cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Examination of microstructural liquid phase behavior during heat treatment of doped-lead telluride thermoelectric materials
Creators: name: Langan, Sean McCoy
Publisher: name: No Publisher Supplied
Year: 2014

description: Thermoelectric materials offer a potentially valuable source of energy by converting a temperature gradient to electricity.  Recent progress in alloying, doping, and nanostructuring these materials has increased their figure of merit, bringing this technology closer to widespread use.  However, the costs associated with processing and questions about fatigue reliability during long-term use could slow the development process. Liquid phase microstructure shapes are critical for sintering; further understanding of these shapes could potentially be used to improve mechanical response and lower overall processing costs.  Here we review our progress with respect to the microstructure development of the material depending on heat treatment and composition.    Thermoelectric materials made up of a PbTe/Ag2Te system were produced by heat treatments aimed at producing a liquid phase in the material.  These samples were then examined through scanning electron microscopy, in an attempt to better understand the microstructure and track the liquid phase.    This study was met with mixed results.  While the process outlined does seem to produce faster sintering than undoped samples, full densification was not achieved.  Furthermore, though the silver telluride was identified in the sample through the use of backscattering detection and EDS, the desired accuracy in finding the liquid phase was not achieved.  However, the silver telluride was found to penetrate the grain boundaries, create secondary phases and form nano-precipitates, a development that is extremely promising as these features could all scatter phonons and raise the figure of merit of the material.
Politics of cultural proximity
Creators: name: Lee, Eunsung
Publisher: name: No Publisher Supplied
Year: 2014

description: This dissertation examines how the idea of cultural proximity is constructed in commercialized marriage and transnational family making among Vietnamese women and South Korean men.  Based on ethnographic work in Vietnam and South Korea, my dissertation theorizes cultural proximity in the context of regionalization among Asia-Pacific countries, ethnic identity formation, and social stratification in South Korea.  The dissertation argues that the construction of cultural proximity involves disciplinary politics.  I explore how the politics of cultural proximity is embedded in Korea’s multicultural policies that aim to socially and culturally assimilate migrant women and children of transnational families.  In addition, I analyze the everyday politics of cultural proximity articulated by Koreans who are involved in brokered marriages, cultural assimilation programs, and transnational family making.  This study highlights the new transnational formations of social, ideological, economic, and interpersonal relations in South Korea where Vietnamese wives negotiate patriarchal gender roles, ethnic identity, and social stratification.  The study extends the theory of cultural proximity to assess the multifaceted regionalization processes in the Asia-Pacific region.  It contributes to the study of race and ethnicity in the region by examining immigration, multicultural policies, and cultural assimilation programs in South Korea that are based on the hierarchy of Korean and non-Korean identities.  In addition, the study sheds new light on masculinity studies by arguing for more nuanced understandings of Korean men who are involved in unconventional marriage and family making.  My analysis of Vietnamese women’s rural-to-rural migration attests to the on-going gender scholarship that critiques women’s upward mobility via transnational marriage.  My study confirms that Vietnamese women struggle to find ways to empower themselves in the host country.  Lastly, my study of the role of international matchmaking agencies in Vietnamese women’s settlement processes suggests that both the South Korean and Vietnamese government ought to consider the promulgation and enforcement of laws related to matchmaking services that better protect the Vietnamese women.
A Randomized Controlled Trial of the Bruthas Project
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 HIV epidemic in the African American community is among the most urgent public health crises in the United States. African American men have been highly impacted by HIV, with reports showing disproportionate levels of HIV infection, HIV-related illnesses, and death rates due to AIDS. Several research studies indicate that many African American men who have sex with men and women do not identify themselves as gay or bisexual. They also may not perceive themselves at risk for HIV, undergo HIV testing, utilize HIV prevention services, or disclose their sexual behaviors to others. These men are sometimes referred to as “men on the down low (DL)” or “DL men.” This application seeks to test an HIV prevention and health promotion intervention designed specifically for African American men who have sex with men and women, using a randomized controlled trial design. We seek to compare an enhanced traditional HIV intervention that combines confidential HIV counseling and testing with a series of individualized sexual health promotion counseling sessions to the standard HIV counseling and testing experience. Enhanced counseling sessions will address (a) increasing comfort with one’s personal identity, (b) establishing positive relationships, and (c) building safer sex skills. We will evaluate this intervention by comparing it to a standard HIV counseling and testing program, assessing the risk behaviors of the participants at pre-intervention, post-intervention, and 3 month follow up. All phases of this work will be conducted through a collaboration between the California Prevention and Education Project (Oakland, CA), the Center for AIDS Prevention Studies (University of California, San Francisco), and members of the African American community. Findings from this project will be disseminated to local and national professional, community, and scientific networks.
Salina cingulata Handschin 1925
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 cingulata

