cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
THCmania : An Anthropological Exploration of the First Legal Canadian Grow Cup
Creators: name: Barbosa Ponce, Nina Tamara
Publisher: name: Université d'Ottawa / University of Ottawa
Year: 2023
Subjects: cannabis
legalization
health canada
home growing
cannabis grow cups
recreational cannabis
cannabis cultivation
sensory anthropology
sensorial anthropology
cannabis sativa
cannabis indica
medical anthropology
aromas
terpenes
thc
cbd

description: This thesis is an anthropological exploration of the first legal Canadian Grow Cup (3 years after legalization (October 17, 2018)). It takes a sensory anthropology approach to 'knowing' from practical activity. This approach acknowledges that senses/sensing do not belong to one category, instead, "our sensory perception is inextricable from the cultural categories that we use to give meaning to sensory experiences in social and material interactions" (Pink 2015, 7). Taking this approach aims to address the current legal framework that reduces cannabis to its molecular compounds. The methodological approach is centred around an apprenticeship with an experienced home grower, whom I met online and who agreed to guide me throughout my participation in the grow cup. The organization of the thesis follows my movements through the apprenticeship situated both online and in my mentor's garden in West Ottawa, Ontario. Having to abide by winning criteria based on THC and Terpene metrics, this thesis offers arguments and critique of the current conjoint legal/ public health/ industry framework. The latter framework is in line with mainstream pharmacology, which advocates the need to use purified substances as they are considered more specific and safe. However, I critique this approach of 'knowing' cannabis through the cannabis cup as the "effects" and quality of whole derived cannabis products are quantified and standardized based on a percentage number associated with two out of 100+ molecular compounds. This creates a new phenomenon, shaping cultivation practices focused on single molecule percentage numbers. Therefore, I ask how does a skilled home grower know/sense cannabis, and how does the contest criteria constrain (or not) the home grower's ways of knowing/ sensing cannabis? Answering these questions aims to understand the sensorial ways of knowing cannabis. As such, this thesis does not deal with standardization or metrics directly. Instead, attention is oriented towards what escapes the contest-winning criteria and standardization, my curiosity resting in ways of 'knowing' directly from what is evoked through practical activity.
Weighted de Bruijn Graphs for the Menage Problem and Its Generalizations
Creators: name: Alekseyev, Max A.
Publisher: name: arXiv
Year: 2015
Subjects: subject: Combinatorics (math.CO)
subject: Discrete Mathematics (cs.DM)
subject: FOS: Mathematics
subject: FOS: Computer and information sciences
subject: F.2.1; G.2.1
subject: 05A15, 05B20, 05B30, 44A10

description: We address the problem of enumeration of seating arrangements of married couples around a circular table such that no spouses sit next to each other and no k consecutive persons are of the same gender. While the case of k=2 corresponds to the classical problème des ménages with a well-studied solution, no closed-form expression for the number of seating arrangements is known when k>=3. We propose a novel approach for this type of problems based on enumeration of walks in certain algebraically weighted de Bruijn graphs. Our approach leads to new expressions for the menage numbers and their exponential generating function and allows one to efficiently compute the number of seating arrangements in general cases, which we illustrate in detail for the ternary case of k=3.
Transcription of telomeric DNA leads to high levels of homologous recombination and t-loops
Creators: name: Griffith, Jack D.
name: Kar, Anirban
name: Willcox, Smaranda
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2016

description: The formation of DNA loops at chromosome ends (t-loops) and the transcription of telomeres producing G-rich RNA (TERRA) represent two central features of telomeres. To explore a possible link between them we employed artificial human telomeres containing long arrays of TTAGGG repeats flanked by the T7 or T3 promoters. Transcription of these DNAs generates a high frequency of t-loops within individual molecules and homologous recombination events between different DNAs at their telomeric sequences. T-loop formation does not require a single strand overhang, arguing that both terminal strands insert into the preceding duplex. The loops are very stable and some RNase H resistant TERRA remains at the t-loop, likely adding to their stability. Transcription of DNAs containing TTAGTG or TGAGTG repeats showed greatly reduced loop formation. While in the cell multiple pathways may lead to t-loop formation, the pathway revealed here does not depend on the shelterins but rather on the unique character of telomeric DNA when it is opened for transcription. Hence, telomeric sequences may have evolved to facilitate their ability to loop back on themselves.
Population dynamics of Leucospermum reflexum in the Cederberg, site 3219AA/3
Creators: name: Jonkershoek Forestry Research Center
Publisher: name: South African Environmental Observation Network
Year: 2022
Subjects: Jonkershoek Forestry Research Centre
Population dynamics
Leucospermum reflexum
Cederberg

