / arca [hw,
PARATYPE (1 ♀ apter.): ‘Linha Facao / St. Catarina / Bras. [p] V [hw] 57 / F. C. J. Drake / Coll. 1956 [p] // ♀ [p] // PARATYPE / By C. J. Drake [p] / Microvelia / arca [hw,
 Current status. Valid species, not attributed to any subgenus (2011, MOREIRA et al. 2011).
description: Published as part of Kment, Petr & Kolínová, Zdislava, 2013, Catalogue of type specimens of true bugs (Hemiptera: Heteroptera) deposited in the National Museum, Prague, Czech Republic, pp. 821-890 in Acta Entomologica Musei Nationalis Pragae 53 (2) on page 840, DOI: 10.5281/zenodo.5740731
The census of interstellar complex organic molecules in the Class I hot corino of SVS13-A
Creators: name: Bianchi, E.
name: Codella, C.
name: Ceccarelli, C.
name: Vazart, F.
name: Bachiller, R.
name: Balucani, N.
name: Bouvier, M.
name: De Simone, M.
name: Enrique-Romero, J.
name: Kahane, C.
name: Lefloch, B.
name: López-Sepulcre, A.
name: Ospina-Zamudio, J.
name: Podio, L.
name: Taquet, V.
Publisher: name: arXiv
Year: 2018
Subjects: subject: Solar and Stellar Astrophysics (astro-ph.SR)
subject: Astrophysics of Galaxies (astro-ph.GA)
subject: FOS: Physical sciences

description: We present the first census of the interstellar Complex Organic Molecules (iCOMs) in the low-mass Class I protostar SVS13-A, obtained by analysing data from the IRAM-30m Large Project ASAI (Astrochemical Surveys At IRAM). They consist of an high-sensitivity unbiased spectral survey at the 1mm, 2mm and 3mm IRAM bands. We detected five iCOMs: acetaldehyde (CH$_3$CHO), methyl formate (HCOOCH$_3$), dimethyl ether (CH$_3$OCH$_3$), ethanol (CH$_3$CH$_2$OH) and formamide (NH$_2$CHO). In addition we searched for other iCOMs and ketene (H$_2$CCO), formic acid (HCOOH) and methoxy (CH$_3$O), whose only ketene was detected. The numerous detected lines, from 5 to 37 depending on the species, cover a large upper level energy range, between 15 and 254 K. This allowed us to carry out a rotational diagram analysis and derive rotational temperatures between 35 and 110 K, and column densities between $3\times 10^{15}$ and $1\times 10^{17}$ cm$^{-2}$ on the 0."3 size previously determined by interferometric observations of glycolaldehyde. These new observations clearly demonstrate the presence of a rich chemistry in the hot corino towards SVS13-A. The measured iCOMs abundances were compared to other Class 0 and I hot corinos, as well as comets, previously published in the literature. We find evidence that (i) SVS13-A is as chemically rich as younger Class 0 protostars, and (ii) the iCOMs relative abundances do not substantially evolve during the protostellar phase.
description: 24 pages, MNRAS in press
Additional file 1 of Identification of transcription factor binding sites using ATAC-seq
Creators: name: Zhijian Li
name: Schulz, Marcel
name: Look, Thomas
name: Begemann, Matthias
name: Zenke, Martin
name: Costa, Ivan
Publisher: name: figshare
Year: 2019
Subjects: subject: Biochemistry
subject: Space Science
subject: Medicine
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: 19999 Mathematical Sciences not elsewhere classified
subject: FOS: Mathematics
subject: Developmental Biology
subject: 110309 Infectious Diseases
subject: FOS: Health sciences

description: Supplementary methods, figures and tables. (PDF 6,084 kb)
Microvelia japonica Esaki & Miyamoto 1955
Creators: name: Kment, Petr
name: Kolínová, Zdislava
Publisher: name: Zenodo
Year: 2013
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Hemiptera
Veliidae
Microvelia
Microvelia japonica