description: 164. Salina cingulata (Handschin, 1925)
Source: Kim et al. (1999b), Hutacharen et al. (2007), Rojanavongse et al. (unpublished report). Distribution in Thailand. Sakon Nakhon (NE). Habitat: not given. Distribution outside Thailand. SE Asia.
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
Satondella Bandel 1998
Creators: name: Ortega, José Rafael
name: Gofas, Serge
Publisher: name: Zenodo
Year: 2019
Subjects: Biodiversity
Taxonomy
Animalia
Mollusca
Gastropoda
Lepetellida
Scissurellidae
Satondella

description: Genus Satondella Bandel, 1998
TYPE SPECIES. — Satondella minuta Bandel, 1998, 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 517, DOI: 10.5252/zoosystema2019v41a26, http://zenodo.org/record/3726028
Pesticide and Gene Interactions in Latina Farm Workers
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: Susceptibility to cancer in humans is a function of both environmental factors (including chemical exposures) and constitutional factors (including genetics). Previous studies have suggested, though not proven, that organochlorine (OC) pesticides (which include the now-banned DDT) increase breast cancer risk; additionally common variants of certain genes such as the BRCA genes and carcinogen metabolizing genes may increase breast cancer risk. It is then possible that the genetic make-up of a woman may predispose her to adverse effects from chemical exposures and increase her risk for developing breast cancer.

 We plan to assess breast cancer risk in a population of female Hispanics residing in rural central in California who have been heavily exposed to pesticides (including the OCs dieldrin, chlordane and heptachlor) by collecting detailed occupational histories, pesticide exposure information, and saliva (DNA) samples to test for variants in genes that may metabolize these pesticides. We plan to identify and analyze approximately 100 Hispanic females recently (2005-2006) diagnosed with breast cancer and 100 controls to evaluate the relationship between OC pesticide exposure, xenobiotic (i.e., a chemical which is found in a person, but which is not normally produced or expected to be present)-metabolizing genes (CYP1A1, CYP1A2, CYP1B1, GSTM1, GSTT1 and GSTP1), and their interaction on breast cancer risk. We will use a newly developed “Job Exposure Matrix” to assess current and historic pesticide use in the locations where these women have lived and worked. This will be used in the analysis to estimate lifetime exposure to OC pesticides.

 The project data is designed to determine, (1) if breast cancer risk is increased among women living and working in areas heavily exposed to OC pesticides, (2) whether variants in pesticide metabolizing genes increase breast cancer risk, and (3) if there is an interaction between OC exposure and common variants of carcinogen metabolizing genes on breast cancer risk. This study is very innovative in that it combines the resources of several agencies in California: the California Cancer Registry (CCR), the Survey Research Group (SRG), Fresno State University, the University of California, San Francisco and the Department of Pesticide Regulation (DPR) in conducting novel breast cancer research. In addition, we propose to use new techniques for identifying important gene by environmental interactions in breast cancer causation.
Salina grisescens 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 grisescens

description: 165. Salina grisescens 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
Fissurisepta Seguenza 1863
Creators: name: Ortega, José Rafael
name: Gofas, Serge
Publisher: name: Zenodo
Year: 2019
Subjects: Biodiversity
Taxonomy
Animalia
Mollusca
Gastropoda
Lepetellida
Fissurellidae
Fissurisepta

description: Genus Fissurisepta Seguenza, 1863
TYPE SPECIES. — Fissurisepta papillosa Seguenza, 1863, by subsequent 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 517, DOI: 10.5252/zoosystema2019v41a26, http://zenodo.org/record/3726028
Classification models for identifying skin sensitizers using in vitro alternatives to animal testing
Creators: name: Lee, Serom
Publisher: name: No Publisher Supplied
Year: 2014

