cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Humanized mice engrafted with human HSC only or HSC and thymus support comparable HIV-1 replication, immunopathology, and responses to ART and immune therapy
Creators: name: Li, Guangming
name: Su, Lishan
name: Ma, Jinping
name: Cheng, Liang
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2018

description: Immunodeficient mice reconstituted with human immune tissues and cells (humanized mice) are relevant and robust models for the study of HIV-1 infection, immunopathogenesis, and therapy. In this study, we performed a comprehensive comparison of human immune reconstitution and HIV-1 infection, immunopathogenesis and therapy between immunodeficient NOD/Rag2-/-/γc-/- (NRG) mice transplanted with human HSCs (NRG-hu HSC) and mice transplanted with HSCs and thymus fragments (NRG-hu Thy/HSC) from the same donors. We found that similar human lymphoid and myeloid lineages were reconstituted in NRG-hu HSC and NRG-hu Thy/HSC mice, with human T cells more predominantly reconstituted in NRG-hu Thy/HSC mice, while NRG-hu HSC mice supported more human B cells and myeloid cells reconstitution. HIV-1 replicated similarly and induced similar T cell depletion, immune activation, and dysfunction in NRG-hu HSC and NRG-hu Thy/HSC mice. Moreover, combined antiretroviral therapy (cART) inhibited HIV-1 replication efficiently with similar persistent HIV-1 reservoirs in both models. Finally, we found that blocking type-I interferon signaling under cART treatment transiently activated HIV-1 reservoirs, enhanced T cell recovery and reduced HIV-1 reservoirs in both HIV-1 infected NRG-hu HSC and NRG-hu Thy/HSC mice. In summary, we report that NRG-hu Thy/HSC and NRG-hu HSC mice support similar HIV-1 infection and similar HIV-1 immunopathology; and HIV-1 replication responds similarly to cART and IFNAR blockade therapies. The NRG-hu HSC mouse model reconstituted with human HSC only is sufficient for the study of HIV-1 infection, pathogenesis, and therapy.
SI.pdf from Geometry of spiking patterns in early visual cortex: a topological data analytic approach
Creators: name: Guidolin, Andrea
name: Desroches, Mathieu
name: Victor, Jonathan D.
name: Purpura, Keith P.
name: Rodrigues, Serafim
Publisher: name: The Royal Society
Year: 2022
Subjects: subject: Biophysics
subject: 10202 Biological Mathematics
subject: FOS: Mathematics

description: Supplementation Information document accompanying the main manuscript
The classical double copy for Taub-NUT spacetime
Creators: name: Luna, A.
name: Monteiro, R.
name: O'Connell, D.
name: White, C. D.
Publisher: name: arXiv
Year: 2015
Subjects: subject: High Energy Physics - Theory (hep-th)
subject: General Relativity and Quantum Cosmology (gr-qc)
subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: The double copy is a much-studied relationship between gauge theory and gravity amplitudes. Recently, this was generalised to an infinite family of classical solutions to Einstein's equations, namely stationary Kerr-Schild geometries. In this paper, we extend this to the Taub-NUT solution in gravity, which has a double Kerr-Schild form. The single copy of this solution is a dyon, whose electric and magnetic charges are related to the mass and NUT charge in the gravity theory. Finally, we find hints that the classical double copy extends to curved background geometries.
description: 13 pages, no figures. Minor edits to match journal version
Garcinia squamata Lauterbach 1922
Creators: name: Nazre, M.
name: Newman, M. F.
name: Pennington, R. T.
name: Middleton, D. J.
Publisher: name: Zenodo
Year: 2018
Subjects: Biodiversity
Taxonomy
Plantae
Tracheophyta
Magnoliopsida
Malpighiales
Clusiaceae
Garcinia
Garcinia squamata

description: Garcinia squamata Lauterbach (1922: 21).
 Lectotype (designated here):— INDONESIA Papua, Arfak Mountains, 29 April 1912, Gjellerup 1167 (BO!).
 Small tree to 4 m tall. Exudate yellow. Twigs round to slightly angled, pale grey-brown to brown. Petiole blackish, weakly channelled on the adaxial surface, to 1 cm long. Lamina thickly leathery, obovate, 3–5 × 1.8–3 cm, apex nearly round, base acute; margin entire and revolute; midrib flattened or weakly raised above and raised below, especially near the petiole; secondary veins very fine, inconspicuous below, camptodromous; tertiary veins inconspicuous. Inflorescences terminal or axillary, flowers solitary; sepals and petals 4. Male flowers not seen. Female flowers with stout pedicel, to 9 mm long; sepals unequal in size, two outer larger, concave or nearly round, to 6 mm long; petals yellow, broadly elliptic, to 9 mm long; ovary 4–6 × 4–5 mm; stigma black, rugose; staminodes not present. Fruit Unknown.
 Distribution and Habitat:—Montane forest at 1900 m in New Guinea.
 Taxonomic Notes:—Represented only by female specimens in very young fruit which are difficult to assign to section. Original material at B was destroyed during the Second World War.
description: Published as part of Nazre, M., Newman, M. F., Pennington, R. T. & Middleton, D. J., 2018, Taxonomic Revision of Garcinia Section Garcinia (Clusiaceae), pp. 1-52 in Phytotaxa 373 (1) on pages 46-47, DOI: 10.11646/phytotaxa.373.1.1, http://zenodo.org/record/13727567
Optical Hall conductivity of a Floquet Topological Insulator
Creators: name: Dehghani, Hossein
name: Mitra, Aditi
Publisher: name: arXiv
Year: 2015
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: FOS: Physical sciences

