cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Social Media Surveillance of Vulnerable, At-Risk Groups in Tobacco Control
Creators: name: University Of California Office Of The President
Publisher: name: University of California Office of the President
publisherIdentifier: https://ror.org/00dmfq477
publisherIdentifierScheme: ROR
Year: 2024

description: Social media users are posting about their tobacco related behaviors daily, providing a volume of data that before was unprecedented. While social media data have already made significant contributions to tobacco control knowledge, the key question -- “among whom?” -- goes unanswered, because investigators have been unable to subdivide social media trends and link them to specific demographic groups. Our goal is to incorporate demographic identification into tobacco control studies using social media. Using state of the art technologies from computer science, we will identify the demographic profiles of Twitter users discussing tobacco in California. Then, using proven data driven analytics tools, we will assess the tobacco-related risk profiles of different populations, including vulnerable minority and at-risk groups to help the tobacco control agenda in California better align with the needs of Californians. Further, we will demonstrate how our methods can be easily applied and scaled to answer specific questions about tobacco in California, by studying health perceptions around tobacco products and the potential spread of fake tobacco news on social media. Our proposed surveillance improvements will potentially make all tobacco control efforts in California more evidenced-based, nimble, and effective.
Anatoma Woodward 1859
Creators: name: Ortega, José Rafael
name: Gofas, Serge
Publisher: name: Zenodo
Year: 2019
Subjects: Biodiversity
Taxonomy
Animalia
Mollusca
Gastropoda
Lepetellida
Anatomidae
Anatoma

description: Genus Anatoma Woodward, 1859
TYPE SPECIES. — Scissurella crispata J. Fleming, 1828, by monotypy.
description: Published as part of Ortega, José Rafael & Gofas, Serge, 2019, The unknown bathyal of the Canaries: new species and new records of deep-sea Mollusca, pp. 513-551 in Zoosystema 41 (26) on page 518, DOI: 10.5252/zoosystema2019v41a26, http://zenodo.org/record/3726028
Reduced representations for efficient analysis of genomic data
Creators: name: Mahmud, Md Pavel
Publisher: name: No Publisher Supplied
Year: 2014

description: Since the genomics era has started in the ’&0s, microarray technologies have been extensively used for biological applications such as gene expression profiling, copy number variation (CNV) or Single Neucleotide Polymorphism (SNP) detection. To analyze microarray data, numerous statistical and algorithmic techniques have been developed over the last two decades; specially, for detecting CNV from array comparative genomic hybridization (arrayCGH) data, Hidden Markov Models (HMMs) have been successfully used. Still, due to computational reasons, the benefits of using Bayesian HMMs have been overlooked, and their use has been, at best, minimal in practice. The large demand for computational resources has also affected the analysis of high throughput sequencing (HTS) data, which, over the last few years, has started to revolutionize the field of computational biology. For example, the most sensitive tools for mapping HTS data to reference genomes are generally ignored in favor of fast, less accurate ones.    In this dissertation, we strive for reduced representations of biological data which enable us to perform efficient computations on large datasets. Since biological datasets often contain repetitive, sometimes redundant, elements, it is a natural idea to identify groups of similar elements and directly perform computations on these groups. Usually,the relevant type of similarity is specific to the type of data and application in hand.    Specifically, we make the following four contributions in this thesis. First, we show that, by exploiting repetition in discrete sequences, Markov Chain Monte Carlo (MCMC) simulations of Bayesian HMM can be accelerated, which can then be applied to the DNA segmentation problem [1]. Second, in case of Gaussian observations representing copy number ratio data, we show that, through precomputing similar, contiguous observations into blocks, MCMC for Bayesian HMM can be well-approximated [2].  Third, by representing sequences to multi-dimensional vectors, we introduce a nearest neighbor based novel technique for mapping HTS data to reference genome [3]. Finally, we present a highly efficient clustering approach for HTS data, which allows us to speed-up computationally demanding, sensitive tools for mapping HTS data [4].
Genetic relationship between impulsivity and nicotine abuse
Creators: name: University Of California Office Of The President
Publisher: name: University of California Office of the President
publisherIdentifier: https://ror.org/00dmfq477
publisherIdentifierScheme: ROR
Year: 2024

description: Impulsivity has been defined as “actions which are poorly conceived, prematurely expressed, unduly risky or inappropriate to the situation, and that often result in undesirable consequences”. Impulsivity is a major risk factor for smoking. In particular, impulsivity influences both the decision to begin smoking and the inability to quit. We are examining the genetic factors that cause some people to be more impulsive than others. By understanding these individual differences, we will be able to better understand why some individuals are at greater risk to begin smoking and will have more trouble quitting. Such information will allow prevention and cessation treatments to be tailored to individual differences, including individual genetic differences. We will collect the largest sample size ever used to address this topic. We will then explore these data using cutting edge techniques that will allow us to identify specific genes that confer risk for impulsivity and will also allow us to understand the role of impulsivity in smoking, other forms of substance abuse, and other consequences of impulsivity such as attention deficit hyperactivity disorder (ADHD) and obesity.
The relationship between protein structural characteristics and temperature optimum for activity of the mercuric reductase from two species of bacteroidetes
Creators: name: Manavi, Bahram
Publisher: name: No Publisher Supplied
Year: 2014