description: Allergic contact dermatitis (ACD) is an inflammatory disease that occurs when chemicals known as sensitizers come in contact with the skin.  Recent European legislation prohibits animal based screens of cosmetic ingredients. Current alternatives to animal testing are limited by their poor ability to identify a subset of non-innate contact sensitizers known as pre-/pro-haptens which require transformation in the skin. Furthermore, these approaches only evaluate a single cell type with 1 or 2 biomarkers.   To address this, we performed an initial study using RealSkin, a full thickness skin equivalent, in co-culture with MUTZ-3 derived Langerhan’s cells (MUTZ-LCs). This co-culture was treated with model pro-/pro-haptens from an irritant control and multiple cellular metrics were evaluated. A novel feature selection method was developed using a support vector machine (SVM) to rank the margin distances of each metric and identify biomarkers of sensitization. A panel (IL-12, IL-9, VEGF, IFN-γ) was identified by SVM and predicted sensitizers with over 90% accuracy. Although promising, this method is costly and resource intensive. Thus, we designed a more economic, high throughput screening approach to metabolize pro-hapten sensitizers.   MUTZ-LCs were cultured alone and in parallel with a co-culture of HaCaT keratinocytes, dermal fibroblasts, and MUTZ-LCs. Both cultures were treated with a panel of pre- and pro-hapten sensitizers and non-sensitizers. The secretome of both cultures were evaluated for 2& cytokines, chemokines, and growth factors. Feature selection by SVM identified predictive signatures of sensitization for each culture type. These cellular metrics was used to develop a classification model of sensitization. The MUTZ-LCs classification model was 83.3% accurate at identifying pro-hapten sensitizers using MIP-1β, MIP-1α, RANTES, IL-8, and IL-9. The co-culture classification model was 89.6% accurate at identifying pro-hapten sensitizers using a panel of IL-8, GM-CSF, and RANTES.  The presence of the keratinocytes and fibroblasts enhanced the identification of pre- and pro-haptens to sensitize the MUTZ-LCs. This approach also preserves the cross-talk signals between all three skin cell types. Thus, the co-culture of HaCaT keratinocytes, dermal fibroblasts, and MUTZ-LCs is an attractive, high throughput in vitro alternative to animal testing for the identification of pre- and pro-hapten skin sensitizers.
Quality of Mammography Facilities Serving Vulnerable Women
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: Women from vulnerable populations, such as those who have limited education, are racial and ethnic minorities, have low income, or live in rural areas, are more likely to die from or be harmed by breast cancer. These disparities result, in part, from differences in access to efficient and effective diagnosis. Mammography, the mainstay of breast cancer diagnosis, decreases mortality, yet there remains significant variability in accuracy of diagnostic mammography interpretations among mammography facilities.

 Our completed research, supported by a CBCRP IDEA grant from 2008-2010, demonstrated that women who received diagnostic mammography at facilities serving vulnerable women had a significantly greater odds of receiving a false positive interpretation (i.e., recommendation for follow-up biopsy among women who did not subsequently receive a cancer diagnosis) with no significant difference in sensitivity (i.e., recommendation to receive follow-up biopsy among women who subsequently were diagnosed with cancer) compared to facilities serving non-vulnerable women.

 In the current project we plan to further evaluate the underlying factors driving differences between facilities that serve vulnerable women and those that serve non-vulnerable women. These include:

 1) Does limited access to adjunctive diagnostic tests such as ultrasound may contribute to the higher false positive rates at facilities serving vulnerable women as radiologists will be more likely to refer a patient for biopsy without additional diagnostic assistance?

 2) Are biopsy rates among women recommended to have a biopsy lower at facilities serving vulnerable women than at those serving non-vulnerable women, and is the time from diagnostic mammography to biopsy will be longer?

 For these studies, we will use the 1999-2006 Breast Cancer Surveillance Consortium (BCSC) data linked to the BCSC Facility Survey data and Medicare Claims data. To analyze our data, we plan to use multivariate hierarchical regression at the individual diagnostic mammography level clustered by facility.

 We anticipate that this research will inform policy makers and advocacy groups as to whether there are modifiable facility characteristics that contribute to differences in false positive rates between facilities serving vulnerable women and other facilities and whether measures used to judge the accuracy of mammography interpretations such as false positive rates are biased by whether women receive recommended and timely follow-up care.
Functional characterization of bip2-4, a basl interacting protein, in arabidopsis stomatal development
Creators: name: Li, Dongmeng
Publisher: name: No Publisher Supplied
Year: 2014