description: Microvelia japonica Esaki & Miyamoto, 1955
 Microvelia japonica Esaki & Miyamoto, 1955: 179, 187–190, Figs 7A–M, Pl. 25: Fig. A, Pl. 29: Figs E–F (original description, key).
Two paratypes are deposited in NMPC:
 PARATYPE (J apter.): ‘(Kyushu) / Wakasugi-yama / Chikuzen / 28. VII. 1948 / S. Miyamoto [hw] // J [p] // PARA- TYPUS / Microvelia / japonica / Esaki et Miyamoto / reverse: [Kyushu] / Wakasugi-yama / Chikuzen / 28. VII. 1948 / S. Miyamoto [hw] // PARATYPUS / MICROVELIA / JAPONICA / Esaki & Miyamoto, 1955 / labelled: P. KMENT 2013 [p, red label]’.
 PARATYPE (♀ apter.): ‘(Kyushu) / Wakasugi-yama / Chikuzen / 28. VII. 1948 / S. Miyamoto [hw] // ♀ [p] // PARA- TYPUS / MICROVELIA / JAPONICA / Esaki & Miyamoto, 1955 / labelled: P. KMENT 2013 [p, red label]’.
 Current status. Valid species: Microvelia (Picaultia) japonica Esaki & Miyamoto, 1955 (see ANDERSEN 1995, ANDERSEN & WEIR 2003, AUKEMA et al. 2013).
description: Published as part of Kment, Petr & Kolínová, Zdislava, 2013, Catalogue of type specimens of true bugs (Hemiptera: Heteroptera) deposited in the National Museum, Prague, Czech Republic, pp. 821-890 in Acta Entomologica Musei Nationalis Pragae 53 (2) on pages 842-843, DOI: 10.5281/zenodo.5740731
Estimations of Order alpha_s^3 and alpha_s^4 Corrections to Mass-Dependent Observables
Creators: name: Chetyrkin, K. G.
name: Kniehl, B. A.
name: Sirlin, A.
Publisher: name: arXiv
Year: 1997
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: A simple procedure to estimate O(alpha_s^3) and O(alpha_s^4) corrections to mass-dependent observables is conjectured. The method is tested in a number of cases where the O(alpha_s^3) contribution is exactly known, and reasonable agreement is found.
description: 10 pages (Latex)
Effects of rapid antigen degradation and VEE glycoprotein specificity on immune responses induced by a VEE replicon vaccine
Creators: name: Swanstrom, R.
name: Tang, Y.
name: Whitmore, A.C.
name: Fu, K.
name: Davis, N.L.
name: Fluet, M.E.
name: West, A.
name: Moore, D.T.
name: Johnston, R.E.
name: Moshkoff, D.A.
name: Collier, M.L.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2008

description: Genetic vaccines are engineered to produce immunogens de novo in the cells of the host for stimulation of a protective immune response. In some of these systems, antigens engineered for rapid degradation have produced an enhanced cellular immune response by more efficient entry into pathways for processing and presentation of MHC class I peptides. VEE replicon particles (VRP), single cycle vaccine vectors derived from Venezuelan equine encephalitis virus (VEE), are examined here for the effect of an increased rate of immunogen degradation on VRP vaccine efficacy. VRP expressing the matrix capsid (MA/CA) portion of SIV Gag were altered to promote rapid degradation of MA/CA by various linkages to co-translated ubiquitin or by destabilizing mutations and were used to immunize BALB/c mice for quantitation of the anti-MA/CA cellular and humoral immune responses. Rapid degradation by the N-end rule correlated with a dampened immune response relative to unmodified MA/CA when the VRP carried a glycoprotein spike from an attenuated strain of VEE. In contrast, statistically equivalent numbers of IFNγ+ T-cells resulted when VRP expressing unstable MA/CA were packaged with the wild-type VEE glycoproteins. These results suggest that the cell types targeted in vivo by VRP carrying mutant or wild type glycoprotein spikes are functionally different, and are consistent with previous findings suggesting that wild-type VEE glycoproteins preferentially target professional antigen presenting cells that use peptides generated from the degraded antigen for direct presentation on MHC.
Tsallis Statistics: Averages and a Physical Interpretation of the Lagrange Multiplier $β$
Creators: name: Rama, S. Kalyana
Publisher: name: arXiv
Year: 2000
Subjects: subject: Statistical Mechanics (cond-mat.stat-mech)
subject: FOS: Physical sciences