description: During the past five decades, mercury has gained increased interest due to its toxicity to human and environmental health. Therefore, mercury detoxification, whereby the mercuric reductase (MR), a homodimer of MerA (Figure 3 10), converts Hg2+ to Hg0, is an important activity. merA, the gene encoding MerA, has been found in diverse Archaea and Bacteria [1], but it is not well known in the Bacteroidetes, a large phylum in the bacterial domain that is widely distributed in many environments. The goal of this study was to identify protein structural characteristics that relate to MerA temperature optimum for activity in two species of the phylum Bacteroidetes: one a thermophile, Rhodothermus marinus, and the other a psychrophile, Flavobacterium. sp. SOK62. The standard MerA assay [2] was optimized by adjusting pH, selecting the reducing substrates (NADH/NADPH) and the type and concentration of thiol agent. Using the optimized assay, I found that the optimum temperature for MerA of R. marinus was at 65-&0˚C (activity range from 30 to 90 ºC) and for the psychrophilic MerA (strain SOK62) was at 50-55 ˚C (range from 10 to 90 ºC). Homology modeling (Figure 3 &) of the psychrophilic and thermophilic MerA (homology to a proteobacterial MerA from Pseudomonas aeruginosa PAT) showed that the psychrophile’s MerA (SOK62) has more α-helix and less β-sheet secondary structure than the thermophile’s MerA (R. marinus), which is shown in Table 3 5. MerA of SOK62 has more polar residues and less hydrophobic residues, suggesting adaptation to activity at lower temperatures [3]than MerA of R. marinus. In contrast, the psychrophile’s MerA has a larger number of aromatic residues than the R. marinus enzyme, contradicting the expectation of a lower number of bulky residues in a psychrophilic protein. These experiments test the hypothesis that because MerA originated among thermophiles in geothermal environments [4], the MerA from a psychrophilic bacterium has a thermophilic enzyme activity optimum and structural adaptations facilitating activity at low temperatures. This study contributes to our understanding of the natural history of microbial mercury detoxification.
Redefining KRAS dependency as a stress-inducible state
Creators: name: University Of California Office Of The President
Publisher: name: University of California Office of the President
publisherIdentifier: https://ror.org/00dmfq477
publisherIdentifierScheme: ROR
Year: 2024

description: While smoking is well-known as a contributor to more than 80% of lung cancer deaths, it is also one of the most important risk factors for pancreatic cancer, a disease characterized by a dismal 5-year survival rate of Even though “oncogenic KRAS” is required for the formation of 25% of lung cancers and 95% of pancreatic ductal adenocarcinoma cases, strategies to target KRAS have not met with clinical success. We propose to develop new therapeutic options for this subset by identifying how and why certain tumors remain “addicted” to KRAS during tumor progression. By understanding the biology underlying the aggressive nature of these tumors, we will be able to identify new strategies to target their unique susceptibilities. In particular, we recently discovered that expression of integrin alpha-v beta-3 predicts which cancer cells cannot survive without KRAS. We think that this is because integrin alpha-v beta-3 can recruit KRAS into signal-generating clusters that provide cells with several important ways to survive within the inhospitable tumor microenvironment.

 In order to translate these cell biological findings into clinical impact, we need to understand what factors influence the expression of integrin alpha-v beta-3, and to define how KRAS functions differently when integrin alpha-v beta-3 is present. We propose that answering these key questions will reveal unique vulnerabilities, and thus therapeutic opportunities, for a class of lung and pancreatic cancers that harbor KRAS mutations. If successful, our project will provide a preclinical rationale for developing new therapeutic strategies for these smoking-related cancers with a devastating survival rate.
Salina yoshikawai Yosii 1961
Creators: name: Jantarit, Sopark
name: Bedos, Anne
name: Deharveng, Louis
Publisher: name: Zenodo
Year: 2016
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Entognatha
Collembola
Paronellidae
Salina
Salina yoshikawai

description: 168. Salina yoshikawai Yosii, 1961 *
Source: Yosii (1961), Deharveng (1986), Deharveng et al. (1989), Bedos (1994), Rojanavongse et al. (unpublished report). Type deposition: MHNG.
Distribution in Thailand. Chiang Mai (N). Habitat: not given.
Distribution outside Thailand. Only known from Thailand (Doi Inthanon).
description: Published as part of Jantarit, Sopark, Bedos, Anne & Deharveng, Louis, 2016, An annotated checklist of the Collembolan fauna of Thailand, pp. 301-360 in Zootaxa 4169 (2) on page 343, DOI: 10.11646/zootaxa.4169.2.4, http://zenodo.org/record/265801
Biophysics and stochastic processes in molecular evolution
Creators: name: Manhart, Michael
Publisher: name: No Publisher Supplied
Year: 2014