description: BASL (BREAKING OF ASYMMETRY IN THE STOMATAL LINEAGE), a novel intrinsic polarity protein, formulates stomatal stem cell polarization and controls asymmetric cell division (ACD) in Arabidopsis stomatal development. Previous analysis on BASL protein subdomains did not fully elucidate its highly dynamic and dually localized pattern (nucleus and cell peripheral polarity) and its biological function in the stomatal ACD cells. From a genome-wide yeast two-hybrid (Y2H) screening, our lab identified two plant-specific families, BIP1 (BASL Interaction Protein Family 1) and BIP2 (BASL Interaction Protein Family 2), both sharing a common plant-specific BID (BASL Interaction Domain) domain. This work focuses on the BIP2 family, particularly BIP2-4, to investigate where this protein is subcellularly localized and whether this gene family plays a role in stomatal ACD and developmental patterning. The physical interaction between BIP2-4 and BASL was further confirmed with pairwise Y2H tests, Bimolecular Fluorescence Complementation (BiFC) and co-expression assays in tobacco leaves. BiFC assays also demonstrated that in addition to interacting with BASL, BIP2-4 also interacts with the MAPKKK YDA, a recently established polarity protein that interacts with BASL. Intriguingly, the interactions between BASL and BIP2-4 and between YDA and BIP2-4 triggered spontaneous protein co-polarization, suggesting a positive role of BIP2-4 in polarity formation. To genetically investigate the biological functions of the BIP2 family, the new genome editing/mutagenesis technology, CRISPR, was tested and successfully established in the Arabidopsis stomatal system. The employment of this technology provided an efficient solution to overcome genetic redundancy within the BIP2 family for further functional analysis. The BIP2 family has a potential link to the Phosphoinositide (PI) signaling pathway, due to the presence of multiple PI-binding signature domains in their sequences. To connect the possible PI signaling to BIP2, the subcellular localization of BIP2-4 subdomains and three previously established PI biosensors that specifically bind to PI3P, PI4P, or PI(4, 5)P2 were examined and compared in the stomata lineage cells.
Prove your Colorings: Formal Verification of Cache Coloring of Bao Hypervisor. Companion Artifact for the Paper Submitted to FASE 2025
Creators: name: Ferréol, Axel
name: Corbin, Laurent
name: Kosmatov, Nikolai
Publisher: name: Zenodo
Year: 2025

description: This artifact aims to support and reproduce the verification results of the paper  "Prove your Colorings: Formal Verification of Cache Coloring of Bao Hypervisor" by Axel Ferréol, Laurent Corbin and Nikolai Kosmatov, and should be cited as:

Axel Ferréol, Laurent Corbin and Nikolai Kosmatov. "Prove your Colorings: Formal Verification of Cache Coloring of Bao Hypervisor. Companion Artifact for the Paper Submitted to FASE 2025"

The artifact itself is available in the attached VM BaoVerifArtifact.ova. See the documentation in README.md in the folder /home/user/BaoVerifArtifact inside the VM.

For convenience of the readers and a faster access to files, the contents of the VM are also available in the attached ZIP. The ZIP is provided for information. The artifact should be preferably used with the attached VM BaoVerifArtifact.ova.The VM is running Ubuntu 24.04. The VM was tested with VirtualBox 7.1.2 on a host machine (with x86 architecture runnning Ubuntu 24.04). For information, the password of user "user" in the VM is "user". The default keyboard is French (press Super+Space, that is Windows button + Space, to change to English keyboard). 

Requirements for the VM:

- at least 4 CPU cores allocated for the VM; - at least 8 GB RAM allocated for the VM; - at least 25 GB free disk space before importing the VM.

See the included REQUIREMENTS.md file for more detail and the Disclaimer in README.md for possible reasons and situations when to increase allocated resources.

Hint: on some versions of host OS and VirtualBox, bugs or limited support prevent the use of VirtualBox or a correct termination of the VM start-up (the VM remains freezed on the loading screen). Changing the VM window size a couple of times can help to refresh the VM screen and get control on it. Otherwise check the known VirtualBox bugs or limitations.
Characterization of HIV-human complexes: focus on Vpu
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 1(HIV-1) attacks the immune system of humans thereby causing the worldwide pandemic AIDS. An HIV particle is fundamentally a spherical shell made of fat and proteins, enclosing a construction plan for producing more virus particles. Like all viruses, HIV cannot grow or reproduce on its own; in order to make new copies of itself it must enter the cells of a human. Since the virus particle is very small, about a million times smaller than the average cell humans and animals are made of, it can only package very little information, namely exactly nine plans (genes). For comparison, a human cell contains over 20,000 of such genes. In order to realize these blueprints, i.e. to produce new viral components, deliver them to the right place, assemble them and set free new particles from the cell that can infect new cells, different cellular machinery is needed. Since the virus itself does not have these machines, it uses the ones from its host, the human white blood cell. To do so, viral proteins often mimic parts of cellular machineries so that the cell incorporates the pathogenic proteins. In this way, the virus hijacks the cellular machinery for its own purpose and misuses it to make new viruses instead of proteins the cell needs. The cell, however, has developed counterstrategies to fight the virus. One of these strategies was discovered only recently: a tether on the surface of the host cell captures newly made viruses so that they cannot escape from the cell. The virus in turn has also developed a countermeasure to defend itself against this tether. One of its nine construction plans contains the information for making a small protein called Vpu, which removes the tether from the cell surface so that the virus can escape. Since every step of the virus replication relies on interactions of viral and human proteins, it is essential for us to identify these interactions so that we can develop drugs to block them. My research proposal, therefore, aims at identifying HIV-human protein assemblies in a comprehensive and systematic manner by purifying each of the HIV proteins out of human blood cells and identify the human protein that bound to it. Since there are always proteins that unspecifically stick to a bait, comparing the different HIV proteins helps to sort out these impurities. I am especially interested in proteins bound by the Vpu protein because it can help to reveal the mechanism of how Vpu removes the antiviral tether from the human cell surface.
Influence of additives on the physicochemical properties in amorphous food matrice
Creators: name: Liang, Jun
Publisher: name: No Publisher Supplied
Year: 2014

