cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Additional file 1 of Comorbidities and mortality risk in adults younger than 50 years of age with chronic obstructive pulmonary disease
Creators: name: Divo, Miguel J.
name: Marin, José M.
name: Casanova, Ciro
name: Cabrera Lopez, Carlos
name: Pinto-Plata, Victor M.
name: Marin-Oto, Marta
name: Polverino, Francesca
name: de-Torres, Juan P.
name: Billheimer, Dean
name: Celli, Bartolome R.
Publisher: name: figshare
Year: 2022
Subjects: subject: Medicine
subject: Physiology
subject: FOS: Biological sciences
subject: Biotechnology
subject: Immunology
subject: FOS: Clinical medicine
subject: 69999 Biological Sciences not elsewhere classified
subject: Cancer
subject: Science Policy
subject: 111714 Mental Health
subject: FOS: Health sciences

description: Additional file 1: Figure S1. Comorbidities prevalence bar graph comparing Young (≤ 50 years) and older (> 50 years) COPD patients. Figure S2. Kaplan–Meier survival curve comparing the three groups. In blue is the control group, red for “Young COPD” and green for the older COPD. Figure S3. Primary causes of death in the Young (< 50 years) and “Older” COPD patients (> 50 years). Table S1. Comorbidities prevalence comparison between Young COPD and controls. Table S2. Comorbidities prevalence comparing Young COPD and Old COPD.
Fannie Mae's National Housing Survey Monthly Home Purchase Sentiment Index (HPSI) and Key Indicators - August, 2016 (a subset of the complete monthly Fannie Mae National Housing Survey)
Creators: name: Foundation, Fannie Mae
Publisher: name: Roper Center for Public Opinion Research
Year: 2019

description: Economy on right/wrong track (1); personal financial situation (1); good/bad time to buy a house (1); good/bad time to sell a house (1); home price changes (3); rental price changes (3); mortgage interest rate changes (1); ability to obtain a home mortgage today (1); current homeownership status (1); renting vs. buying a home in the future (1); concern about unemployment (1); change in income (1).
Acidosis Activation of the Proton-Sensing GPR4 Receptor Stimulates Vascular Endothelial Cell Inflammatory Responses Revealed by Transcriptome Analysis
Creators: name: Chi, Jen-Tsan
name: Asch, Adam S.
name: Dong, Lixue
name: Yang, Li V.
name: Li, Zhigang
name: Leffler, Nancy R.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2013

description: Acidic tissue microenvironment commonly exists in inflammatory diseases, tumors, ischemic organs, sickle cell disease, and many other pathological conditions due to hypoxia, glycolytic cell metabolism and deficient blood perfusion. However, the molecular mechanisms by which cells sense and respond to the acidic microenvironment are not well understood. GPR4 is a proton-sensing receptor expressed in endothelial cells and other cell types. The receptor is fully activated by acidic extracellular pH but exhibits lesser activity at the physiological pH 7.4 and minimal activity at more alkaline pH. To delineate the function and signaling pathways of GPR4 activation by acidosis in endothelial cells, we compared the global gene expression of the acidosis response in primary human umbilical vein endothelial cells (HUVEC) with varying level of GPR4. The results demonstrated that acidosis activation of GPR4 in HUVEC substantially increased the expression of a number of inflammatory genes such as chemokines, cytokines, adhesion molecules, NF-κB pathway genes, and prostaglandin-endoperoxidase synthase 2 (PTGS2 or COX-2) and stress response genes such as ATF3 and DDIT3 (CHOP). Similar GPR4-mediated acidosis induction of the inflammatory genes was also noted in other types of endothelial cells including human lung microvascular endothelial cells and pulmonary artery endothelial cells. Further analyses indicated that the NF-κB pathway was important for the acidosis/GPR4-induced inflammatory gene expression. Moreover, acidosis activation of GPR4 increased the adhesion of HUVEC to U937 monocytic cells under a flow condition. Importantly, treatment with a recently identified GPR4 antagonist significantly reduced the acidosis/GPR4-mediated endothelial cell inflammatory response. Taken together, these results show that activation of GPR4 by acidosis stimulates the expression of a wide range of inflammatory genes in endothelial cells. Such inflammatory response can be suppressed by GPR4 small molecule inhibitors and hold potential therapeutic value.
Omics biomarkers and an approach for their practical implementation to delineate health status for personalized nutrition strategies
Creators: name: Keijer, Jaap
name: Escoté, Xavier
name: Galmés, Sebastià
name: Palou-March, Andreu
name: Serra, Francisca
name: Aldubayan, Mona Adnan
name: Pigsborg, Kristina
name: Magkos, Faidon
name: Baker, Ella J.
name: Calder, Philip C.
name: Góralska, Joanna
name: Razny, Urszula
name: Malczewska-Malec, Malgorzata
name: Suñol, David
name: Galofré, Mar
name: Rodríguez, Miguel A.
name: Canela, Núria
name: Malcic, Radu G.
name: Bosch, Montserrat
name: Favari, Claudia
name: Mena, Pedro
name: Del Rio, Daniele
name: Caimari, Antoni
name: Gutierrez, Biotza
name: del Bas, Josep M.
Publisher: name: Taylor & Francis
Year: 2023
Subjects: subject: Medicine
subject: Genetics
subject: FOS: Biological sciences
subject: Biological Sciences not elsewhere classified
subject: Information Systems not elsewhere classified
subject: Cancer
subject: Mental Health
subject: Computational Biology