description: This is a scanned copy of a document, including a photograph, on the population dynamics of Leucospermum reflexum in the Cederberg, site 3219AA/3. The Jonkershoek Forestry Research Center (part of the former South African Forestry Research Institute) was established in 1935 at Jonkershoek, near Stellenbosch, under the directorship of Dr C. L. Wicht. The initial aim was to determine how forestry activities in state plantations would affect climate, water conservation and erosion, and was later expanded to include studies of fynbos ecology, fire and alien species. Studies from the 1930s to the early 1990s saw the accumulation of a large amount of data dealing with fire experiments, detailed vegetation plot surveys, rare plant surveys and ecological studies, hydrological studies and the development of management plans for catchments around the Western Cape. SAEON now houses the archive of data collected by the Jonkershoek Forestry Research Center, which was originally held by the Council for Scientific and Industrial Research (CSIR).
Supergravity in Twelve Dimension
Creators: name: Choi, Kang-Sin
Publisher: name: arXiv
Year: 2015
Subjects: subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: We consider supergravity in twelve dimension, whose dimensional reduction yields eleven-dimensional, IIA, and IIB supergravities. This also provides the effective field theory of F-theory. We must take one direction as a compact circle, so that the Poincaré symmetry and the zero-mode field contents are identical to those of eleven-dimensional supergravity. We also have a tower of massive Kaluza-Klein states to be viewed as the wrapping modes of M2-branes. The twelfth dimension decompactifies only if other two directions are compactified on a torus, restoring different ten dimensional Poincaré symmetry of IIB supergravity, whose missing graviton is provided by components of the rank three tensor field. This condition prevents us from violating the condition on the maximal number of real supercharges, which should be thirty-two. The self-duality condition of the IIB four-form fields is understood from twelve-dimensional Hodge duality. In this framework T-duality is re-interpreted as taking different compactification routes.
description: 33+1 pages
Community Development Project Funding Submission 2023: Indigenous fashion photoshoot
Creators: name: Ozies, Jaala
Publisher: name: figshare
Year: 2024
Subjects: classificationCode: 459999
subject: Other Indigenous studies not elsewhere classified
classificationCode: 440407
subject: Socio-economic development
classificationCode: 450523
subject: Aboriginal and Torres Strait Islander social work and social justice
classificationCode: 440999
subject: Social work not elsewhere classified
classificationCode: 450423
subject: Aboriginal and Torres Strait Islander youth and family social and emotional wellbeing

description: This Assessment: Community Development Project Funding Submission 2023 was written in October 2023 during my Master of Social Work Studies at the University of Queensland.This proposed project funding submission seeks funding for an Indigenous fashion photoshoot in the Northern Region remote area, aiming to reduce social isolation among Aboriginal and Torres Strait Islander youth. It will enhance self-esteem, skill development, and youth empowerment while fostering community connections and promoting respect for Elders.
title: Liminal Parenthood: A Qualitative Inquiry into The Work-Family Experiences and Evolving Self-Concepts of Lone Parents and Blended Families
Creators: name: Schaefer, Anneke
Publisher: name: University of Liverpool Repository
Year: 2026

description: This thesis explores the interplay of non-work and work identities in times of transition and seeks to explain why the outcomes of such identity transitions can be so diverse. I do so by focusing on non-traditional transitions to and within parenthood so as to illustrate the complexity of modern family life and to demonstrate how such parenthood transitions can trigger a change to both, individuals’ sense of selves as parents and workers. The transition to parenthood has been acknowledged as having major significance for individual’s life courses. Work-family scholars have explored how individuals make sense of their transition to parenthood, and how this shapes their relationship to paid work (e.g. Ladge, Clair and Greenberg, 2012; Ladge and Greenberg, 2015; Gatrell, 2013; Humberd, Ladge and Harrington, 2015). However, the vast majority of such studies are constrained to traditional transitions to parenthood, i.e. becoming a parent through pregnancy and childbirth. Furthermore, work-family research, and organisational policy and practice based upon such research, still treat family as a stable concept (Gatrell et al., 2015). My study seeks to redress this imbalance in work-family scholarship by focusing on non-traditional transitions to (and within) parenthood, specifically becoming a lone parent, repartnering and living in a blended family, and becoming a stepparent. All these parenthood transitions are increasingly common in the Western world but are hardly represented in organisational research (Schaefer, Radcliffe and Gatrell, 2020). My research shows that the work-family experiences of families in transition are marked by assumptions that families are likely to be stable entities with parents usually in intact, heterosexual relationships. I demonstrate how lone parents, repartnered parents and stepparents struggle to build new parent-worker identities when going through parenthood transitions such as divorce/separation and re-partnering due the influence of gendered parenting scripts and a perceived lack of organisational and social support. My study contributes to theory by showing how this lack of support and guidance leads to some individuals living in a liminal state in which they have neither fully let go of their old parent-worker identity nor were able to construct a new identity due to the aforementioned tensions. The uncertainty and powerlessness of being in a prolonged liminal state can have far-reaching implications not only for the individual but also their organisations. Practical recommendations are made for organisational policy and practice to enable individuals who have undergone a parenthood transition to construct a new, coherent parent-worker identity.
A Parameter Estimation Approach to State Observation of Nonlinear Systems
Creators: name: Romeo, Ortega
name: Alexey, Bobtsov
name: Anton, Pyrkin
name: Stanislav, Aranovskiy
Publisher: name: arXiv
Year: 2015
Subjects: subject: Systems and Control (eess.SY)
subject: FOS: Electrical engineering, electronic engineering, information engineering