description: There is lot of literature on the physico-chemical changes occurring in the ingredients (mainly starches, proteins) during food processing, but there is a need to understand how these biopolymers interact with the minor ingredients (plasticizer, sugars, emulsifiers, antioxidants, etc) during processing and thus their impact on the final product quality.  Phosphorescence spectroscopy allows us to monitor the modes, rates, and distribution of molecular mobility in complex foods, providing the molecular detail necessary to connect food quality and stability to molecular structure and mobility. The mobility contours generated from this research provided us with information about the onset temperature and level of molecular mobility required to support permeability of atmospheric oxygen. The phosphorescence emission spectra and lifetimes of the triplet probe Erythrosin B and Tryptophan embedded in the biomaterial films provide measures of the modes, rates, and distribution of molecular mobility in the film, providing the molecular detail necessary to connect food quality and stability to molecular structure and mobility. The interactions between the biopolymers with food additives depend on the molecular weight and structures of biopolymers. In this research, we have used embedded triplet probes (erythrosin B, tryptophan) to provide a facile and sensitive measure of matrix molecular mobility and oxygen permeability, AFM to imagine the matrix microstructure,
Salina pulchella Goto 1955
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 pulchella

description: 166. Salina pulchella Goto, 1955
Source: Yosii (1961), Deharveng (1986), Bedos (1994), Deharveng & Bedos (2001), Rojanavongse et al. (unpublished report).
Distribution in Thailand. Chiang Mai (N). Habitat: cave (Tham Chiang Dao). Distribution outside Thailand. Singapore.
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
Parkin-mediated mitochondrial quality control and cardiovascular disease
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: It is well established that smoking increases the risk of developing cardiovascular disease but the underlying cause of this increased susceptibility is unclear. In the heart, mitochondria are responsible for providing the beating muscle cells in the heart with energy. However, mitochondria are known to be targets for environmental pollutants, including tobacco smoke. In fact, exposure to cigarette smoke can directly impair mitochondrial function as well as their removal from the cell. This can lead to accumulation of damaged and potentially harmful mitochondria in the cell. Normally, damaged mitochondria are removed by vesicles called autophagosomes in a process known as mitochondrial autophagy or mitophagy. A protein called Parkin plays an important role in labeling dysfunctional mitochondria for degradation. However, the events and identity of proteins that direct the events downstream of Parkin are still unclear. Recent data indicate that the mitochondrial protein Fis1 plays a role in mediating removal of mitochondria downstream of Parkin. We have also discovered that Parkin can localize to the nucleus where it activates clearance of impaired mitochondria in the cytosol. This raises the important question of how Parkin regulates mitochondrial clearance in the cytosol from the nucleus. In this proposal, we will identify how nuclear Parkin activates mitochondrial degradation in the heart. Moreover, we will investigate how Fis1 regulates mitophagy at the mitochondria downstream of Parkin activation. These studies will provide important new insights into the mechanisms regulating clearance of damaged mitochondria in the heart.
Fissurisepta granulosa Jeffreys 1883
Creators: name: Ortega, José Rafael
name: Gofas, Serge
Publisher: name: Zenodo
Year: 2019
Subjects: Biodiversity
Taxonomy
Animalia
Mollusca
Gastropoda
Lepetellida
Fissurellidae
Fissurisepta
Fissurisepta granulosa

description: Fissurisepta granulosa Jeffreys, 1883
(Fig. 2G, H)
MATERIAL EXAMINED. — 4 sh., DW130.
REMARK
Originally described from western Portugal, new record for the Canaries.
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 517, DOI: 10.5252/zoosystema2019v41a26, http://zenodo.org/record/3726028
Collection management
Creators: name: Liff, Stephanie
Publisher: name: No Publisher Supplied
Year: 2014