description: Results are presented for the optical Hall conductivity of a Floquet topological insulator (FTI) for an ideal closed quantum system, as well as an open system in a nonequilibrium steady-state with a reservoir. The steady-state, even for the open system, is strongly dependent on the topological phase of the FTI, with certain phases showing a remarkable near-cancellation from pockets of Berry-curvature of opposite signs, leading to a suppressed low-frequency Hall conductivity, that also shows an anomalous temperature dependence, by increasing as the temperature of the reservoir is increased. Such a behavior is in complete contrast to heating, and arises because of a strong modification of the effective system-reservoir coupling by the laser. The Berry curvature of the Floquet modes is time-dependent, and its frequency components are found to control the main features of the high-frequency Hall conductivity.
description: 9 figs
CD24-p53 axis suppresses diethylnitrosamine-induced hepatocellular carcinogenesis by sustaining intrahepatic macrophages
Creators: name: Li, Chi-Shan
name: Liang, Jing
name: Liu, Ping
name: Li, Dongling
name: Zheng, Pan
name: Su, Lishan
name: Cheng, Liang
name: Liu, Ying
name: Hu, Minling
name: Wang, Shengdian
name: Du, Peishuang
name: Ye, Peiying
name: Liu, Yang
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2018

description: It is generally assumed that inflammation following diethylnitrosamine (DEN) treatment promotes development of hepatocellular carcinoma (HCC) through the activity of intrahepatic macrophages. However, the tumor-promoting function of macrophages in the model has not been confirmed by either macrophage depletion or selective gene depletion in macrophages. Here we show that targeted mutation of Cd24 dramatically increased HCC burden while reducing intrahepatic macrophages and DEN-induced hepatocyte apoptosis. Depletion of macrophages also increased HCC burden and reduced hepatocyte apoptosis, thus establishing macrophages as an innate effector recognizing DEN-induced damaged hepatocytes. Mechanistically, Cd24 deficiency increased the levels of p53 in macrophages, resulting in their depletion in Cd24 -/- mice following DEN treatment. These data demonstrate that the Cd24-p53 axis maintains intrahepatic macrophages, which can remove hepatocytes with DNA damage. Our data establish a critical role for macrophages in suppressing HCC development and call for an appraisal of the current dogma that intrahepatic macrophages promote HCC development.
A proof of the matrix version of Baker's conjecture in Diophantine approximation
Creators: name: Das, Tushar
name: Simmons, David
Publisher: name: arXiv
Year: 2015
Subjects: subject: Number Theory (math.NT)
subject: FOS: Mathematics

description: We prove that the matrix analogue of the Veronese curve is strongly extremal in the sense of Diophantine approximation, thereby resolving a question posed by Beresnevich, Kleinbock, and Margulis ('15) in the affirmative.
Fluctuations of the Euler-Poincaré characteristic for random spherical harmonics
Creators: name: Cammarota, Valentina
name: Marinucci, Domenico
name: Wigman, Igor
Publisher: name: arXiv
Year: 2015
Subjects: subject: Probability (math.PR)
subject: Mathematical Physics (math-ph)
subject: FOS: Mathematics
subject: FOS: Physical sciences
subject: 60G60, 60D05, 60B10, 33C55, 42C10

description: In this short note, we build upon some recent results to present a precise expression for the asymptotic variance of the Euler-Poincaré characteristic for the excursion sets of Gaussian eigenfunctions on ${\cal S}^2$.
Bacillus subtilis subsp. natto HSF 1410 Genome sequencing
Creators: name: BGI
Publisher: name: CNGB
Year: 2012
Subjects: genome sequencing
Monoisolate

description: Bacillus subtilis subsp natto HSF 1410 Genome Sequencing. A novel strain that could form highly viscous broth in medium containing L-glutamic acid and NH4Cl was isolated from strains preserved in lab and named Bacillus subtilis subsp natto HSF 1410. HSF 1410 was identified to be γ-PGA producing strain by analyzing its product using Ultraviolet scanning spectrum, FTIR, NMR and Amino acid component assay.
Data-fusion, self-organizing continuous maps, and eigenflames applied to modeling, control and visualization
Creators: name: Hannah, Paul K
Publisher: name: CQUniversity
Year: 2022
Subjects: Neural networks
Information extraction and fusion

description: In this thesis a new Data-Fusion framework is presented. An object-oriented approach to neural network programming is considered, and the approach is used to develop the Self-Organizing Continuous Map, a family of neural networks based upon the self-organizing feature map. eigenflame and tomographic techniques are used for gas-turbine flame analysis.
Regulatory T Cells Contribute to HIV-1 Reservoir Persistence in CD4 + T Cells Through Cyclic Adenosine Monophosphate-Dependent Mechanisms in Humanized Mice in Vivo
Creators: name: Jeffrey, Jerry
name: Li, Guangming
name: Cheng, Liang
name: Su, Lishan
name: Nunoya, Jun-ichi
name: Tsao, Li-Chung
name: Reszka-Blanco, Natalia
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2017