description: A novel approach to the problem of partial state estimation of nonlinear systems is proposed. The main idea is to translate the state estimation problem into one of estimation of constant, unknown parameters related to the systems initial conditions. The class of systems for which the method is applicable is identified via two assumptions related to the transformability of the system into a suitable cascaded form and our ability to estimate the unknown parameters. The first condition involves the solvability of a partial differential equation while the second one requires some persistency of excitation--like conditions. The proposed observer is shown to be applicable to position estimation of a class of electromechanical systems, for the reconstruction of the state of power converters and for speed observation of a class of mechanical systems.
description: This paper is submitted to Systems & Control Letters Journal. The abridged version of this paper will be presented at Conference on Descision and Control 2015, Osaka, Japan
Photo plot, Riviersonderend - Jagersboskloof, site 3419AB/6
Creators: name: Jonkershoek Forestry Research Center
Publisher: name: South African Environmental Observation Network
Year: 2022
Subjects: Jonkershoek Forestry Research Centre
photo plot
Riviersonderend
Jagersboskloof

description: This is a scanned copy of a photo plot, Riviersonderend - Jagersboskloof, site 3419AB/6. The Jonkershoek Forestry Research Center (part of the former South African Forestry Research Institute) was established in 1935 at Jonkershoek, near Stellenbosch, under the directorship of Dr C. L. Wicht. The initial aim was to determine how forestry activities in state plantations would affect climate, water conservation and erosion, and was later expanded to include studies of fynbos ecology, fire and alien species. Studies from the 1930s to the early 1990s saw the accumulation of a large amount of data dealing with fire experiments, detailed vegetation plot surveys, rare plant surveys and ecological studies, hydrological studies and the development of management plans for catchments around the Western Cape. SAEON now houses the archive of data collected by the Jonkershoek Forestry Research Center, which was originally held by the Council for Scientific and Industrial Research (CSIR).
Estimation of effective temperatures in quantum annealers for sampling applications: A case study with possible applications in deep learning
Creators: name: Benedetti, Marcello
name: Realpe-Gómez, John
name: Biswas, Rupak
name: Perdomo-Ortiz, Alejandro
Publisher: name: arXiv
Year: 2015
Subjects: subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: An increase in the efficiency of sampling from Boltzmann distributions would have a significant impact on deep learning and other machine-learning applications. Recently, quantum annealers have been proposed as a potential candidate to speed up this task, but several limitations still bar these state-of-the-art technologies from being used effectively. One of the main limitations is that, while the device may indeed sample from a Boltzmann-like distribution, quantum dynamical arguments suggest it will do so with an {\it instance-dependent} effective temperature, different from its physical temperature. Unless this unknown temperature can be unveiled, it might not be possible to effectively use a quantum annealer for Boltzmann sampling. In this work, we propose a strategy to overcome this challenge with a simple effective-temperature estimation algorithm. We provide a systematic study assessing the impact of the effective temperatures in the learning of a special class of a restricted Boltzmann machine embedded on quantum hardware, which can serve as a building block for deep-learning architectures. We also provide a comparison to $k$-step contrastive divergence (CD-$k$) with $k$ up to 100. Although assuming a suitable fixed effective temperature also allows us to outperform one step contrastive divergence (CD-1), only when using an instance-dependent effective temperature do we find a performance close to that of CD-100 for the case studied here.
description: New appendix and figure comparing to other temperature estimation techniques from the statistical physics community. 15 pages, 6 figures
Bridging of double-stranded breaks by the nonhomologous end-joining ligation complex is modulated by DNA end chemistry
Creators: name: Lieber, Michael R.
name: Rothenberg, Eli
name: Yin, Yandong
name: Watanabe, Go
name: Conlin, Michael P.
name: Ramsden, Dale A.
name: Reid, Dylan A.
name: Chang, Howard H.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2017

description: The nonhomologous end-joining (NHEJ) pathway is the primary repair pathway for DNA double strand breaks (DSBs) in humans. Repair is mediated by a core complex of NHEJ factors that includes a ligase (DNA Ligase IV; L4) that relies on juxtaposition of 3΄ hydroxyl and 5΄ phosphate termini of the strand breaks for catalysis. However, chromosome breaks arising from biological sources often have different end chemistries, and how these different end chemistries impact the way in which the core complex directs the necessary transitions from end pairing to ligation is not known. Here, using single-molecule FRET (smFRET), we show that prior to ligation, differences in end chemistry strongly modulate the bridging of broken ends by the NHEJ core complex. In particular, the 5΄ phosphate group is a recognition element for L4 and is critical for the ability of NHEJ factors to promote stable pairing of ends. Moreover, other chemical incompatibilities, including products of aborted ligation, are sufficient to disrupt end pairing. Based on these observations, we propose a mechanism for iterative repair of DSBs by NHEJ.
Subsystem density functional theory with meta generalized gradient approximation exchange-correlation functionals
Creators: name: Śmiga, S.
name: Fabiano, E.
name: Laricchia, S.
name: Constantin, L. A.
name: Della Sala, F.
Publisher: name: arXiv
Year: 2015
Subjects: subject: Other Condensed Matter (cond-mat.other)
subject: Chemical Physics (physics.chem-ph)
subject: FOS: Physical sciences