description: Tsallis has proposed a generalisation of the standard entropy, which has since been applied to a variety of physical systems. In the canonical ensemble approach that is mostly used, average energy is given by an unnromalised, or normalised, $q$-expectation value. A Lagrange multiplier $β$ enforces the energy constraint whose physical interpretation, however, is lacking. Here, we use a microcanonical ensemble approach and find that consistency requires that only normalised $q$-expectation values are to be used. We then present a physical interpretation of $β$, relating it to a physical temperature. We derive this interpretation by a different method also.
description: Latex file. 11 pages. Sections 2 and 3 modified and shortened; an implicit assumption in Sec 4 is made explicit; a note and a reference added; other minor changes. To appear in Physics Letters A
The ID proteins contribute to the growth of rodent fibroblasts during LMP1-mediated transformation
Creators: name: Raab-Traub, Nancy
name: Everly, David N.
name: Mainou, Bernardo A.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2008

description: LMP1 induces the expression of two members of the family of Id proteins, Id1 and Id3, and affects cell cycle regulation by decreasing the expression of the cyclin dependent kinase inhibitor, p27, and increasing levels and phosphorylation of cdk2 and Rb. In the present study, the contribution of the Id proteins to LMP1-mediated transformation was determined. Although LMP1 effectively inhibited p27 expression, the Id proteins alone did not affect expression of p27, cdk2, and Rb. Neither Id1 nor Id3 was sufficient to transform Rat-1 cells and inhibition of Id1 expression did not affect LMP1-induced morphologic transformation of Rat-1 cells or reduction of p27. However, reduced Id expression resulted in smaller foci and impaired the growth rate of Rat-1 cells. These data indicate that overexpression of the Id proteins is not sufficient for the effects of LMP1 on the cell cycle but that inhibition of Id expression does affect the growth of LMP1-transformed and parental Rat1 cells.
Absence of a Finite-Temperature Melting Transition in the Classical Two-Dimensional One-Component Plasma
Creators: name: Moore, M. A.
name: Perez-Garrido, A.
Publisher: name: arXiv
Year: 1998
Subjects: subject: Superconductivity (cond-mat.supr-con)
subject: Statistical Mechanics (cond-mat.stat-mech)
subject: FOS: Physical sciences

description: Vortices in thin-film superconductors are often modelled as a system of particles interacting via a repulsive logarithmic potential. Arguments are presented to show that the hypothetical (Abrikosov) crystalline state for such particles is unstable at any finite temperature against proliferation of screened disclinations. The correlation length of crystalline order is predicted to grow as $\sqrt{1/T}$ as the temperature $T$ is reduced to zero, in excellent agreement with our simulations of this two-dimensional system.
description: 3 figures
A new mouse-adapted strain of SARS-CoV as a lethal model for evaluating antiviral agents in vitro and in vivo
Creators: name: Kumaki, Yohichi
name: Cai, Sui Xiong
name: Morrey, John D.
name: Day, Craig W.
name: Smee, Donald F.
name: Frieman, Matt
name: Baric, Ralph
name: Barnard, Dale L.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2009

description: Severe acute respiratory syndrome (SARS) is a highly lethal emerging disease caused by coronavirus SARS-CoV. New lethal animal models for SARS were needed to facilitate antiviral research. We adapted and characterized a new strain of SARS-CoV (strain v2163) that was highly lethal in 5–6 week old BALB/c mice. It had nine mutations affecting 10 amino acid residues. Strain v2163 increased IL-1α, IL-6, MIP-1α, MCP-1, and RANTES in mice, and high IL-6 expression correlated with mortality. The infection largely mimicked human disease, but lung pathology lacked hyaline membrane formation. In vitro efficacy against v2163 was shown with known inhihibitors of SARS-CoV replication. In v2163-infected mice, Ampligen™ was fully protective, stinging nettle lectin (UDA) was partially protective, ribavirin was disputable and possibly exacerbated disease, and {"type":"entrez-nucleotide","attrs":{"text":"EP128533","term_id":"135416603","term_text":"EP128533"}}EP128533 was inactive. Ribavirin, UDA and Ampligen™ decreased IL-6 expression. Strain v2163 provided a valuable model for anti-SARS research.
Effects of macroscopic polarization in III-V nitride multi-quantum-wells
Creators: name: Fiorentini, V.
name: Bernardini, F.
name: Della Sala, F.
name: Di Carlo, A.
name: Lugli, P.
Publisher: name: arXiv
Year: 1999
Subjects: subject: Materials Science (cond-mat.mtrl-sci)
subject: FOS: Physical sciences