description: Background. Regulatory T cells (Tregs) suppress T-cell immune activation and human immunodeficiency virus type 1 (HIV-1) replication, but the role of Tregs in HIV-1 reservoir persistence is poorly defined. Methods. Tregs were depleted by denileukin diftitox in humanized mice with chronic HIV-1 infection. Viral replication in lineage cells was determined by p24 expression. Levels of HIV-1 RNA and DNA in human cells, as well as replication-competent-virus- producing cells, were measured to quantified viral replication and reservoirs. Results. Treg depletion resulted in a blip of HIV-1 replication in T cells but not in myeloid cells. The major activated reservoir cells were memory CD4+ T cells in vivo. Interestingly, the transient activation of viral replication led to HIV-1 reservoir reduction after viremia resuppression, as indicated by the quantity of HIV-1 DNA and replication-competent-virus-producing cells. Furthermore, we demonstrated that Tregs use cyclic adenosine monophosphate (cAMP)-dependent protein kinase A pathway to inhibit HIV-1 activation and replication in resting conventional T cells in vitro. Conclusion. Tregs suppress HIV-1 replication in T cells and contribute to HIV-1 reservoir persistence. cAMP produced in Tregs is involved in their suppression of viral gene activation and expression. Treg depletion combined with combination antiretroviral therapy provides a novel strategy for HIV-1 cure.
Quantum trajectory tests of radical-pair quantum dynamics in CIDNP measurements of photosynthetic reaction centers
Creators: name: Tsampourakis, K.
name: Kominis, I. K.
Publisher: name: arXiv
Year: 2015
Subjects: subject: Chemical Physics (physics.chem-ph)
subject: Biological Physics (physics.bio-ph)
subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: Chemically induced dynamic nuclear polarization is a ubiquitous phenomenon in photosynthetic reaction centers. The relevant nuclear spin observables are a direct manifestation of the radical-pair mechanism. We here use quantum trajectories to describe the time evolution of radical-pairs, and compare their prediction of nuclear spin observables to the one derived from the radical-pair master equation. While our approach provides a consistent description, we unravel a major inconsistency within the conven- tional theory, thus challenging the theoretical interpretation of numerous CIDNP experiments sensitive to radical-pair reaction kinetics.
description: 7 pages, 3 figures
Enterobacter hormaechei YT2 Genome sequencing
Creators: name: BGI
Publisher: name: CNGB
Year: 2012
Subjects: Genome sequencing and assembly
Multiisolate

description: The genome sequencing could improve the degradation ability of cellulose by Enterobacter hormaechei GHJ2 and accelerate the transformation of cellulose to energies and resources that could be directly utilized.
Elucidation of lipopeptide biosurfactants responsible for the larvicidal activity of Bacillus velezensis PHP1601 towards Lucilia cuprina larvae
Creators: name: Ramesar, Danvir Rajesh
name: Hunter, Charles Haig
Publisher: name: Taylor & Francis
Year: 2023
Subjects: subject: Biochemistry
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Molecular Biology
subject: Neuroscience
subject: Physiology
subject: Biotechnology
subject: Chemical Sciences not elsewhere classified
subject: Ecology
subject: Sociology
subject: FOS: Sociology
subject: Plant Biology

description: Lipopeptide biosurfactant compounds derived from cultures of Bacillus velezensis PHP1601 (Bacillales: Bacillaceae) show antagonism towards the larval stage of Lucilia cuprina (Diptera: Calliphoridae), a blowfly pest of agricultural significance. A study was undertaken to characterise and elucidate the lipopeptide biosurfactant compounds contributing to this effect. Lipopeptide extracts were obtained from cultures grown in Landy medium by acid precipitation and methanol extraction. Thin layer chromatography and UPLC ESI-TOF MS were used to partially purify and characterise the lipopeptides present in the extract. Lipopeptide fractions contained homologues of surfactin (C13–C17), fengycin (C14–C17) and iturin (C14–C17). Each lipopeptide fraction (20 µg g−1) displayed larvicidal activity against second-instar L. cuprina larvae, with a highly polar surfactin fraction (Rf: 0.90) being the most effective. The potency of surfactin was confirmed with bioassays incorporating a surfactin standard whereby a LT50 of 179.97 h and LC50 of 9.87 µg g−1 was determined. Interestingly, larvae cadavers recovered from the bioassays displayed significant physiological discolouration and stunting; this was attributed to the biosurfactant nature of the lipopeptide compounds. These findings corroborate the role of lipopeptide compounds, specifically surfactin, in the fly biocontrol mechanism of PHP1601 and constitute the first report of these compounds being insecticidal towards blowfly larvae.
Vaccines targeting preS1 domain overcome immune tolerance in hepatitis B virus carrier mice
Creators: name: Wang, Yang
name: Zhao, Juanjuan
name: Sun, Zhichen
name: Wang, Fu-Sheng
name: Su, Lishan
name: Liu, Longchao
name: Bian, Yingjie
name: Peng, Hua
name: Zhu, Danming
name: Fu, Sherry
name: Guo, Jingya
name: Fu, Yang-Xin
name: Zhang, Zheng
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2017

description: Strong tolerance to hepatitis B virus (HBV) surface antigens limits the therapeutic effect of the conventional hepatitis B surface antigen (HBsAg) vaccination in both preclinical animal models and patients with chronic hepatitis B (CHB) infection. In contrast, we observed that clinical CHB patients presented less immune tolerance to the preS1 domain of HBV large surface antigen. To study whether targeting the weak tolerance of the preS1 region could improve therapy gain, we explored vaccination with the long peptide of preS1 domain for HBV virions clearance. Our study showed that this preS1-polypeptide rather than HBsAg vaccination induced robust immune responses in HBV carrier mice. The anti-preS1 rapidly cleared HBV virions in vivo and blocked HBV infection to hepatocytes in vitro. Intriguingly, vaccination of preS1-polypeptide even reduced the tolerized status of HBsAg, opening a therapeutic window for the host to respond to the HBsAg vaccine. A sequential administration of antigenically distinct preS1-polypeptide and HBsAg vaccines in HBV carrier mice could finally induce HBsAg/hepatitis B surface antibody serological conversion and clear chronic HBV infection in carrier mice. Conclusion: These results suggest that preS1 can function as a therapeutic vaccine for the control of CHB. (Hepatology 2017;66:1067-1082).
Carbon Dioxide in Exoplanetary Atmospheres: Rarely Dominant Compared to Carbon Monoxide and Water in Hot, Hydrogen-dominated Atmospheres
Creators: name: Heng, Kevin
name: Lyons, James R.
Publisher: name: arXiv
Year: 2015
Subjects: subject: Earth and Planetary Astrophysics (astro-ph.EP)
subject: Atmospheric and Oceanic Physics (physics.ao-ph)
subject: Chemical Physics (physics.chem-ph)
subject: Classical Physics (physics.class-ph)
subject: FOS: Physical sciences