description: Evolution is the defining feature of living matter.  It occurs most fundamentally on the scale of biomolecules such as DNA and proteins, which carry out all the processes of cells.  How do the physical properties of these molecules shape the course of evolution?  We address this question using a synthesis of biophysical models, theoretical tools from stochastic processes, and high-throughput data.  We first review some basic features of population and evolutionary dynamics, focusing especially on fitness landscapes and how they determine accessible pathways of evolution.  We then derive a universal scaling law describing time reversibility and steady state of monomorphic populations on arbitrary fitness landscapes.  We use this result to study the evolution of transcription factor (TF) binding sites using high-throughput data on TF-DNA interactions and genome-wide site locations.  We find that binding sites for a given TF appear to be subjected to universal selection pressures, independent of the properties of their corresponding genes, and their binding energy-dependent fitness is consistent with a simple functional form inspired by a thermodynamic model.  We next consider the properties of evolutionary pathways.  We develop a general approach for calculating statistical properties of the path ensemble in a stochastic process.  We first demonstrate this approach on a series of simple examples, including evolution on a neutral network and two reaction rate problems.  We then apply these techniques to a model of how proteins evolve new binding interactions while maintaining folding stability.  In particular we show how the structural coupling of protein folding and binding results in protein traits emerging as evolutionary "spandrels'': proteins can evolve strong binding interactions that confer no intrinsic fitness advantage but merely serve to stabilize the protein if misfolding is deleterious.  These observations may explain the abundance of apparently nonfunctional interactions among proteins observed in high-throughput assays.  When there are distinct selection pressures on both folding and binding, evolutionary paths of proteins can be tightly constrained so that folding stability is first gained and then partially lost as the new binding function is developed.  This suggests the evolution of many natural proteins is highly predictable at the level of biophysical traits.
Evolution of single particle strengths in tin isotopes and impacts on neutron capture
Creators: name: Manning, Brett Montgomery
Publisher: name: No Publisher Supplied
Year: 2014

description: Atomic nuclei with a few nucleons beyond shell closures are important in understanding the evolution of single-particle structure, which is critical to the benchmarking of nuclear models. With radioactive ion beams, studies near the double closed shell nucleus 132Sn have been made possible. While the single-neutron states in 133Sn with N = 83 and 131Sn with N = 81 have recently been verified to be highly pure, it is important to study further from the N = 82 neutron shell closure.    Level energies and spectroscopic information for neutron-rich nuclei also provide important input for the rapid neutron capture r-process nucleosynthesis calculations. Specifically, it is important to know the location and strength of single-neutron states with orbital angular momentum l= 1 when calculating neutron-capture rates. Surman and collaborators have performed sensitivity studies to show that varying neutron-capture rates can significantly alter final r-process abundances. However, there are many nuclei important to the r-process that cannot be studied. Extending studies to more neutron-rich nuclei will help constrain the nuclear shell model in extrapolating to nuclei even further from stability.    The (d, p) neutron transfer reaction has been measured in inverse kinematics with radioactive ion beams of 126Sn and 128Sn and a stable beam of 124Sn, all in inverse-kinematics at the Holifield Radioactive Ion Beam Facility at Oak Ridge National Laboratory, utilizing the SuperORRUBA (Oak Ridge Rutgers University  Barrel Array) of silicon detectors. The present work is combined with previous studies to complete the set of (d, p) studies on even mass tin isotopes from doubly-magic 132Sn to stable 124Sn and the systematics of l = 1 and l = 3 strengths. The results of the (d, p) study are used to map the fragmentation of single-neutron strengths in N ≤ 82 tin isotopes and to calculate the direct-semidirect neutron capture on these even mass tin isotopes that are important for the astrophysical r-process.
Satondella danieli Segers, Swinnen & Abreu 2009
Creators: name: Ortega, José Rafael
name: Gofas, Serge
Publisher: name: Zenodo
Year: 2019
Subjects: Biodiversity
Taxonomy
Animalia
Mollusca
Gastropoda
Lepetellida
Scissurellidae
Satondella
Satondella danieli

description: Satondella danieli Segers, Swinnen & Abreu, 2009
(Fig. 2I, J)
MATERIAL EXAMINED. — 3 sh., DW133; 23 sh., DW130.
REMARK
Originally described from Madeira, new to Spanish waters.
description: Published as part of Ortega, José Rafael & Gofas, Serge, 2019, The unknown bathyal of the Canaries: new species and new records of deep-sea Mollusca, pp. 513-551 in Zoosystema 41 (26) on page 518, DOI: 10.5252/zoosystema2019v41a26, http://zenodo.org/record/3726028
Marijuana Dispensaries and Adolescents' Use of Marijuana and Tobacco
Creators: name: University Of California Office Of The President
Publisher: name: University of California Office of the President
publisherIdentifier: https://ror.org/00dmfq477
publisherIdentifierScheme: ROR
Year: 2024

description: Marijuana use in adolescents is common. In recent years, the proportion of adolescents who use marijuana is even higher than the proportion that smoke cigarettes. Using marijuana early and regularly in adolescence may cause a wide range of negative physical and mental health consequences, such as substance use disorder, paranoia and psychosis, impaired brain development, and motor vehicle accidents. It is also linked to lower school performance, school dropout, and lower earnings in the future. Preventing experimentation of marijuana and regular use of marijuana among adolescents has become a public health priority.