description: We analyze the methodology and the performance of subsystem density functional theory (DFT) with meta-generalized gradient approximation (meta-GGA) exchange-correlation functionals for non-bonded systems. Meta-GGA functionals depend on the Kohn-Sham kinetic energy density (KED), which is not known as an explicit functional of the density. Therefore, they cannot be directly applied in subsystem DFT calculations. We propose a Laplacian-level approximation to the KED which overcomes the problem and provides a simple and accurate way to apply meta-GGA exchange-correlation functionals in subsystem DFT calculations. The so obtained density and energy errors, with respect to the corresponding supermolecular calculations, are comparable with conventional approaches, depending almost exclusively on the approximations in the non-additive kinetic embedding term. An embedding energy error decomposition explains the accuracy of our method.
description: 14 pages, 3 figures
Differential hepatitis C virus RNA target site selection and host factor activities of naturally occurring miR-122 3′ variants
Creators: name: Honda, Masao
name: Zhou, Mi
name: Sethupathy, Praveen
name: Li, You
name: Yamane, Daisuke
name: Selitsky, Sara R.
name: Lemon, Stanley M.
name: Shimakami, Tetsuro
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2017

description: In addition to suppressing cellular gene expression, certain miRNAs potently facilitate replication of specific positive-strand RNA viruses. miR-122, a pro-viral hepatitis C virus (HCV) host factor, binds and recruits Ago2 to tandem sites (S1 and S2) near the 5΄ end of the HCV genome, stabilizing it and promoting its synthesis. HCV target site selection follows canonical miRNA rules, but how non-templated 3΄ miR-122 modifications impact this unconventional miRNA action is unknown. High-throughput sequencing revealed that a 22 nt miRNA with 3΄G (‘22–3΄G’) comprised <63% of total miR-122 in human liver, whereas other variants (23–3΄A, 23–3΄U, 21–3΄U) represented 11–17%. All loaded equivalently into Ago2, and when tested individually functioned comparably in suppressing gene expression. In contrast, 23–3΄A and 23–3΄U were more active than 22–3΄G in stabilizing HCV RNA and promoting its replication, whereas 21–3΄U was almost completely inactive. This lack of 21–3΄U HCV host factor activity correlated with reduced recruitment of Ago2 to the HCV S1 site. Additional experiments demonstrated strong preference for guanosine at nt 22 of miR-122. Our findings reveal the importance of non-templated 3΄ miR-122 modifications to its HCV host factor activity, and identify unexpected differences in miRNA requirements for host gene suppression versus RNA virus replication.
Supplementary documentation for SAEON's field instrument data collected at the Cape Peninsula Hospital Bend A Top soil moisture station
Creators: name: South African Environmental Observation Network (SAEON) Fynbos Node
Publisher: name: South African Environmental Observation Network
Year: 2022
Subjects: SAEON field instruments
Standard Operating Procedures
Calibration
Cape Peninsula
Hydrological
Soil Moisture Probe
Soil moisture
soil temperature

description: This package contains supporting information for the hydrological data collected at Cape Peninsula's Hospital Bend A Top soil moisture station, as part of the South African Environmental Observation Network's monitoring projects.
title: Searches for Supersymmetry and Dark Matter in final states with b-jets and ETmiss utilising the Higgs boson as a handle for new physics with the ATLAS detector
Creators: name: Teagle, Hamish
Publisher: name: University of Liverpool Repository
Year: 2022

description: The Standard Model (SM) is the most powerful and successful description of nature we have. Its predictions have stood up to decades of scrutiny and, since the discovery of the Higgs boson by the ATLAS and CMS collaborations in 2012, all the fundamental particles of the theory have been observed. However, we also know the theory to be incomplete. This thesis describes several searches for evidence of physics beyond the SM in proton-proton collision data collected by the ATLAS experiment at the Large Hadron Collider (LHC). The searches are motivated in two theoretical bases: WIMP dark matter scenarios which propose additional massive weakly-interacting particles aiming to explain astrophysical observations, and Supersymmetry (SUSY) which is a complete theoretical framework based upon symmetry extensions to the SM and predicts many additional massive particles that partner those of the SM and, under certain constraints, also provides a WIMP dark matter candidate. In this work, the theoretical foundations of the SM and the relevant proposed extensions are briefly discussed. The methodology of the searches are then described along with their results. Firstly in chapter 8 two searches for Supersymmetric partners of the third generation quarks are outlined, targeting two decay chain scenarios. A dark matter model considering spin-0 mediators that expresses a similar experimental signature to the Supersymmetric signatures is also presented in this analysis. In chapter 9 a search for Supersymmetric partners to the electro-weak gauge bosons is presented taking two approaches: firstly a statistical analysis based on studying the shapes of key kinematic variables, and secondly a machine-learning (ML) based approach is targeting specific hard-to-reach areas of phase-space is presented. Lastly, in chapter 10 a search for pseudo- scalar mediated dark matter is presented motivated by the 2HDM+a model. The commonality between the searches lies in the experimental signatures they produce. They are all characterised by the presence of b-quarks and weakly interacting particles miss that are evidenced in the detector as missing transverse energy, ET . In addition, two of the proposed models contain the Higgs boson in their decays, this is utilised as a handle to identify the signatures. In the appendix an evaluation of the construction methods and the material content to be used in the construction of the support structure for the silicon detector systems in the ATLAS inner detector upgrade is outlined and the comparison with the design specification is discussed. The upgrade will be implemented for the high luminosity run of the LHC.
A Summary of the United States Experience with Selected Aspects of Agrarian Reform
Creators: name: , Land
name: , Land
Publisher: name: Unknown
Year: 1959
Subjects: Agribusiness
Agricultural and Food Policy
Agricultural Finance
Labor and Human Capital
Land Economics/Use
Resource /Energy Economics and Policy
Teaching/Communication/Extension/Profession