description: We present a comprehensive study of the abundance of carbon dioxide in exoplanetary atmospheres in hot, hydrogen-dominated atmospheres. We construct novel analytical models of systems in chemical equilibrium that include carbon monoxide, carbon dioxide, water, methane and acetylene and relate the equilibrium constants of the chemical reactions to temperature and pressure via the tabulated Gibbs free energies. We prove that such chemical systems may be described by a quintic equation for the mixing ratio of methane. By examining the abundances of these molecules across a broad range of temperatures (spanning equilibrium temperatures from 600 to 2500 K), pressures (via temperature-pressure profiles that explore albedo and opacity variations) and carbon-to-oxygen ratios, we conclude that carbon dioxide is subdominant compared to carbon monoxide and water. Atmospheric mixing does not alter this conclusion if carbon dioxide is subdominant everywhere in the atmosphere. Carbon dioxide and carbon monoxide may attain comparable abundances if the metallicity is greatly enhanced, but this property is negated by temperatures above 1000 K. For hydrogen-dominated atmospheres, our generic result has the implication that retrieval studies may wish to set the subdominance of carbon dioxide as a prior of the calculation and not let its abundance completely roam free as a fitting parameter, because it directly affects the inferred value of the carbon-to-oxygen ratio and may produce unphysical conclusions. We discuss the relevance of these implications for the hot Jupiter WASP-12b and suggest that some of the previous results are chemically impossible. The relative abundance of carbon dioxide to acetylene is potentially a sensitive diagnostic of the carbon-to-oxygen ratio.
description: Accepted by ApJ. 12 pages, 8 figures, 2 tables
Nonlinear unitary quantum collapse model with self-generated noise
Creators: name: Geszti, Tamás
Publisher: name: arXiv
Year: 2015
Subjects: subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: Collapse models including some external noise of unknown origin are routinely used to describe phenomena on the quantum-classical border; in particular, quantum measurement. Although containing nonlinear dynamics and thereby exposed to the possibility of superluminal signaling in individual events, such models are widely accepted on the basis of fully reproducing the non-signaling statistical predictions of quantum mechanics. Here we present a deterministic nonlinear model without any external noise, in which randomness - instead of being universally present - emerges in the measurement process, from deterministic irregular dynamics of the detectors. The treatment is based on a minimally nonlinear von Neumann equation for a Stern-Gerlach or Bell-type measuring setup, containing coordinate and momentum operators in a self-adjoint skew-symmetric, split scalar product structure over the configuration space. The microscopic states of the detectors act as a nonlocal set of hidden parameters, controlling individual outcomes. The model is shown to display pumping of weights between setup-defined basis states, with a single winner randomly selected and the rest collapsing to zero. Environmental decoherence has no role in the scenario. Through stochastic modelling, based on Pearle's "gambler's ruin" scheme, outcome probabilities are shown to obey Born's rule under a no-drift or "fair-game" condition. This fully reproduces quantum statistical predictions, implying that the proposed non-linear deterministic model satisfies the non-signaling requirement. Our treatment is still vulnerable to hidden signaling in individual events, which remains to be handled by future research.
description: To appear in Journal of Physics A: Mathematical and General; much the accepted version
Garcinia anomala Planchon & Triana 1860
Creators: name: Nazre, M.
name: Newman, M. F.
name: Pennington, R. T.
name: Middleton, D. J.
Publisher: name: Zenodo
Year: 2018
Subjects: Biodiversity
Taxonomy
Plantae
Tracheophyta
Magnoliopsida
Malpighiales
Clusiaceae
Garcinia
Garcinia anomala

description: Garcinia anomala Planchon & Triana (1860: 329).
 Lectotype (designated here):— INDIA Khasia, Khassia Hill, no date, J.D. Hooker & Thomson 14 (MPU; isolectotypes: A!, E!, K!, L!).
 Distribution and Habitat:—Montane forest to 1500 m from Eastern India to northern Thailand.
 Taxonomic Notes:—Differs from Garcinia sect. Garcinia by the axillary inflorescences in thyrses and the male flowers having glomerate, more or less round bundles of stamens surrounding the pistillode.
description: Published as part of Nazre, M., Newman, M. F., Pennington, R. T. & Middleton, D. J., 2018, Taxonomic Revision of Garcinia Section Garcinia (Clusiaceae), pp. 1-52 in Phytotaxa 373 (1) on page 47, DOI: 10.11646/phytotaxa.373.1.1, http://zenodo.org/record/13727567
Constraining Type I Seesaw with $A_4$ Flavor Symmetry From Neutrino Data and Leptogenesis
Creators: name: Kalita, Rupam
name: Borah, Debasish
Publisher: name: arXiv
Year: 2015
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: We study a type I seesaw model of neutrino masses within the framework of $A_4$ flavor symmetry. Incorporating the presence of both singlet and triplet flavons under $A_4$ symmetry, we construct the leptonic mass matrices involved in type I seesaw mechanism. We then construct the light neutrino mass matrix using the $3σ$ values of neutrino oscillation parameters keeping the presently undetermined parameters namely, the lightest neutrino mass $m_{\text{lightest}}$, one Dirac CP phase $δ$ and two Majorana phases $α, β$ as free parameters. Comparing the mass matrices derived using $A_4$ parameters as well as light neutrino parameters, we then evaluate all the $A_4$ parameters in terms of light neutrino parameters. Assuming some specific vacuum alignments of $A_4$ triplet flavon field, we then numerically evaluate all the free parameters in the light neutrino sector, using which we also find out the remaining $A_4$ parameters. We then use the numerical values of these parameters to calculate baryon asymmetry through the mechanism of leptogenesis. We not only constrain the $A_4$ vacuum alignments from the requirement of successful leptogenesis, but also constrain the free parameters in the light neutrino sector $(m_{\text{lightest}}, δ, α, β)$ to certain range of values. These values can be tested in ongoing and future neutrino experiments providing a way to discriminate between different possible $A_4$ vacuum alignments discussed in this work.
description: 35 pages, 24 figures, to appear in Phys. Rev. D
HIV-1 can infect northern pig-tailed macaques (Macaca leonina) and form viral reservoirs in vivo
Creators: name: Zhang, Gao-Hong
name: Zhang, Xiao-Liang
name: Zheng, Hong-Yi
name: Gao, Guangxia
name: Lei, Ai-Hua
name: Liu, Xiao-Ming
name: Zhu, Jia-Wu
name: Zheng, Yong-Tang
name: Zhang, Ming-Xu
name: Jiang, Jin
name: Su, Lishan
name: Zhang, Liguo
name: Tian, Ren-Rong
name: Song, Jia-Hao
name: Peng, Wei
name: Zhang, Lin-Tao
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2017