description: This thesis examines the efficacy of collection management in improving the maintenance of cultural heritage collections. Diligent management of collections of cultural materials is vital to the sustainable development of the institutions housing them. Sustainability, in the context of museum collection management, is characterized by the ability of the collection to perform in such a way that it contributes to the public’s understanding and enjoyment of culture.  In this project, I focus on three museums with large ethnographic collections in order to explore how approaches and tools used in these institutions facilitate their role in public service and the museum as a public institution.  These three case studies are the American Museum of Natural History (AMNH) in New York, the University of Pennsylvania Museum of Archaeology and Anthropology  (UPMAA) in Philadelphia, and the Brooklyn Museum in New York. Each case study presents (1) the history of the collections, (2) the current mission of each museum, (3) the collections' maintenance practices, and (4) the ways in which each museum looks to strengthen the public performance of its collections. These case studies provide examples of public-oriented models for the stewardship of cultural heritage, models that dramatically improve access to collection materials and can enable cultural heritage institutions to continue to serve the public for generations to come.
Time evolution of the XXZ Heisenberg model
Creators: name: Liu, Wenshuo
Publisher: name: No Publisher Supplied
Year: 2014

description: The recent advance of techniques in controlling ultra-cold gases in optical lattice provides a ideal  experimental platform to study quantum many-body physics. The almost isolated and highly tunable systems created in these experimental setups are perfect for studying coherent time evolution  of closed quantum many-body systems. In this thesis I present an analytical approach on the time  evolution of the anisotropic Heisenberg spin chain (XXZ model), which is a fundamental model but  has rich dynamics. This approach is developed through generalizing the Yudson contour representation. With this approach I obtain the exact time-dependent wave functions after a quantum quench  in an integral form for generic initial states and for any anisotropy ∆. I reformulate the integrals  and show their physical interpretation as propagating magnons and their bound states, which were  predicted by the “string” solutions of Bethe Ansatz equations. To apply the new approach to specific problems, I calculate the quench dynamics of various observables from some particular initial  states: starting from a local N ́eel state I calculate the time evolution of the antiferromagnetic order  parameter–staggered magnetization; starting from a state with consecutive flipped spins I calculate  the evolution of the local magnetization, and predict the evolution of the induced spin currents.  These results and predictions can be confronted with recently experiments in ultra-cold gases in  optical lattices, and are expected to contribute to the understanding of non-equilibrium physics of  isolated many-body systems.
Increasing Consumer Awareness of Smoking Risks with Graphic Warnings
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: In 2009, the FDA required that Graphic Warning Labels (GWLs) be placed on cigarette packaging, but the effort was ruled unconstitutional and blocked in 2013. The court cited that labels were not designed to “…increase consumer awareness of smoking risks; rather, they were crafted to evoke a strong emotional response calculated to provoke the viewer to quit…” Yet, GWLs are unlikely to bypass thoughts and encourage quitting, as they are effective in raising awareness of smoking risks because of the emotional response. Research has shown that the emotional response to GWLs plays an important role getting smokers to think about quitting. What is unclear is whether an emotional response form GWLs leads to thoughts of quitting by raising concerns about one’s health, reducing product appeal, or both. It is also unknown if the emotional response to the GWLs decreases over time leaving smokers less sensitive to the imagery. The strong negative emotions associated with GWLs may stir a basic process that is important in informed decision-making. This process may increase receptivity to health information by engaging emotions that signal the importance of attending to the message.

 We aim to study whether emotional reactions to GWLs increase thoughts about quitting, by using data from an ongoing study assessing the effect of GWLs on smoker’s thoughts and behaviors. We propose to add new face reading software that recognizes emotional states to an existing set of sensors to view smokers initial reactions to GWLs. Afterwards, smokers are assigned to purchase packs from one of three groups: standard pack with marketing materials intact, plain pack with marketing materials removed, and plain pack with a large GWL. Current study aims include: 1) To measure emotional responses to GWLs using facial response, physical handling of packs, and positive and negative word choice when discussing the packs. 2) To test whether heightened emotional responses to GWLs predicts increases in health concerns, reductions in smoking appeal and increases in quit intentions over a three-month period. 3) To examine whether initial heightened emotional response to GWLs increases price smokers would pay for the same packs, and to then study if this effect softens over a three-month period. This proposal informs research priority 8 by evaluating optimum methods to counter tobacco industry marketing.
Statistical mechanical modeling of protein-DNA binding
Creators: name: Locke, George
Publisher: name: No Publisher Supplied
Year: 2014