description: Excerpt: In the view of the United States Government, the term “agrarian reform” means primarily the improvement of agricultural institutions with the objective of improving rural levels of living. These institutions pertain to such methods as the holding and transmitting of rights in land through ownership and tenancy, allocating returns to land between owners and tenants, taxing land values and land income, extending credit for land purchase and farm operation, developing marketing procedures and broader opportunities for education and training, health and welfare, and disseminating information relative to resource utilization on the farm and in rural areas.
The set of flexible nondegenerate polyhedra of a prescribed combinatorial structure is not always algebraic
Creators: name: Alexandrov, Victor
Publisher: name: arXiv
Year: 2015
Subjects: subject: Metric Geometry (math.MG)
subject: FOS: Mathematics
subject: 52C25, 51M20

description: We construct some example of a closed nondegenerate nonflexible polyhedron $P$ in Euclidean 3-space that is the limit of a sequence of nondegenerate flexible polyhedra each of which is combinatorially equivalent to $P$. This implies that the set of flexible nondegenerate polyhedra combinatorially equivalent to $P$ is not algebraic.
description: 8 pages, 4 figures
Exponential Ordering for Nonautonomous Neutral Functional Differential Equations
Creators: name: Novo, Sylvia
name: Obaya, Rafael
name: Villarragut, Víctor M.
Publisher: name: arXiv
Year: 2024
Subjects: subject: Dynamical Systems (math.DS)
subject: FOS: Mathematics
subject: 37B55, 34K40, 34K14

description: We study monotone skew-product semiflows generated by families of nonautonomous neutral functional differential equations with infinite delay and stable D-operator, when the exponential ordering is considered. Under adequate hypotheses of stability for the order on bounded sets, we show that the omega-limit sets are copies of the base to explain the long-term behavior of the trajectories. The application to the study of the amount of material within the compartments of a neutral compartmental system with infinite delay, shows the improvement with respect to the standard ordering.
description: 29 pages. arXiv admin note: text overlap with arXiv:2401.17708
Relativistic quantum oscillator under rainbow gravity's effects in traversable wormhole with disclination
Creators: name: Guvendi, Abdullah
name: Ahmed, Faizuddin
Publisher: name: arXiv
Year: 2024
Subjects: subject: General Relativity and Quantum Cosmology (gr-qc)
subject: High Energy Physics - Theory (hep-th)
subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: In this paper, our principal objective is to investigate the impact of disclination and throat radius of a three-dimensional traversable wormhole on quantum oscillator fields. Specifically, we focus on Perry-Mann-type wormhole with disclination while also considering the influence of rainbow gravity's. We derive the radial equation of the relativistic Klein-Gordon oscillator within this wormhole background under the effects of gravity's rainbow and the analytical eigenvalue solution is obtained using the confluent Heun function. In fact, we show that the behavior of the oscillator fields is significantly influenced not only by the presence of disclination and the throat radius but also by the parameter of rainbow gravity's. We choose various such rainbow functions to present and analyze the eigenvalue solutions of the quantum oscillator fields.
description: 16 pages; 7 figures; accepted in IJMPA (https://doi.org/10.1142/S0217751X23501798)
The parity-preserving massive QED3: vanishing beta-function and no parity anomaly
Creators: name: Del Cima, O. M.
Publisher: name: arXiv
Year: 2015
Subjects: subject: High Energy Physics - Theory (hep-th)
subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: Strongly Correlated Electrons (cond-mat.str-el)
subject: Superconductivity (cond-mat.supr-con)
subject: Mathematical Physics (math-ph)
subject: FOS: Physical sciences

description: The parity-preserving massive QED3 exhibits vanishing gauge coupling beta-function and is parity and infrared anomaly free at all orders in perturbation theory. Parity is not an anomalous symmetry, even for the parity-preserving massive QED3, in spite of some claims about the possibility of a perturbative parity breakdown, called parity anomaly. The proof is done by using the algebraic renormalization method, which is independent of any regularization scheme, based on general theorems of perturbative quantum field theory.
description: In honor of Prof. Raymond Stora (1930-2015), to appear in Phys. Lett. B, 5 pages
Enrichment of dynamic chromosomal crosslinks drive phase separation of the nucleolus
Creators: name: Cook, Diana
name: Vasquez, Paula A.
name: Adalsteinsson, David
name: York, Alyssa
name: Bennett, Maggie
name: Lawrimore, Josh
name: Forest, Mark Gregory
name: Yeh, Elaine
name: Bloom, Kerry
name: Hult, Caitlin
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2017