description: Viral reservoirs of HIV-1 are a major obstacle for curing AIDS. The novel animal models that can be directly infected with HIV-1 will contribute to develop effective strategies for eradicating infections. Here, we inoculated 4 northern pig-tailed macaques (NPM) with the HIV-1 strain HIV-1NL4.3 and monitored the infection for approximately 3 years (150 weeks). The HIV-1-infected NPMs showed transient viremia for about 10 weeks after infection. However, cell-associated proviral DNA and viral RNA persisted in the peripheral blood and lymphoid organs for about 3 years. Moreover, replication-competent HIV-1 could be successfully recovered from peripheral blood mononuclear cells (PBMCs) during long-term infection. The numbers of resting CD4+ T cells in HIV-1 infected NPMs harboring proviruses fell within a range of 2- to 3-log10 per million cells, and these proviruses could be reactivated both ex vivo and in vivo in response to co-stimulation with the latency-reversing agents JQ1 and prostratin. Our results suggested that NPMs can be infected with HIV-1 and a long-term viral reservoir was formed in NPMs, which might serve as a potential model for HIV-1 reservoir research.
Van der Waals interactions in rare-gas dimers: The role of interparticle interactions
Creators: name: Chen, Yu-Ting
name: Hui, Kerwin
name: Chai, Jeng-Da
Publisher: name: arXiv
Year: 2015
Subjects: subject: Chemical Physics (physics.chem-ph)
subject: Atomic and Molecular Clusters (physics.atm-clus)
subject: Computational Physics (physics.comp-ph)
subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: We investigate the potential energy curves of rare-gas dimers with various ranges and strengths of interparticle interactions (nuclear-electron, electron-electron, and nuclear-nuclear interactions). Our investigation is based on the highly accurate coupled-cluster theory associated with those interparticle interactions. For comparison, the performance of the corresponding Hartree-Fock theory, second-order Moller-Plesset perturbation theory, and density functional theory is also investigated. Our results reveal that when the interparticle interactions retain the long-range Coulomb tails, the nature of van der Waals interactions in the rare-gas dimers remains similar. By contrast, when the interparticle interactions are sufficiently short-range, the conventional van der Waals interactions in the rare-gas dimers completely disappear, yielding purely repulsive potential energy curves.
description: 28 pages, 11 figures
Using the ISSN Portal to check the Status of a library's Journal Collections regarding Digital Preservation
Creators: name: Bequet, Gaelle
Publisher: name: Zenodo
Year: 2023
Subjects: subject: Digital preservation
subject: Archiving status
subject: Identifiers
subject: Libraries
subject: Archiving agencies
subject: https://id.loc.gov/authorities/subjects/sh95008857.html
subject: https://id.loc.gov/authorities/subjects/sh96004573.html
subject: https://id.loc.gov/authorities/subjects/sh95004496.html

description: Keepers Registry (https://keepers.issn.org) is the only service tracking the archiving actions of digital and digitized journals. The service has been managed by the ISSN International Center since 2019. Keepers Registry aggregates data provided by 16 partner archiving agencies around the world. It provides an overview of the conservation status of around 84,700 journal titles (August 2023). The ISSN International Center has developed a service associated with Keepers Registry that enables librarians responsible for collections to download journal metadata via an Excel-formatted list and retrieve information on the extent of preservation of these titles. The data includes the names of the preservation agencies and, for each agency, the years covered by preservation in relation to the years of publication, an assessment of the completeness of the content archived by agency and the publishers involved. With these data in hand, together with a diagnosis of ISSN quality, librarians can check whether their journals are partially or fully archived, or not archived at all. They can choose to cooperate with these archiving agencies, taking into account the correspondence between the titles for which they wish to maintain access and the titles archived by these agencies. This service can be particularly important when access to journals after subscription termination cannot be negotiated with publishers. It can also help guide weeding projects for printed documents.
Wigner Measures and Quantum Control
Creators: name: Gough, J. E.
name: Ratiu, T. S.
name: Smolyanov, O. G.
Publisher: name: arXiv
Year: 2015
Subjects: subject: Mathematical Physics (math-ph)
subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: We study several examples from quantum control theory in the framework of Wigner functions and measures for infinite dimensional open quantum systems. An axiomatic definition of coherent quantum feedback is proposed within this setting.
description: 11 pages
Garcinia costata Hemsley ex King 1890
Creators: name: Nazre, M.
name: Newman, M. F.
name: Pennington, R. T.
name: Middleton, D. J.
Publisher: name: Zenodo
Year: 2018
Subjects: Biodiversity
Taxonomy
Plantae
Tracheophyta
Magnoliopsida
Malpighiales
Clusiaceae
Garcinia
Garcinia costata