description: Huge built-in electric fields have been predicted to exist in wurtzite III-V nitrides thin films and multilayers. Such fields originate from heterointerface discontinuities of the macroscopic bulk polarization of the nitrides. Here we discuss the background theory, the role of spontaneous polarization in this context, and the practical implications of built-in polarization fields in nitride nanostructures. To support our arguments, we present detailed self-consistent tight-binding simulations of typical nitride QW structures in which polarization effects are dominant.
description: 11 pages, 9 figures, uses revtex/epsf. submitted to PRB
Chimeric human parainfluenza virus bearing the Ebola virus glycoprotein as the sole surface protein is immunogenic and highly protective against Ebola virus challenge
Creators: name: Pickles, Raymond J.
name: Yang, Lijuan
name: Feldmann, Heinz
name: Murphy, Brian R.
name: Marzi, Andrea
name: Collins, Peter L.
name: Dorward, David W.
name: Ward, Jerrold M.
name: Feldmann, Friederike
name: Bukreyev, Alexander
name: Zhang, Liqun
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2009

description: We generated a new live-attenuated vaccine against Ebola virus (EBOV) based on a chimeric virus HPIV3/ΔF-HN/EboGP that contains the EBOV glycoprotein (GP) as the sole transmembrane envelope protein combined with the internal proteins of human parainfluenza virus type 3 (HPIV3). Electron microscopy analysis of the virus particles showed that they have an envelope and surface spikes resembling those of EBOV and a particle size and shape resembling those of HPIV3. When HPIV3/ΔF-HN/EboGP was inoculated via apical surface of an in vitro model of human ciliated airway epithelium, the virus was released from the apical surface; when applied to basolateral surface, the virus infected basolateral cells but did not spread through the tissue. Following intranasal (IN) inoculation of guinea pigs, scattered infected cells were detected in the lungs by immunohistochemistry, but infectious HPIV3/ΔF-HN/EboGP could not be recovered from the lungs, blood, or other tissues. Despite the attenuation, the virus was highly immunogenic, and a single IN dose completely protected the animals against a highly lethal intraperitoneal challenge of guinea pig-adapted EBOV.
Cross-reactive monoclonal antibodies to multiple HIV-1 subtype and SIVcpz envelope glycoproteins
Creators: name: Korber, Bette T.
name: Lomas, Woodrow E.
name: Hora, Bhavna
name: Xia, Shimao
name: Parks, Robert J.
name: Liao, Hua-xin
name: Ogburn, Damon F.
name: Hahn, Beatrice H.
name: Haynes, Barton F.
name: Maino, Vernon C.
name: Cohen, Myron S.
name: Moody, M. Anthony
name: Scearce, Richard M.
name: Park, Emily
name: Tomaras, Georgia D.
name: Fiscus, Susan A.
name: Alam, S. Munir
name: Hohm, Julie E.
name: Gao, Feng
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2009

description: The extraordinarily high level of genetic variation of HIV-1 env genes poses a challenge to obtain antibodies that cross-react with multiple subtype Env glycoproteins. To determine if cross-reactive monoclonal antibodies (mAbs) to highly conserved epitopes in HIV-1 envelope glycoproteins can be induced, we immunized mice with wild-type or consensus HIV-1 Env proteins and characterized a panel of ten mAbs that reacted with varying breadth to subtypes A, B, C, D, F, G, CRF01_AE and a highly divergent SIVcpzUS Env proteins by ELISA and Western blot analysis. Two mAbs (3B3 and 16H3) cross–reacted with all tested Env proteins, including SIVcpzUS Env. Surface plasmon resonance analyses showed both 3B3 and 16H3 bound Env proteins with high affinity. However, neither neutralized primary HIV-1 pseudoviruses. These data indicate that broadly-reactive non-neutralizing monoclonal antibodies can be elicited, but that the conserved epitopes that they recognize are not present on functional virion trimers. Nonetheless, such mAbs represent valuable reagents to study the biochemistry and structural biology of Env protein oligomers.
Dengue virus neutralization by human immune sera: Role of envelope protein domain III-reactive antibody
Creators: name: Wahala, W.M.P.B.
name: de Silva, Aravinda M.
name: Kraus, Annette A.
name: Accavitti-Loper, Mary Ann
name: Haymore, Laura B.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2009