description: Regions of highly repetitive DNA, such as those found in the nucleolus, show a self-organization that is marked by spatial segregation and frequent self-interaction. The mechanisms that underlie the sequestration of these sub-domains are largely unknown. Using a stochastic, bead-spring representation of chromatin in budding yeast, we find enrichment of protein-mediated, dynamic chromosomal cross-links recapitulates the segregation, morphology and self-interaction of the nucleolus. Rates and enrichment of dynamic crosslinking have profound consequences on domain morphology. Our model demonstrates the nucleolus is phase separated from other chromatin in the nucleus and predicts that multiple rDNA loci will form a single nucleolus independent of their location within the genome. Fluorescent labeling of budding yeast nucleoli with CDC14-GFP revealed that a split rDNA locus indeed forms a single nucleolus. We propose that nuclear sub-domains, such as the nucleolus, result from phase separations within the nucleus, which are driven by the enrichment of protein-mediated, dynamic chromosomal crosslinks.
Supplementary documentation for SAEON's field instrument data collected at the Cathedral Peak 4B station
Creators: name: South African Environmental Observation Network (SAEON) Grasslands-Forests-Wetlands Node
Publisher: name: South African Environmental Observation Network
Year: 2022
Subjects: SAEON field instruments
Standard Operating Procedures
Calibration
Cathedral Peak
Meteorological
Tipping bucket
Precipitation
Air temperature

description: This package contains supporting information for the meteorological data collected at Cathedral Peak's 4B station, as part of the South African Environmental Observation Network's monitoring projects.
Supplementary documentation for SAEON's field instrument data collected at the Jonkershoek 19B station
Creators: name: South African Environmental Observation Network (SAEON) Fynbos Node
Publisher: name: South African Environmental Observation Network
Year: 2022
Subjects: SAEON field instruments
Standard Operating Procedures
Calibration
Jonkershoek
Meteorological
Tipping bucket rain gauge
Rainfall
air temperature

description: This package contains supporting information for the meteorological data collected at Jonkershoek's 19B station, as part of the South African Environmental Observation Network's monitoring projects.
Polμ tumor variants decrease the efficiency and accuracy of NHEJ
Creators: name: Pryor, John M.
name: Ruiz, José F.
name: Blanco, Luis
name: Díaz-Talavera, Alberto
name: Ramsden, Dale A.
name: Sastre-Moreno, Guillermo
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2017

description: The non homologous end-joining (NHEJ) pathway of double-strand break (DSB) repair often requires DNA synthesis to fill the gaps generated upon alignment of the broken ends, a complex task performed in human cells by two specialized DNA polymerases, Polλ and Polμ. It is now well established that Polμ is the one adapted to repair DSBs with non-complementary ends, the most challenging scenario, although the structural basis and physiological implications of this adaptation are not fully understood. Here, we demonstrate that two human Polμ point mutations, G174S and R175H, previously identified in two different tumor samples and affecting two adjacent residues, limit the efficiency of accurate NHEJ by Polμ in vitro and in vivo. Moreover, we show that this limitation is the consequence of a decreased template dependency during NHEJ, which renders the error-rate of the mutants higher due to the ability of Polμ to randomly incorporate nucleotides at DSBs. These results highlight the relevance of the 8 kDa domain of Polμ for accurate and efficient NHEJ, but also its contribution to the error-prone behavior of Polμ at 2-nt gaps. This work provides the first demonstration that mutations affecting Polμ identified in tumors can alter the efficiency and fidelity of NHEJ.
Monte Carlo Neutrino Transport Through Remnant Disks from Neutron Star Mergers
Creators: name: Richers, S.
name: Kasen, D.
name: O'Connor, Evan
name: Fernandez, Rodrigo
name: Ott, Christian
Publisher: name: arXiv
Year: 2015
Subjects: subject: High Energy Astrophysical Phenomena (astro-ph.HE)
subject: FOS: Physical sciences

description: We present Sedonu, a new open source, steady-state, special relativistic Monte Carlo (MC) neutrino transport code, available at bitbucket.org/srichers/sedonu. The code calculates the energy- and angle-dependent neutrino distribution function on fluid backgrounds of any number of spatial dimensions, calculates the rates of change of fluid internal energy and electron fraction, and solves for the equilibrium fluid temperature and electron fraction. We apply this method to snapshots from two-dimensional simulations of accretion disks left behind by binary neutron star mergers, varying the input physics and comparing to the results obtained with a leakage scheme for the case of a central black hole and a central hypermassive neutron star. Neutrinos are guided away from the densest regions of the disk and escape preferentially around 45 degrees from the equatorial plane. Neutrino heating is strengthened by MC transport a few scale heights above the disk midplane near the innermost stable circular orbit, potentially leading to a stronger neutrino-driven wind. Neutrino cooling in the dense midplane of the disk is stronger when using MC transport, leading to a globally higher cooling rate by a factor of a few and a larger leptonization rate by an order of magnitude. We calculate neutrino pair annihilation rates and estimate that an energy of 2.8e46 erg is deposited within 45 degrees of the symmetry axis over 300 ms when a central BH is present. Similarly, 1.9e48 erg is deposited over 3 s when an HMNS sits at the center, but neither estimate is likely to be sufficient to drive a GRB jet.
description: 23 pages, 16 figures, Accepted to The Astrophysical Journal
Revealing the role of the product metal in DNA polymerase β catalysis
Creators: name: Beard, William A.
name: Freudenthal, Bret D.
name: Perera, Lalith
name: Wilson, Samuel H.
name: Pedersen, Lee G.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2017