description: Garcinia costata Hemsley ex King (1890: 161).
 Lectotype (designated here):— MALAYSIA, Peninsular Malaysia, Larut, Maxwell’s Hill, King’s Collector 5375 (K!; isotypes: KEP!, L!).
 Distribution and Habitat:—Hill forest to 700 m in Peninsular Malaysia.
 Taxonomic Notes:—Vegetatively, the large, cabbage-like, ribbed leaves are distinctly different from those in Garcinia sect. Garcinia . The inflorescences are thyrses rather than in clusters as in Garcinia sect. Garcinia, the male flower is similar to G. anomala in the mass of stamens surrounding the pistillode and the fruit has a lobed or segmented wall.
description: Published as part of Nazre, M., Newman, M. F., Pennington, R. T. & Middleton, D. J., 2018, Taxonomic Revision of Garcinia Section Garcinia (Clusiaceae), pp. 1-52 in Phytotaxa 373 (1) on page 47, DOI: 10.11646/phytotaxa.373.1.1, http://zenodo.org/record/13727567
Garcinia maingayi Hooker 1874
Creators: name: Nazre, M.
name: Newman, M. F.
name: Pennington, R. T.
name: Middleton, D. J.
Publisher: name: Zenodo
Year: 2018
Subjects: Biodiversity
Taxonomy
Plantae
Tracheophyta
Magnoliopsida
Malpighiales
Clusiaceae
Garcinia
Garcinia maingayi

description: Garcinia maingayi Hooker (1874: 267).
 Lectotype (designated here):— MALAYSIA, Peninsular Malaysia, Malacca, no date, Maingay 161 [barcode K000380471] (K!).
 Garcinia baillonii Pierre (1883b: xviii, pl. 83A). Lectotype (designated here):— MALAYSIA, Sarawak, Kuching, Matang, 1865, Beccari 2498 (P! [P04700531]; isolectotypes: K!, P! [P04700530]).
 Distribution and Habitat:—Hill forest to lower montane forest at c. 900 m in Sumatra, Peninsular Malaysia and Borneo.
 Taxonomic Notes:—Closely related to Garcinia costata but the leaf is smaller and the fruit wall smooth rather than lobed and with stripes of green and yellow.
description: Published as part of Nazre, M., Newman, M. F., Pennington, R. T. & Middleton, D. J., 2018, Taxonomic Revision of Garcinia Section Garcinia (Clusiaceae), pp. 1-52 in Phytotaxa 373 (1) on page 47, DOI: 10.11646/phytotaxa.373.1.1, http://zenodo.org/record/13727567
Supplemental Data to accompany 'Synergistic regulation of uterine radial artery adaptation to pregnancy by paracrine and haemodynamic factors'; Allerkamp et al. 2023, Am. J. Physiol. Heart Circ. Physiol.
Creators: name: Allerkamp, Hanna
name: Leighton, Stephanie
name: Pole, Teagan
name: Clark, Alys
name: James, Jo
Publisher: name: figshare
Year: 2023
Subjects: classificationCode: 321502
subject: Obstetrics and gynaecology

description: Supplementary Figure 1: Workflow showing acquisition of fluorescence measurements from imaging data of the shear stress assay.
Garcinia mosseleyana Pierre
Creators: name: Nazre, M.
name: Newman, M. F.
name: Pennington, R. T.
name: Middleton, D. J.
Publisher: name: Zenodo
Year: 2018
Subjects: Biodiversity
Taxonomy
Plantae
Tracheophyta
Magnoliopsida
Malpighiales
Clusiaceae
Garcinia
Garcinia mosseleyana

description: Garcinia mosseleyana Pierre (1883: xi).
 Lectotype (designated here):— PHILIPPINES, Basilan Island, January 1875, Moseley s.n. (K!).
 Distribution and Habitat:—Lowland and hill forest near rivers of Philippines.
 Taxonomic Notes:—Excluded from Garcinia sect. Garcinia due to having pentamerous flowers and axillary inflorescences.
description: Published as part of Nazre, M., Newman, M. F., Pennington, R. T. & Middleton, D. J., 2018, Taxonomic Revision of Garcinia Section Garcinia (Clusiaceae), pp. 1-52 in Phytotaxa 373 (1) on page 47, DOI: 10.11646/phytotaxa.373.1.1, http://zenodo.org/record/13727567
Shoshana Zuboff, The Age of Surveillance Capitalism. The Fight for a Human Future: at The New Frontier of Power, Profile Books, 2019
Creators: name: Mannov, Adrienne
name: Oberborbeck Andersen, Astrid
name: De Godoy, Jaqueline
Publisher: name: Tecnoscienza – Italian Journal of Science & Technology Studies
Year: 2020

description: Tecnoscienza – Italian Journal of Science & Technology Studies, Vol. 11 No. 1 (2020): Tecnoscienza Nr. 21 – Anniversary Issue
Positive Operator Valued Measures and Feller Markov Kernels
Creators: name: Beneduci, Roberto
Publisher: name: arXiv
Year: 2015
Subjects: subject: Functional Analysis (math.FA)
subject: FOS: Mathematics

description: A Positive Operator Valued Measure (POVM) is a map $F:\mathcal{B}(X)\to\mathcal{L}_s^+(\mathcal{H})$ from the Borel $σ$-algebra of a topological space $X$ to the space of positive self-adjoint operators on a Hilbert space $\mathcal{H}$. We assume $X$ to be Hausdorff, locally compact and second countable and prove that a POVM $F$ is commutative if and only if it is the smearing of a spectral measure $E$ by means of a Feller Markov kernel. Moreover, we prove that the smearing can be realized by means of a strong Feller Markov kernel if and only if $F$ is uniformly continuous. Finally, we prove that a POVM which is norm bounded by a finite measure $ν$ admits a strong Feller Markov kernel. That provides a characterization of the smearing which connects a commutative POVM $F$ to a spectral measure $E$ and is relevant both from the mathematical and the physical viewpoint since smearings of spectral measures form a large and very relevant subclass of POVMs: they are paradigmatic for the modeling of certain standard forms of noise in quantum measurements, they provide optimal approximators as marginals in joint measurements of incompatible observables \cite{Busch}, they are important for a range of quantum information processing protocols, where classical post-processing plays a role \cite{Heinosaari}. The mathematical and physical relevance of the results is discussed and particular emphasis is given to the connections between the Markov kernel and the imprecision of the measurement process.
description: 26 pages. arXiv admin note: substantial text overlap with arXiv:1207.0086, arXiv:1307.5733
Type I interferons suppress viral replication but contribute to T cell depletion and dysfunction during chronic HIV-1 infection
Creators: name: Su, Lishan
name: Yu, Haisheng
name: Li, Feng
name: Chi, Liqun
name: Ma, Jianping
name: Li, Jingyun
name: Li, Guangming
name: Cheng, Liang
name: Zhang, Liguo
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2017