 California has the longest history of medical marijuana legalization and the largest number of registered patients in the U.S. On November 8, 2016, California voters further passed Proposition 64 to join the other 8 jurisdictions that legalize marijuana for recreational use purposes. Although both medical and recreational marijuana laws have age limits to prohibit minors’ purchase, there are concerns that adolescents may be influenced by the presence of marijuana dispensaries in neighborhoods. Marijuana dispensaries may increase adolescents’ access to marijuana, reduce harm perceptions, make marijuana use more acceptable, and expose adolescents to novel products and marketing tactics. Because many adolescents use both marijuana and tobacco, marijuana dispensaries may also influence adolescents’ tobacco use behaviors and concurrent use of both marijuana and tobacco.

 Despite the rapid change in the policy landscape, there is limited evidence about the relationships between marijuana dispensaries in neighborhood and adolescents’ behaviors and health. The lack of evidence hindered evidence-based policymaking. This proposed research therefore aims to use and collect California-specific data to understand whether and how marijuana dispensaries in school neighborhoods are correlated with adolescents’ marijuana and tobacco use behaviors and perceptions. Specifically, we propose to construct a comprehensive database on marijuana dispensaries using innovative methods, providing information on their compliance with law, location and density, price of marijuana products, variety of marijuana products, and advertising and promotions. Merging this database with the large ongoing California school surveys, we will examine whether adolescents’ marijuana and tobacco use is associated with the proximity, density of marijuana dispensaries, price and product varieties of marijuana products, and exposure to marijuana-related advertising and promotions.

 We expect the findings of this research provide evidence-based guidance regarding marijuana regulations strategies, including licensing, zoning ordinances, taxation, and policies to limit product type and marketing.
Californians Talk HIV Using Social Media to Get Steps Ahead
Creators: name: University Of California Office Of The President
Publisher: name: University of California Office of the President
publisherIdentifier: https://ror.org/00dmfq477
publisherIdentifierScheme: ROR
Year: 2024

description: The goal of this study is to extract actionable intelligence from public social media comments to support evidence-based decision making and stay one step ahead of HIV. An explosion of surveillance tools fueled by social media is changing public health. Despite this marked change, HIV investigators have been slow to adapt. Surveys or in-depth interviews continue to be the primary sources of knowledge. These sources, however, are subject to well-known limitations, such as delays in data availability and intermittent coverage, while scaling up their use is not feasible given substantial associated costs. Work on new supplements for traditional surveillance must begin now. Our team of bioinformatics, computer science, and HIV experts will discover the needs of California�s at-risk and HIV-infected community by mining their abundant and ongoing public conversations on social media (e.g., Twitter, Reddit, etc.). We hypothesize that this data (or need) driven surveillance will result in groundbreaking insights to address priority issues in HIV prevention and control. Aim 1. Develop a comprehensive, continuously updated database of public HIV-related social media posts (e.g., Twitter, Reddit, Google, etc.), including platforms targeting at-risk groups (e.g., sex forums), filtered to include California residents. Aim 2. Develop automated, scalable social media content analysis tools to discover the HIV related health needs of Californians. Aim 3. Develop tools to infer the demographic characteristics of social media account holders to contextualize the HIV related needs of specific demographic groups in California. We will demonstrate the value of these aims through the following projects. Project 1: Exploring the Geographic Distribution of HIV Social Media for �Hot Spot� Detection. Project 2: Identifying and Combatting the Spread of HIV Misinformation. Project 3: Evaluating HIV Testing and PrEP Media Campaigns to Improve Campaign Strategies. Project 4: Identifying HIV Risk Networks for Targeted Interventions. Project 5: Discovering HIV Issues of Concern to at-risk Communities. We will disseminate our findings to spur action through our partnerships with several health agencies and community based organizations across California, such as the Los Angeles, San Diego, and San Francisco health departments. Leaders will be able to discover community needs, plan response strategies, and impact HIV outcomes sooner and far more frequently than currently possible using our real-time social media data. We will make our analytic tools public via CaliforniansTalkHIV.org so HIV prevention and control across the state is made more responsive, more effective, and one step ahead
Analytical evaluation of inorganic polymer materials for infrastructure repair
Creators: name: Mantha, Aditya
Publisher: name: No Publisher Supplied
Year: 2014

description: This thesis is an investigation of the effectiveness of repair of reinforced con-  crete structures with inorganic polymer compared to organic epoxy system  using finite element analysis. A finite element based approach was adopted  to analyze the load deformation response and the stress strain behavior of  the repaired structure at the notch location due to loading. For this study  ANSYS 14.5 analysis program was used as a tool to study the numerical  based response of the structure. The finite element results obtained were  validated by comparing the result to experimental investigations made in  previous studies. A finite element model was developed to include the bond  slip interaction at the steel concrete interface and the analytical results were  compared to the experimental values. Detailed descriptions for the choice of  elements, material data input and the solution controls input in the program  are provided in this study. The results from this study showed that the load  deflection response of beam repaired with inorganic polymer is similar to  the control specimens. The study also showed the effect of bond slip at the  interface between steel and concrete on the load deflection response. The  conclusions and recommendations of this study are mentioned for further  investigation related to this study.
Chronic Electronic Cigarette Use and Accelerated Skeletal Muscle Aging
Creators: name: University Of California Office Of The President
Publisher: name: University of California Office of the President
publisherIdentifier: https://ror.org/00dmfq477
publisherIdentifierScheme: ROR
Year: 2024