description: DNA polymerases catalyze a metal-dependent nucleotidyl transferase reaction during extension of a DNA strand using the complementary strand as a template. The reaction has long been considered to require two magnesium ions. Recently, a third active site magnesium ion was identified in some DNA polymerase product crystallographic structures, but its role is not known. Using quantum mechanical/ molecular mechanical calculations of polymerase β, we find that a third magnesium ion positioned near the newly identified product metal site does not alter the activation barrier for the chemical reaction indicating that it does not have a role in the forward reaction. This is consistent with time-lapse crystallographic structures following insertion of Sp-dCTPαS. Although sulfur substitution deters product metal binding, this has only a minimal effect on the rate of the forward reaction. Surprisingly, monovalent sodium or ammonium ions, positioned in the product metal site, lowered the activation barrier. These calculations highlight the impact that an active site water network can have on the energetics of the forward reaction and how metals or enzyme side chains may interact with the network to modulate the reaction barrier. These results also are discussed in the context of earlier findings indicating that magnesium at the product metal position blocks the reverse pyrophosphorolysis reaction.
Supplementary documentation for SAEON's field instrument data collected at the St. Lucia - WESTERN SHORE WES04 station
Creators: name: South African Environmental Observation Network (SAEON) Grasslands-Forests-Wetlands Node
Publisher: name: South African Environmental Observation Network
Year: 2022
Subjects: SAEON field instruments
Standard Operating Procedures
Calibration
St. Lucia
Hydrological
Pressure transducer
Ground Water level

description: This package contains supporting information for the hydrological data collected at St. Lucia - WESTERN SHORE's WES04 station, as part of the South African Environmental Observation Network's monitoring projects.
Population dynamics Protea repens, Lebanon State Forest - Houwhoek, site 3419AA/13
Creators: name: Jonkershoek Forestry Research Center
Publisher: name: South African Environmental Observation Network
Year: 2022
Subjects: Jonkershoek Forestry Research Centre
population dynamics
Protea repens
Lebanon State Forest
Houwhoek

description: This is a scanned copy of a document on population dynamics Protea repens, Lebanon State Forest - Houwhoek, site 3419AA/13. The Jonkershoek Forestry Research Center (part of the former South African Forestry Research Institute) was established in 1935 at Jonkershoek, near Stellenbosch, under the directorship of Dr C. L. Wicht. The initial aim was to determine how forestry activities in state plantations would affect climate, water conservation and erosion, and was later expanded to include studies of fynbos ecology, fire and alien species. Studies from the 1930s to the early 1990s saw the accumulation of a large amount of data dealing with fire experiments, detailed vegetation plot surveys, rare plant surveys and ecological studies, hydrological studies and the development of management plans for catchments around the Western Cape.  SAEON now houses the archive of data collected by the Jonkershoek Forestry Research Center, which was originally held by the Council for Scientific and Industrial Research (CSIR).
Role of the chromatin landscape and sequence in determining cell type-specific genomic glucocorticoid receptor binding and gene regulation
Creators: name: Huska, Matthew R.
name: Love, Michael I.
name: Starick, Stephan R.
name: Thomas-Chollier, Morgane
name: Meijsing, Sebastiaan H.
name: Yamamoto, Keith R.
name: Schwahn, Kevin
name: Schöpflin, Robert
name: Jurk, Marcel
name: Vingron, Martin
name: Cooper, Samantha B.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2017

description: The genomic loci bound by the glucocorticoid receptor (GR), a hormone-activated transcription factor, show little overlap between cell types. To study the role of chromatin and sequence in specifying where GR binds, we used Bayesian modeling within the universe of accessible chromatin. Taken together, our results uncovered that although GR preferentially binds accessible chromatin, its binding is biased against accessible chromatin located at promoter regions. This bias can only be explained partially by the presence of fewer GR recognition sequences, arguing for the existence of additional mechanisms that interfere with GR binding at promoters. Therefore, we tested the role of H3K9ac, the chromatin feature with the strongest negative association with GR binding, but found that this correlation does not reflect a causative link. Finally, we find a higher percentage of promoter–proximal GR binding for genes regulated by GR across cell types than for cell type-specific target genes. Given that GR almost exclusively binds accessible chromatin, we propose that cell type-specific regulation by GR preferentially occurs via distal enhancers, whose chromatin accessibility is typically cell type-specific, whereas ubiquitous target gene regulation is more likely to result from binding to promoter regions, which are often accessible regardless of cell type examined.
Structural accommodation of ribonucleotide incorporation by the DNA repair enzyme polymerase Mu
Creators: name: Kunkel, Thomas A.
name: Moon, Andrea F.
name: Ramsden, Dale A.
name: Pryor, John M.
name: Pedersen, Lars C.
name: Bebenek, Katarzyna
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2017