description: Eukaryotes must pack their DNA into the nucleus tightly, yet accessibly. To accomplish this, the nucleus contains special proteins called histones. Histones bind together to form an octamer, and DNA will wrap around the octamer to form a DNA-protein complex called a nucleosome.    Nuclesomes are the primary structure of chromatin, which is the assemblage of DNA and proteins that organizes and stores the genome. &5%-90% of the genome is wound into nucleosomes, yet nucleosomes in the wrong place can block the binding of critical proteins including RNA polymerase: nucleosomes must be kept in their proper locations if the cell is to thrive. Therefore, the cell must regulate the positions of its nucleosomes. How does it accomplish this?    Experiments that map the locations of nucleosomes reveal that these locations have a variety of sequence signals in common. That is, nucleosomes are more likely to be form from some kinds of DNA sequences than others. This dissertation addresses the sequence specificity of nucleosome formation. We shall seek answers to questions such as the following: What is the causal role of DNA sequence composition in determining nucleosome positions in vivo? If histones prefer some sequences to others, can we predict which sequences are preferable? Can we quantify the degree of preference? How do intrinsic preferences stack up against the many forces operating in the crowded cell nucleus?    To address these and related questions, we have investigated genome-wide nucleosome maps produced by the recently established technology known as Next Generation Sequencing – the first such maps became available less than a decade ago. We have developed a flexible model using the formalism of statistical mechanics on a 1-D lattice to model the binding of histones to DNA. Chapter 2 develops this formalism. In Chapter 3, we shall develop a biophysical model of sequence specificity, applying it to maps of nucleosomes in vitro and in vivo from baker’s yeast, otherwise known as S. cerevisiae. Chapter 4 investi-  gates the role of in vivo factors in determining chromatin organization in the nematode C. elegans, where our model suggests that effects occurring on the scale of single nucleosomes are responsible for reorganization of chromatin on a length scale several orders of magnitude greater.
QM guided computational enzyme design
Creators: name: Lu, Beidi
Publisher: name: No Publisher Supplied
Year: 2014

description: PT3 is a redesigned adenosine deaminase that could catalyze the hydrolysis of organophosphate. In this present work, we evaluate the impact of previous designed mutations by investigating the mechanism of PT3.  We started from the high-resolution crystal structure and truncated the active site residues as the QM model. Then the potential surface of the reaction was discovered by locating the transition states and intermediates along the reaction path with QM method B3LYP. The results showed a similar energy profile compared to natural phosphotriesterase and the nucleophilic attack turned out to be the rate-limiting step. The impact of a single mutation V218F that leaded to 20-fold increase in the catalytic rate kcat  was rationalized by including this residue in QM model and a 5.0 kcal/mol difference of the reaction barrier was discovered. Then with the rationalized model, we performed a low-level QM calculation with key bond lengths fixed at a value from high-level QM results. The barrier difference of V218F changed to 3.6kcal/mol, which was still consistent with experimental results while the computation time was cut half. With this fast computational setting, we are able to analyze more mutations of their impact on the reaction barrier quantum mechanically.
High pressure assisted infusion of phytochemical antioxidants into fruits
Creators: name: Mahadevan, Swetha
Publisher: name: No Publisher Supplied
Year: 2014