description: As the use of electronic cigarettes becomes more and more prevalent, there is a need to rigorously test the long-term effects on metabolism, safety and overall health. We are asking the question of whether the continued use of electronic cigarettes will accelerate muscle aging. This could lead to weaker, smaller muscles that are not able to recover from injury due to strenuous use. Currently, how skeletal muscle response to chronic nicotine administration is controversial and incompletely understood. This is especially true when consumed as an e-cigarette “vapor” mixed with other reagents and artificial flavorings. Initial studies in our laboratory showed that mice that inhaled e-cigarette vapor daily for several months do not run well on a treadmill, have smaller muscles and a changed muscle metabolism. Smaller and weaker muscles are key signs of aging (referred to as sarcopenia) and reflect the inability to maintain proper connections between the nerves and muscle fibers. We plan to measure exercise performance, muscle strength and mass and characterize the nerve-muscle connections in mice that inhale daily periods of electronic cigarette vapor over many months. In addition the extent of muscle and nerve damage and the ability to recover will be measured following a form of muscle over-use damage in which muscle is stimulated to contract while it is full extended.
A class of input/output random systems
Creators: name: Marcondes De Freitas, Michael
Publisher: name: No Publisher Supplied
Year: 2014

description: We expand upon the theory of random dynamical systems (RDS) of L. Arnold, developing a theory of random dynamical systems with inputs and outputs (RDSIO)—an abstract framework for the treatment of noise-driven systems subject to stochastic inputs and yielding random outputs. This development allows for one to study both autonomous RDS and proper RDSIO as the feedback interconnection of smaller random input/output modules. As “proof of concept,” we prove a small-gain theorem for autonomous RDS which can be realized as the feedback interconnection of monotone RDSI with monotone or anti-monotone outputs. This result gives sufficient conditions for autonomous RDS to possess unique, globally attracting equilibria—the RDS in question need not be itself monotone.
Salina yosii Salmon 1964
Creators: name: Jantarit, Sopark
name: Bedos, Anne
name: Deharveng, Louis
Publisher: name: Zenodo
Year: 2016
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Entognatha
Collembola
Paronellidae
Salina
Salina yosii

description: 169. Salina yosii Salmon, 1964 *
Name in source. Salina maculata in Yosii (1961), in Deharveng (1986), in Deharveng et al. (1989) and in Rojanavongse et al. (unpublished report). Source: Yosii (1961), Deharveng (1986), Deharveng et al. (1989), Bedos (1994), Rojanavongse et al. (unpublished report). Type deposition: MHNG.
Distribution in Thailand. Chiang Mai (N). Habitat: not given.
Distribution outside Thailand. Only known from Thailand (Doi Inthanon).
Remark. New name for Salina maculata Yosii (1961) (preoccupied) proposed by Salmon (1964).
description: Published as part of Jantarit, Sopark, Bedos, Anne & Deharveng, Louis, 2016, An annotated checklist of the Collembolan fauna of Thailand, pp. 301-360 in Zootaxa 4169 (2) on page 343, DOI: 10.11646/zootaxa.4169.2.4, http://zenodo.org/record/265801
Modeling of circadian-immune interactions
Creators: name: Mavroudis, Panteleimon D.
Publisher: name: No Publisher Supplied
Year: 2014

description: Dysregulation of the inflammatory response is a critical component of many clinically challenging disorders such as sepsis. Inflammation is a biological process designed to lead to healing and recovery, ultimately restoring homeostasis; however, the failure to fully achieve those beneficial results can leave a patient in a dangerous persistent inflammatory state. One of the primary challenges in developing novel therapies in this area is that inflammation is comprised of a complex network of interacting pathways. Here, we discuss our approaches towards addressing this problem through computational systems biology, with a particular focus on how the presence of biological rhythms and importantly circadian (~24hr) and the disruption of these rhythms may be applied in a translational context. By leveraging the information content embedded in physiologic variability, and its loss under acute inflammatory response we aim to gain insight into the underlying physiology.  Heart rate variability (HRV) has been studied as a potential prognostic marker in inflammation-linked diseases. We modeled the interactions between human endotoxemia mediators and the autonomic nervous system in order to understand the loss of HRV in presence of stress, allowing for the rationalization of experimental observations in the framework of a quantitative model. Furthermore, by modeling the flow of circadian information from the environmental light/dark cycles to the systemic cortisol level and ultimately to the single immune cell level, we identified critical dynamics that confer robust synchronization and rhythmicity both of which are characteristics associated with well-being. Lastly, by considering the disparate role of cortisol as an immunopermissive and immunosuppressive agent, we elucidated the dynamics leading to a time of day dependence of body’s inflammatory response. These results denote the critical importance of physiological rhythms in homeostasis and stress, and elucidate the potential to derive critical information by the analysis of variability and its source both at the systemic and at the single cell level.
The temporality of ties
Creators: name: McCarthy, John E.
Publisher: name: No Publisher Supplied
Year: 2014