description: The direct link between sustained type I interferon (IFN-I) signaling and HIV-1-induced immunopathogenesis during chronic infection remains unclear. Here we report studies using a monoclonal antibody to block IFN-α/β receptor 1 (IFNAR1) signaling during persistent HIV-1 infection in humanized mice (hu-mice). We discovered that, during chronic HIV-1 infection, IFNAR blockade increased viral replication, which was correlated with elevated T cell activation. Thus, IFN-Is suppress HIV-1 replication during the chronic phase but are not essential for HIV-1-induced aberrant immune activation. Surprisingly, IFNAR blockade rescued both total human T cell and HIV-specific T cell numbers despite elevated HIV-1 replication and immune activation. We showed that IFNAR blockade reduced HIV-1-induced apoptosis of CD4+ T cells. Importantly, IFNAR blockade also rescued the function of human T cells, including HIV-1-specific CD8+ and CD4+ T cells. We conclude that during persistent HIV-1 infection, IFN-Is suppress HIV-1 replication, but contribute to depletion and dysfunction of T cells.
Cornelia Sollfrank (ed.), The Beautiful Warriors. Technofeminist Praxis in the Twenty-first Century, Minor Compositions, 2020
Creators: name: Urban, Monika
Publisher: name: Tecnoscienza – Italian Journal of Science & Technology Studies
Year: 2020

description: Tecnoscienza – Italian Journal of Science & Technology Studies, Vol. 11 No. 1 (2020): Tecnoscienza Nr. 21 – Anniversary Issue
Supplementary Material to accompany 'Synergistic regulation of uterine radial artery adaptation to pregnancy by paracrine and haemodynamic factors'; Allerkamp et al. 2023, Am. J. Physiol. Heart Circ. Physiol.
Creators: name: Allerkamp, Hanna
name: Leighton, Stephanie
name: Pole, Teagan
name: Clark, Alys
name: James, Jo
Publisher: name: figshare
Year: 2023
Subjects: classificationCode: 321502
subject: Obstetrics and gynaecology

description: Supplementary Material S1: Definition of vessel resistance in trophoblast plugs with a clear central channel. Supplementary Table 1: Parameterization of the model in different physiological states, including boundary conditions. Supplementary Figure 1: Workflow showing acquisition of fluorescence measurements from imaging data of the shear stress assay.
A mapping defined by the Schur-Szegő composition
Creators: name: Kostov, Vladimir Petrov
Publisher: name: arXiv
Year: 2015
Subjects: subject: Classical Analysis and ODEs (math.CA)
subject: FOS: Mathematics

description: Each degree $n+k$ polynomial of the form $(x+1)^k(x^n+c_1x^{n-1}+\cdots +c_n)$, $k\in \mathbb{N}$, is representable as Schur-Szegő composition of $n$ polynomials of the form $(x+1)^{n+k-1}(x+a_j)$. We study properties of the affine mapping $Φ_{n,k}$~:~$(c_1,\ldots ,c_n)$ $\mapsto$ $(σ_1, \ldots ,σ_n)$, where $σ_i$ are the elementary symmetric polynomials of the numbers $a_j$. We study also properties of a similar mapping for functions of the form $e^xP$, where $P$ is a polynomial, $P(0)=1$, and we extend the Descartes rule to them.
Garcinia pseudoguttifera Seemann 1865
Creators: name: Nazre, M.
name: Newman, M. F.
name: Pennington, R. T.
name: Middleton, D. J.
Publisher: name: Zenodo
Year: 2018
Subjects: Biodiversity
Taxonomy
Plantae
Tracheophyta
Magnoliopsida
Malpighiales
Clusiaceae
Garcinia
Garcinia pseudoguttifera

description: Garcinia pseudoguttifera Seemann (1865: 11).
 Lectotype (designated by Smith 1981: 343):— FIJI, Viti Levu, Serua Province, Navua River, 1860, Seeman 50 (K!; isotype: BM!, GH).
 Distribution and Habitat:—From hill to lower montane forest in Vanuatu, Fiji and Tonga.
 Taxonomic Notes:—Differs from Garcinia sect. Garcinia by having an inflorescence in thyrses of many flowers (to 40).
description: Published as part of Nazre, M., Newman, M. F., Pennington, R. T. & Middleton, D. J., 2018, Taxonomic Revision of Garcinia Section Garcinia (Clusiaceae), pp. 1-52 in Phytotaxa 373 (1) on page 48, DOI: 10.11646/phytotaxa.373.1.1, http://zenodo.org/record/13727567
Howard Shrobe, David L. Shrier and Alex Pentland (eds.), New Solutions for Cybersecurity, MIT Press, 2018
Creators: name: De Paoli, Stefano
Publisher: name: Tecnoscienza – Italian Journal of Science & Technology Studies
Year: 2020

description: Tecnoscienza – Italian Journal of Science & Technology Studies, Vol. 11 No. 1 (2020): Tecnoscienza Nr. 21 – Anniversary Issue
Garcinia trianii Pierre 1883
Creators: name: Nazre, M.
name: Newman, M. F.
name: Pennington, R. T.
name: Middleton, D. J.
Publisher: name: Zenodo
Year: 2018
Subjects: Biodiversity
Taxonomy
Plantae
Tracheophyta
Magnoliopsida
Malpighiales
Clusiaceae
Garcinia
Garcinia trianii