description: High hydrostatic pressure (HHP) processing has been shown to infuse small size molecules into food materials much faster than does osmosis-based transport.  The accepted mechanism is that HHP permeabilizes cells which increases the mass diffusivity of the food matrix. Hence, infusion is enhanced when foods are treated under high pressure.     In this study we investigated, using a model system, HHP driven infusion of quercetin into cranberries. The main objectives of the study were to test whether enhanced infusion of quercetin can be achieved using HHP and to test whether the commonly accepted mechanism of cell permeabilization is operative in this model system. Two systems were used in this study - fresh cranberries, cells of which are intact and frozen-thawed cranberries, cells of which get permeabilized during freeze-thawing process.     Under HHP, infusion of quercetin was enhanced, compared to infusion at ambient conditions (control), in both fresh and frozen-thawed cranberries. While the amount of quercetin infused under pressure was 3-5 times that in control, it was independent of the applied pressure in a broad range (5-551 MPa). Low pressure of 5 MPa was sufficient to cause enhanced infusion in frozen-thawed cranberries. Furthermore, pressure cycling treatment (2 cycles and 5 cycles) significantly increased the amount of quercetin infused. Unlike other studies, no additional cell permeabilization was observed in frozen-thawed cranberries after HHP, although amount infused was higher. This result suggested that the commonly accepted mechanism of cell permeabilization may not be the only cause of enhanced infusion. Additionally, while both fresh and frozen-thawed cranberries showed similar cell-membrane permeability after HHP, fresh cranberries had about two times greater amount of infused-quercetin than in frozen-thawed cranberries after HHP. If cell-membrane rupture were the only mechanism of infusion, then the amount infused into both, fresh and frozen-thawed cranberries, should have been equal.     These results suggest that HHP infusion is not just cell-permeabilization based but may be caused by pressure driven flow (Darcy flow in porous media). Understanding the actual mechanisms of transport under pressure may enable to develop process guidelines that will help the food industry to develop value-added foods.
Regulation of F2RL3/PAR4 Expression and Function by Methylat
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: Smoking causes cardiovascular disease, which is a leading cause of death in the United States with more than 61 million Americans suffering from some form of cardiovascular disease. The total costs for medical care for people with adverse health effects caused by smoking is extraordinary in the tens of billions of dollars according to health economists at the University of California. Both tobacco-smoking and e-cigarettes generate toxins, which enter the blood stream and directly contribute to the development of cardiovascular disease. Smoke-products are believed to cause changes in the genetic material of blood cells. In fact, the development of recent technologies has allowed investigators to examine genetic changes (called methylation) in blood cells caused by smoking in thousands of people in seventeen different studies performed in the United States and Europe. This work has led to discovery of a gene called F2RL3 that is mostly frequently modified in smokers compared to non-smokers and is strongly correlated with an increased risk of cardiovascular disease and cardiovascular-related mortality. The F2RL3 gene encodes a protein called protease-activated receptor-4 (PAR4). PAR4 is expressed in several blood cells including platelets (important for thrombosis, also knowns as blood clotting) and neutrophils important for inflammation. Thrombosis and inflammation are key processes that contribute to cardiovascular disease. Despite the substantial evidence that smoking directly modulates F2RL3 methylation, there have been no studies that have examined whether this F2RL3 methylation has an effect on PAR4 expression or function. PAR4 is an important receptor for the clotting factor thrombin and is expressed on platelets. In addition, PAR4 is expressed on inflammatory cells called neutrophils and is important for neutrophil function. The focus of this proposal is to determine whether smoke products including tobacco-smoke, e-cigarette vapor with or without nicotine cause changes in F2RL3 methylation resulting in modulation of either PAR4 expression and function that may promote cardiovascular disease. The studies proposed in the high impact pilot research award will provide for the first time important new information about how F2RL3 may contribute to cardiovascular disease and thereby advance F2RL3 status as a new biomarker for adverse health effects associated with smoking as well as provide to a better understanding of the underlying mechanism that increase the risk of smoking-related diseases, which is poorly understood.
Smoking Cessation in California Medicaid Programs
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: Prevalence of tobacco-use continues to remain higher among Medicaid enrollees with smoking rates more than double that of the general population. This tobacco use and related morbidity results in health disparities and lower health status for Medicaid enrollees, including vulnerable populations such as low income persons, pregnant women, people with disabilities, and people with mental illness. Despite Medicaid coverage for effective cessation medications, previous research has documented that these treatments are under-utilized -- with only 7% of Medicaid enrolled smokers in California using covered cessation medications. This signals a need to understand what California Medicaid programs are doing to encourage utilization of smoking cessation treatments, what barriers are being put into place to limit use, and what best practices can be taken and applied in the 25 MediCal managed care plans (MCPs) operating in California providing services to nearly 11 million enrollees.

 The proposed research project will use a mixed methods approach to document smoking cessation policies in California MCPs and to link these practices with smoking and cessation-related outcomes. Information will be collected on MCP smoking cessation policies via in-depth interviews with key-informants at each MCP. These interviews will document current policies and allow for analysis of MCP characteristics associated with full implementation with federal and state policies. The second component of this research project will involve coding the responses from the MCPs into a quantitative dataset and combining this information with smoking and cessation outcome data from the California Smokers' Helpline, CHIS, and the California DHCS drug utilization database to allow us to explore the association between policies in place at each of the MCPs with specific smoking cessation outcomes.

 This work would be of use to two different groups of stakeholders. First MCPs would benefit from receiving feedback on how their policies compare to the other MCPs in California. Second, policy makers, tobacco control advocates, and researchers will benefit from identification of MCP policies that enable Medicaid enrollee utilization of effective smoking cessation therapies to shrink the gap between medication utilization among MediCal enrollees compared to Medicaid enrollees nationwide.
Salina transversalis 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 transversalis

description: 167. Salina transversalis 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