description: It is often seen as axiomatic in the social capital literature that relationships require ongoing maintenance to remain valuable. As a result, the vast majority of social network theory and research has only considered relationships that are in some way active. Seldom considered are the implications of dormant, unmaintained ties that have remained dormant—which I define as a prolonged state of suspended communication between two parties who were at one point in touch. My aim in this dissertation is to place social network scholarship on a stronger empirical and theoretical footing by examining the interaction of active and dormant ties within organizations and in social life generally. I present evidence that challenges the standard assumption that dormant ties, during dormancy, are irrelevant and can be safely ignored.
Semantic quietism
Creators: name: Mena-Gallardo, Ricardo
Publisher: name: No Publisher Supplied
Year: 2014

description: In Semantic Quietism, I defend and develop a view according to which only semantic theories that are incomplete in important respects can be compatible with the phenomenon of vagueness. I defend this view by arguing that any semantic theory that attempts to capture every robust semantic fact is incompatible with this phenomenon. Then I show how a semantic theory that is incomplete in the right way can have this kind of compatibility. I call this view Semantic Quietism. Finally, I show how this view can be used to solve some problems had by theories of linguistic communication.
Anatoma aspera
Creators: name: Ortega, José Rafael
name: Gofas, Serge
Publisher: name: Zenodo
Year: 2019
Subjects: Biodiversity
Taxonomy
Animalia
Mollusca
Gastropoda
Lepetellida
Anatomidae
Anatoma
Anatoma aspera

description: Anatoma aspera (Philippi, 1844)
MATERIAL EXAMINED. — 10 sh., DW120; 8 sh., DW126; 80 sh., DW130; 5 spm.; 129 sh., DW133.
description: Published as part of Ortega, José Rafael & Gofas, Serge, 2019, The unknown bathyal of the Canaries: new species and new records of deep-sea Mollusca, pp. 513-551 in Zoosystema 41 (26) on page 518, DOI: 10.5252/zoosystema2019v41a26, http://zenodo.org/record/3726028
Salina
Creators: name: Jantarit, Sopark
name: Bedos, Anne
name: Deharveng, Louis
Publisher: name: Zenodo
Year: 2016
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Entognatha
Collembola
Paronellidae
Salina

description: Salina spp.*
Source: Takeda (1981), Bedos (1994), Janssens (1999), Wiwatwitaya & Takeda (2005). Distribution in Thailand. Chiang Mai (N), Khon Kaen, Nakhon Ratchasima (NE), Phuket (P). Habitat: soil s.l. in mixed dry deciduous forest at 800 m. in Khon Kaen province (Takeda 1981) and in dry evergreen lowland forest in Nakhon Ratchasima province (Wiwatwitaya & Takeda 2005); litter near sea level in Phuket.
description: Published as part of Jantarit, Sopark, Bedos, Anne & Deharveng, Louis, 2016, An annotated checklist of the Collembolan fauna of Thailand, pp. 301-360 in Zootaxa 4169 (2) on page 343, DOI: 10.11646/zootaxa.4169.2.4, http://zenodo.org/record/265801
Simulation and optimization of the GaN MOCVD process
Creators: name: Meng, Jiandong
Publisher: name: No Publisher Supplied
Year: 2014

description: A detailed mathematical model for the growth of gallium nitride (GaN) in metalorganic  chemical vapor deposition (MOCVD) process is developed, and the complete chemical  mechanism is introduced, which has 17 gas phase and 23 surface species participating  in 17 gas phase and 52 surface reactions. Based on an experimental study on the flow  and thermal transport processes in the system, and available experimental data in the  literature, validation study is conducted to ensure its accuracy. After that, the entire  model is applied to perform steady state numerical simulation of the GaN MOCVD process  in both 2D impinging reactor and 3D rotating disk reactor. The flow, temperature  and concentration profiles are predicted, and the dependence of the growth rate and  uniformity of the deposited layers on operating conditions, such as reactor operating  pressure, susceptor temperature, inlet velocity, rotational speed, and concentration ratio  of the precursors, is investigated to gain greater insight into the reactor performance  and characteristics. The transient behavior of the GaN deposition process is numerically  investigated. The 2D impinging reactor is considered to examine the time-dependent  transport in the MOCVD process, including the steady-state deposition process, and  the system start-up and shut-down. The temperature field and the deposition rate are  studied as functions of time, as well as the precursor mass fraction at certain times.  This work also provides inputs on the effects of changing operating conditions and the duration of starting and shut down effects. Two design variables, inlet velocity and inlet  precursor concentration ratio, which have a significant effect on the deposition rate and  uniformity of the film are identified. Inlet precursor concentration ratio is defined as the  ratio of the volume flow rate of ammonia to the volume flow rate of trimethylgallium.  Response surfaces for deposition rate and uniformity as a function of inlet velocity and  inlet precursor concentration are developed by Compromise Response Surface Method  (CRSM). The response surfaces are used to generate the Pareto frontier for the conflicting  objectives of optimal deposition rate and uniformity. The trade-off between  deposition rate and uniformity is captured by the Pareto frontier.
Advanced insecurity
Creators: name: Mescher, Kris
Publisher: name: No Publisher Supplied
Year: 2014