description: Dengue viruses (DENV) are the etiological agents of dengue fever (DF) and dengue hemorrhagic fever (DHF). The DENV complex consists of four closely related viruses designated DENV serotypes 1 through-4. Although infection with one serotype induces cross reactive antibody to all 4 serotypes, the long term protective antibody response is restricted to the serotype responsible for infection. Cross-reactive antibodies appear to enhance infection during a second infection with a different serotype. The goal of the present study was to characterize the binding specificity and functional properties of human DENV immune sera. The study focused on domain III of the viral envelope protein (EDIII), as this region has a well characterized epitope that is recognized by strongly neutralizing serotype-specific mouse monoclonal antibodies (Mabs). Our results demonstrate that EDIII-reactive antibodies are present in primary and secondary DENV immune human sera. Human antibodies bound to a serotype specific epitope on EDIII after primary infection and a serotype cross reactive epitope on EDIII after secondary infection. However, EDIII-binding antibodies constituted only a small fraction of the total antibody in immune sera binding to DENV. Studies with complete and EDIII antibody depleted human immune sera demonstrated that EDIII binding antibodies play a minor role in DENV neutralization. We propose that human antibodies directed to other epitopes on the virus are primarily responsible for DENV neutralization. Our results have implications for understanding protective immunity following natural DENV infection and for evaluating DENV vaccines.
The extended flare in CTA 102 in 2016 and 2017 within a hadronic model through cloud ablation by the relativistic jet
Creators: name: Zacharias, Michael
name: Böttcher, Markus
name: Jankowsky, Felix
name: Lenain, Jean-Philippe
name: Wagner, Stefan
name: Wierzcholska, Alicja
Publisher: name: arXiv
Year: 2018
Subjects: subject: High Energy Astrophysical Phenomena (astro-ph.HE)
subject: Astrophysics of Galaxies (astro-ph.GA)
subject: FOS: Physical sciences

description: The flat spectrum radio quasar CTA 102 (redshift 1.037) exhibited a tremendously bright 4-months long outburst from late 2016 to early 2017. In a previous paper, we interpreted the event as the ablation of a gas cloud by the relativistic jet. The multiwavelength data have been reproduced very well within this model using a leptonic emission scenario. Here we expand that work by using a hadronic scenario, which gives us greater freedom with respect to the location of the emission region within the jet. This is important, since the inferred gas cloud parameters depend on the distance from the black hole. While the hadronic model faces the problem of invoking super-Eddington jet luminosities, it reproduces well the long-term trend and also days-long subflares. While the latter result in inferred cloud parameters that match those expected for clouds of the broad-line region, the long-term trend is not compatible with such an interpretation. We explore the possibilities that the cloud is from the atmosphere of a red giant star or comes from a star-forming region that passes through the jet. The latter could also explain the much longer-lasting activity phase of CTA 102 from late 2015 till early 2018.
description: 20 pages, 9 figures, 8 tables, accepted for publication in ApJ
Tensor-multi-scalar theories from multidimensional cosmology
Creators: name: Rainer, M.
name: Zhuk, A.
Publisher: name: arXiv
Year: 1996
Subjects: subject: General Relativity and Quantum Cosmology (gr-qc)
subject: FOS: Physical sciences

description: Inhomogeneous multidimensional cosmological models with a higher dimensional space-time manifold M=M_0 x M_1 x ... M_n are investigated under dimensional reduction to tensor-multi-scalar theories. In the Einstein conformal frame, these theories take the shape of a flat sigma-model. For the singular case where M_0 is 2-dimensional, the dimensional reduction to dilaton gravity is preformed with different distinguished representations of the action.
description: 14 pages, latex, to appear in Phys. Rev. D