description: Garcinia trianii Pierre (1883b: xviii, pl. 80L).
 Lectotype (designated here):— MALAYSIA, Borneo, Sarawak, 1865, Beccari 360 (P! [P04700312]; isolectotypes: K!, P! (fragment)).
 Distribution and Habitat:—Lower to upper montane forest at 1900 m in Borneo.
 Taxonomic Notes:—Similar morphologically to G. maingayi but with smaller leaves and flowers.
 Garcinia vidua Ridley (1938: 115).
 Lectotype (designated here):— MALAYSIA, Borneo, Sarawak, Kuching, 22 March 1893, Haviland 2222 (K! [K000380444]; isotypes: L!, SAR!, SING!, UC!).
 Distribution and Habitat:—Lowland to hill forest 600 m in Sarawak.
 Taxonomic Notes:—Differs from Garcinia sect. Garcinia by having nearly sessile axillary inflorescences, with one to three flowers; stamens in the male flowers are very few in a central mass without a pistillode. The fruits are small and tipped with a sessile and rugose stigma. Both flower and fruit characters suggest G. vidua is a member of Garcinia sect. Brindonia sensu Jones (1980).
description: Published as part of Nazre, M., Newman, M. F., Pennington, R. T. & Middleton, D. J., 2018, Taxonomic Revision of Garcinia Section Garcinia (Clusiaceae), pp. 1-52 in Phytotaxa 373 (1) on page 48, DOI: 10.11646/phytotaxa.373.1.1, http://zenodo.org/record/13727567
Human innate responses and adjuvant activity of TLR ligands in vivo in mice reconstituted with a human immune system
Creators: name: Zhang, Zheng
name: Levy, Yves
name: Li, Guangming
name: Zhang, Liguo
name: Su, Lishan
name: Zurawski, Sandra M.
name: Wang, Li
name: Li, Feng
name: Zurawski, Gerard
name: Cheng, Liang
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2017

description: TLR ligands (TLR-Ls) represent a class of novel vaccine adjuvants. However, their immunologic effects in humans remain poorly defined in vivo. Using a humanized mouse model with a functional human immune system, we investigated how different TLR-Ls stimulated human innate immune response in vivo and their applications as vaccine adjuvants for enhancing human cellular immune response. We found that splenocytes from humanized mice showed identical responses to various TLR-Ls as human PBMCs in vitro. To our surprise, various TLR-Ls stimulated human cytokines and chemokines differently in vivo compared to that in vitro. For example, CpG-A was most efficient to induce IFN-α production in vitro. In contrast, CpG-B, R848 and Poly I:C stimulated much more IFN-α than CpG-A in vivo. Importantly, the human innate immune response to specific TLR-Ls in humanized mice was different from that reported in C57BL/6 mice, but similar to that reported in nonhuman primates. Furthermore, we found that different TLR-Ls distinctively activated and mobilized human plasmacytoid dendritic cells (pDCs), myeloid DCs (mDCs) and monocytes in different organs. Finally, we showed that, as adjuvants, CpG-B, R848 and Poly I:C can all enhance antigen specific CD4+ T cell response, while only R848 and Poly I:C induced CD8+ cytotoxic T cells response to a CD40-targeting HIV vaccine in humanized mice, correlated with their ability to activate human mDCs but not pDCs. We conclude that humanized mice serve as a highly relevant model to evaluate and rank the human immunologic effects of novel adjuvants in vivo prior to testing in humans.
Mortality Rate Estimation and Standardization for Public Reporting: Medicare's Hospital Compare
Creators: name: George, E. I.
name: Rockova, V.
name: Rosenbaum, P. R.
name: Satopaa, V. A.
name: Silber, J. H.
Publisher: name: arXiv
Year: 2015
Subjects: subject: Applications (stat.AP)
subject: FOS: Computer and information sciences

description: Bayesian models are increasing fit to large administrative data sets and then used to make individualized recommendations. For instance, Medicare's Hospital Compare webpage provides information to patients about specific hospital mortality rates for a heart attack or Acute Myocardial Infarction (AMI). Hospital Compare's current recommendations are based on a random effects logit model with a random hospital indicator and patient risk factors. By checking the out of sample calibration of their individualized predictions against general empirical advice, we are led to substantial revisions of the Hospital Compare model for AMI mortality. As opposed to Hospital Compare, our revised models incorporate information about hospital volume, nursing staff, medical residents, and the hospital's ability to perform cardiovascular procedures, information that is clearly needed if a model is to make appropriately calibrated predictions. Additionally, we contrast several methods for summarizing a model's predictions for use by the public. We find that indirect standardization, as currently used by Hospital Compare, fails to adequately control for differences in patient risk factors, whereas direct standardization provides good control and is easy to interpret.
description: Main paper: 31 pages, 7 figures, 4 tables Supplemental Material: 4 pages, 2 figures, 1 table
Daniela Rosner, Critical Fabulations. Reworking the Methods and Margins of Design, MIT Press, 2018
Creators: name: Sciannamblo, Mariacristina
Publisher: name: Tecnoscienza – Italian Journal of Science & Technology Studies
Year: 2020

description: Tecnoscienza – Italian Journal of Science & Technology Studies, Vol. 11 No. 1 (2020): Tecnoscienza Nr. 21 – Anniversary Issue
Silvia Gherardi, How to Conduct a Practice-based Study: Problems and Methods. 2nd Edition, Edward Elgar, 2019
Creators: name: Lammi, Inti
Publisher: name: Tecnoscienza – Italian Journal of Science & Technology Studies
Year: 2020

description: Tecnoscienza – Italian Journal of Science & Technology Studies, Vol. 11 No. 1 (2020): Tecnoscienza Nr. 21 – Anniversary Issue