description: Research on body shame has predominantly focused on women (Moradi &  Huang, 2008). However, men are increasingly viewing muscularity as an important  feature of masculinity (Kimmel & Mahalik, 2004; Wienke, 1998). My dissertation  reviews the literature on male body image and its connection to masculinity; establishes  how body shame may constitute a chronic masculinity threat and explores how and why  men may react to acute masculinity threats with sexual aggression. Findings from prior  research suggest that men high on body shame are more likely to sexually aggress  (Mescher & Rudman, 2014) – a unique finding which has implications for rape theories  and precarious manhood theory (Vandello, Bosson, Cohen, Burnaford, & Weaver, 2008).  This dissertation tested the Body Shame and Sexual Aggression Model (BSSAM) in two  experiments. Experiment 1 manipulated men’s exposure to idealized body media to test  proposed relationships between media consumption, body dissatisfaction, body shame  and upward social comparison, and found support for the path from body dissatisfaction  to body shame, regardless of media exposure or comparison. Experiment 2 was designed  to replicate and extend results from Mescher and Rudman (2014), in which men high on  body shame responded to a female confederate’s rejection of them as a dating partner  with increased sexual aggression; previous findings did not replicate, but it is speculated that this may be partially due to the inclusion of a novel measure of men’s beliefs about  having been romantically victimized by women. The pilot test designed to validate this  measure is also discussed.
Mikro Waren 1996
Creators: name: Ortega, José Rafael
name: Gofas, Serge
Publisher: name: Zenodo
Year: 2019
Subjects: Biodiversity
Taxonomy
Animalia
Mollusca
Gastropoda
Trochida
Skeneidae
Mikro

description: Genus Mikro Warén, 1996
TYPE SPECIES. — Mikro globulus Warén, 1996, by original designation.
description: Published as part of Ortega, José Rafael & Gofas, Serge, 2019, The unknown bathyal of the Canaries: new species and new records of deep-sea Mollusca, pp. 513-551 in Zoosystema 41 (26) on page 520, DOI: 10.5252/zoosystema2019v41a26, http://zenodo.org/record/3726028
Next-Generation Integrase Inhibitors
Creators: name: University Of California Office Of The President
Publisher: name: University of California Office of the President
publisherIdentifier: https://ror.org/00dmfq477
publisherIdentifierScheme: ROR
Year: 2024

description: Human Immunodeficiency Virus (HIV) infections continue to pose a major health threat worldwide. Despite the success of highly active antiretroviral therapy (HAART), there is a need to develop new drugs to treat this disease. One of the most challenging HIV targets is HIV integrase (HIV-1 IN) an enzyme that is crucial to the persistence of HIV infections. The HIV-1 IN enzyme requires the element magnesium to properly function, which presents both challenges and opportunities for drug discovery. This proposal seeks to determine the best ways to take advantage of the magnesium-dependence of this enzyme in the development of new drugs. This research program will take advantage of the U.C. San Diego Center for AIDS Research (CFAR), which will provide necessary resources and expertise to successfully complete these studies.
Lexical insertion in second language learners and Spanish heritage speakers: The role of vocabulary threshold
Creators: name: Montoya, Angelica
Publisher: name: No Publisher Supplied
Year: 2014

description: The phenomenon of lexical access along with the different lexical selection mechanisms called upon for bilingual speech production have been investigated within the fields of bilingualism, second language acquisition (SLA), and language contact among different types of bilinguals (Costa and Santesteban, 2004; De Bot, 1992; Green, 1986, 1998; Levelt, 1989, 2001; Myers-Scotton and Jake, 1995; Poulisse and Bongaerts, 1994; Roelofs, 1998; among others). However, a gap exists in relation to how two languages compete in the bilingual mind of a select group of bilinguals considered to have reached a certain threshold of vocabulary knowledge and how the competition for language selection evidences lexical retrieval and timing costs.                This dissertation focuses on the lexical insertion of English lexical items in oral narratives of second language (L2) learners of Spanish and Spanish heritage speakers who have reached a certain threshold of vocabulary knowledge; the main objective lies in the assessment of lexical retrieval and timing costs involved in the completion of a picture naming task. This study shows that both groups insert more English lexical items when trying to access low frequency words in Spanish, regardless of having reached a certain threshold of vocabulary knowledge. The study employs a quantitative approach to analyze the data. Fifty participants (16 Intermediate learners, 11 Advanced learners and 23 Spanish heritage speakers) took part in the study, which employed several protocols: a vocabulary test, two story retelling tasks, and a picture naming task.                                                       The results show that L2 learners and Spanish heritage speakers tend to insert more English lexical items when trying to access low frequency vocabulary regardless of having prior knowledge of the vocabulary. This suggests that once bilingual speakers have reached a certain threshold of vocabulary knowledge, their lexical insertion practices are similar. A one-way between subjects ANOVA reveals no significant difference for the lexical insertion of a noun, F (2, 47) = .525, p = .595. The study also indicates the insertion of English nouns as the most frequent type of lexical insertion. Furthermore, in terms of timing the study finds that lexical retrieval is more costly for L2 learners in comparison to the Spanish heritage speakers.
Owl platform
Creators: name: Moore II, Robert S.
Publisher: name: No Publisher Supplied
Year: 2014