description: While most DNA polymerases discriminate against ribonucleotide triphosphate (rNTP) incorporation very effectively, the Family X member DNA polymerase μ (Pol μ) incorporates rNTPs almost as efficiently as deoxyribonucleotides. To gain insight into how this occurs, here we have used X-ray crystallography to describe the structures of pre- and post-catalytic complexes of Pol μ with a ribonucleotide bound at the active site. These structures reveal that Pol μ binds and incorporates a rNTP with normal active site geometry and no distortion of the DNA substrate or nucleotide. Moreover, a comparison of rNTP incorporation kinetics by wildtype and mutant Pol μ indicates that rNTP accommodation involves synergistic interactions with multiple active site residues not found in polymerases with greater discrimination. Together, the results are consistent with the hypothesis that rNTP incorporation by Pol μ is advantageous in gap-filling synthesis during DNA double strand break repair by nonhomologous end joining, particularly in nonreplicating cells containing very low deoxyribonucleotide concentrations.
Immersion and Invariance Stabilization of Nonlinear Systems: A Horizontal Contraction Approach
Creators: name: Wang, Lei
name: Forni, Fulvio
name: Ortega, Romeo
name: Su, Hongye
Publisher: name: arXiv
Year: 2015
Subjects: subject: Systems and Control (eess.SY)
subject: FOS: Electrical engineering, electronic engineering, information engineering

description: The main objective of this paper is to propose an alternative procedure to carry out one of the key steps of immersion and invariance stabilising controller design. Namely, the one that ensures attractivity of the manifold whose internal dynamics contains a copy of the desired system behaviour. Towards this end we invoke contraction theory principles and ensure the attractivity of the manifold rendering it horizontally contractive. The main advantage of adopting this alternative approach is to make more systematic the last step of the design with more explicit degrees of freedom to accomplish the task. The classical case of systems in feedback form is used to illustrate the proposed controller design.
description: 5 pages, the 54th IEEE Conference on Decision and Control
Structure modeling of RNA using sparse NMR constraints
Creators: name: Ding, Feng
name: Zhang, Qi
name: Williams, Benfeard
name: Tandon, Arpit
name: Dokholyan, Nikolay V.
name: Zhao, Bo
name: Weeks, Kevin M.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2017

description: RNAs fold into distinct molecular conformations that are often essential for their functions. Accurate structure modeling of complex RNA motifs, including ubiquitous non-canonical base pairs and pseudoknots, remains a challenge. Here, we present an NMR-guided all-atom discrete molecular dynamics (DMD) platform, iFoldNMR, for rapid and accurate structure modeling of complex RNAs. We show that sparse distance constraints from imino resonances, which can be readily obtained from routine NMR experiments and easier to compile than laborious assignments of non-solvent-exchangeable protons, are sufficient to direct a DMD search for low-energy RNA conformers. Benchmarking on a set of RNAs with complex folds spanning up to 56 nucleotides in length yields structural models that recapitulate experimentally determined structures with all-heavy-atom RMSDs ranging from 2.4 to 6.5 Å. This platform represents an efficient approach for high-throughput RNA structure modeling and will facilitate analysis of diverse, newly discovered functional RNAs.
An Extreme Metallicity, Large-Scale Outflow from a Star-Forming Galaxy at z ~ 0.4
Creators: name: Muzahid, Sowgat
name: Kacprzak, Glenn G.
name: Churchill, Christopher W.
name: Charlton, Jane C.
name: Nielsen, Nikole M.
name: Mathes, Nigel L.
name: Trujillo-Gomez, Sebastian
Publisher: name: arXiv
Year: 2015
Subjects: subject: Astrophysics of Galaxies (astro-ph.GA)
subject: FOS: Physical sciences

description: We present a detailed analysis of a large-scale galactic outflow in the CGM of a massive (M_h ~ 10^12.5 Msun), star-forming (6.9 Msun/yr), sub-L* (0.5 L_B*) galaxy at z=0.39853 that exhibits a wealth of metal-line absorption in the spectra of the background quasar Q 0122-003 at an impact parameter of 163 kpc. The galaxy inclination angle (i=63 degree) and the azimuthal angle (Phi=73 degree) imply that the QSO sightline is passing through the projected minor-axis of the galaxy. The absorption system shows a multiphase, multicomponent structure with ultra-strong, wide velocity spread OVI (logN = 15.16\pm0.04, V_{90} = 419 km/s) and NV (logN = 14.69\pm0.07, V_{90} = 285 km/s) lines that are extremely rare in the literature. The highly ionized absorption components are well explained as arising in a low density (10^{-4.2} cm^{-3}), diffuse (10 kpc), cool (10^4 K) photoionized gas with a super-solar metallicity ([X/H] > 0.3). From the observed narrowness of the Lyb profile, the non-detection of SIV absorption, and the presence of strong CIV absorption we rule out equilibrium/non-equilibrium collisional ionization models. The low-ionization photoionized gas with a density of 10^{-2.5} cm^{-3} and a metallicity of [X/H] > -1.4 is possibly tracing recycled halo gas. We estimate an outflow mass of ~2x10^{10} Msun, a mass-flow rate of ~54 Msun/yr, a kinetic luminosity of ~9x10^{41} erg/s, and a mass loading factor of ~8 for the outflowing high-ionization gas. These are consistent with the properties of "down-the-barrel" outflows from infrared-luminous starbursts as studied by Rupke et al. Such powerful, large-scale, metal-rich outflows are the primary means of sufficient mechanical and chemical feedback as invoked in theoretical models of galaxy formation and evolution.
description: APJ accepted; Updated Fig. 2 with more galaxy info