description: As wireless sensor networks (WSNs) become larger and more widespread, new systems are required  to manage them more effectively. Owl Platform is a multi-layered architecture which attempts  to provide a simple, efficient infrastructure for managing data generated by WSNs. A proof of  concept implementation is provided as a set of network protocols, multi-language libraries, prototype  services, and applications supporting research and commercial activities. The motivation, design,  and evaluation of this system are explored and compared to past and current alternatives. Such a  system is capable of scaling to tens of thousands of devices, supported by off-the-shelf hardware.
Growth of HIV-1 Transmission Clusters in LA County
Creators: name: University Of California Office Of The President
Publisher: name: University of California Office of the President
publisherIdentifier: https://ror.org/00dmfq477
publisherIdentifierScheme: ROR
Year: 2024

description: The rapid evolution that allows HIV to escape the immune system and acquire resistance to anti-retroviral drugs can also be used to help track its transmission. HIV evolves so rapidly that the viral genetic sequence within an infected person is almost always unique to that person. However, when two people are infected with extremely similar viral sequences (less than 1.5% divergent), it is likely that these two people are connected in a recent transmission cluster. The faster a transmission cluster has grown, the more likely it is to produce future infections. Using genetic sequence information from over 10,000 HIV-infected persons in Los Angeles County, California, (who sequences were acquired by the Department of Public Health for drug resistance surveillance) we will construct a genetic network to represent that recent transmission of HIV. Using this network, we will find HIV transmission clusters that have grown disproportionately rapidly. Next, we will determine which type of computational approaches is best able to detect rapidly growing clusters. Then we will perform simulations over the transmission network to see if targeted intervention would have been able to disrupt these growing clusters. These findings will be of particular use for city, county, and state public health departments aiming to curb the spread of HIV.
Methods for robust calibration of traffic simulation models
Creators: name: Mudigonda, Sandeep
Publisher: name: No Publisher Supplied
Year: 2014

description: Well-calibrated traffic simulation model predictions can be highly valid if various conditions arising due to time-of-day, work zones, weather, etc. are appropriately accounted for during calibration. Calibration of traffic simulation models for various conditions requires larger datasets to capture the stochasticity. In this study we use datasets spanning large time periods to, especially, incorporate variability in traffic flow and speed. However, large datasets pose computational challenges. With the increase in number of stochastic factors, the numerical methods suffer from curse of dimensionality.   We propose a novel methodology to address the computational complexity in simulation model calibration under highly stochastic traffic conditions. This methodology is based on sparse grid stochastic collocation, which treats each stochastic factor as a different dimension and uses a limited number of points where simulation is performed. A computationally-efficient interpolant is constructed to generate the full distribution of the simulated output. We use real-world examples to calibrate for different times of day and conditions and show that proposed methodology is more efficient than traditional Monte Carlo-type sampling. We validate the model using a hold-out dataset and also show the drawback of using limited data for macroscopic simulation model calibration.  Modelers could often face situations with limited data in calibrating for a particular condition, often when using traffic sensor data. We augment the current data with other sources when sensor data is missing.   For calibrating microscopic traffic simulation models needing customized models augmenting the default modeling, require detailed site-specific data. In such cases same generic calibration methodology may not be applicable and specialized formulations are required. We propose the use of a simulation-based optimization (SBO) framework for calibration of toll plaza models that economizes on data requirements. The novelty of the SBO framework is that parameters corresponding to unavailable data can be used as calibration parameters. Using case studies the benefits of the SBO framework are demonstrated. Furthermore, we combine the sampling and interpolation using stochastic collocation with the SBO framework. Using this hybrid framework, we perform calibration to obtain distribution of output from the toll plaza model that closely follows the observed measures at the toll plaza.
Cyphoderopsis cavicola Jantarit, Satasook & Deharveng 2013
Creators: name: Jantarit, Sopark
name: Bedos, Anne
name: Deharveng, Louis
Publisher: name: Zenodo
Year: 2016
Subjects: Biodiversity
Taxonomy

description: 170. Cyphoderopsis cavicola Jantarit, Satasook & Deharveng, 2013
Name in source. Troglopedetes sp. in Deharveng & Bedos (1988). Source: Deharveng & Bedos (1988), Jantarit et al. (2013). Type deposition: PSU-NHM, MNHN.
Distribution in Thailand. Surat Thani (P). Habitat: cave.
Distribution outside Thailand. Only known from Thailand.
description: Published as part of Jantarit, Sopark, Bedos, Anne & Deharveng, Louis, 2016, An annotated checklist of the Collembolan fauna of Thailand, pp. 301-360 in Zootaxa 4169 (2) on page 344, DOI: 10.11646/zootaxa.4169.2.4, http://zenodo.org/record/265801