description: Personalized nutrition (PN) has gained much attention as a tool for empowerment of consumers to promote changes in dietary behavior, optimizing health status and preventing diet related diseases. Generalized implementation of PN faces different obstacles, one of the most relevant being metabolic characterization of the individual. Although omics technologies allow for assessment the dynamics of metabolism with unprecedented detail, its translatability as affordable and simple PN protocols is still difficult due to the complexity of metabolic regulation and to different technical and economical constrains. In this work, we propose a conceptual framework that considers the dysregulation of a few overarching processes, namely Carbohydrate metabolism, lipid metabolism, inflammation, oxidative stress and microbiota-derived metabolites, as the basis of the onset of several non-communicable diseases. These processes can be assessed and characterized by specific sets of proteomic, metabolomic and genetic markers that minimize operational constrains and maximize the information obtained at the individual level. Current machine learning and data analysis methodologies allow the development of algorithms to integrate omics and genetic markers. Reduction of dimensionality of variables facilitates the implementation of omics and genetic information in digital tools. This framework is exemplified by presenting the EU-Funded project PREVENTOMICS as a use case.
Fannie Mae's National Housing Survey Monthly Home Purchase Sentiment Index (HPSI) and Key Indicators - September, 2016 (a subset of the complete monthly Fannie Mae National Housing Survey)
Creators: name: Foundation, Fannie Mae
Publisher: name: Roper Center for Public Opinion Research
Year: 2019

description: Economy on right/wrong track (1); personal financial situation (1); good/bad time to buy a house (1); good/bad time to sell a house (1); home price changes (3); rental price changes (3); mortgage interest rate changes (1); ability to obtain a home mortgage today (1); current homeownership status (1); renting vs. buying a home in the future (1); concern about unemployment (1); change in income (1).
The space of compact self-shrinking solutions to the Lagrangian Mean Curvature Flow in $\mathbb C^2$
Creators: name: Chen, Jingyi
name: Ma, John Man Shun
Publisher: name: arXiv
Year: 2014
Subjects: subject: Differential Geometry (math.DG)
subject: FOS: Mathematics

description: Let $F_n :(Σ, h_n) \to \mathbb C^2$ be a sequence of conformally immersed Lagrangian self-shrinkers with a uniform area upper bound to the mean curvature flow, and suppose that the sequence of metrics $\{h_n\}$ converges smoothly to a Riemannian metric $h$. We show that a subsequence of $\{F_n\}$ converges smoothly to a branched conformally immersed Lagrangian self-shrinker $F_\infty : (Σ, h)\to \mathbb C^2$. When the area bound is less than $16π$, the limit $F_\infty$ is an embedded torus. When the genus of $Σ$ is one, we can drop the assumption on convergence $h_n\to h$. When the genus of $Σ$ is zero, we show that there is no branched immersion of $Σ$ as a Lagrangian shrinker, generalizing the rigidity result of Smoczyk in dimension two by allowing branch points.
description: 14 pages
Adding Diverse Noncanonical Backbones to Rosetta: Enabling Peptidomimetic Design
Creators: name: Bradley, Philip
name: Bullock, Brooke N.
name: Bonneau, Richard
name: Arora, Paramjit S.
name: Kirshenbaum, Kent
name: Craven, Timothy W.
name: Das, Rhiju
name: Kuhlman, Brian
name: Pacella, Michael
name: Watkins, Andrew
name: Butterfoss, Glenn L.
name: Lyskov, Sergey
name: Leaver-Fay, Andrew
name: Gray, Jeffrey J.
name: Drew, Kevin
name: Labonte, Jason W.
name: Kilambi, Krishna Praneeth
name: Renfrew, P. Douglas
name: Chou, Fang-Chieh
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2013

description: Peptidomimetics are classes of molecules that mimic structural and functional attributes of polypeptides. Peptidomimetic oligomers can frequently be synthesized using efficient solid phase synthesis procedures similar to peptide synthesis. Conformationally ordered peptidomimetic oligomers are finding broad applications for molecular recognition and for inhibiting protein-protein interactions. One critical limitation is the limited set of design tools for identifying oligomer sequences that can adopt desired conformations. Here, we present expansions to the ROSETTA platform that enable structure prediction and design of five non-peptidic oligomer scaffolds (noncanonical backbones), oligooxopiperazines, oligo-peptoids, -peptides, hydrogen bond surrogate helices and oligosaccharides. This work is complementary to prior additions to model noncanonical protein side chains in ROSETTA. The main purpose of our manuscript is to give a detailed description to current and future developers of how each of these noncanonical backbones was implemented. Furthermore, we provide a general outline for implementation of new backbone types not discussed here. To illustrate the utility of this approach, we describe the first tests of the ROSETTA molecular mechanics energy function in the context of oligooxopiperazines, using quantum mechanical calculations as comparison points, scanning through backbone and side chain torsion angles for a model peptidomimetic. Finally, as an example of a novel design application, we describe the automated design of an oligooxopiperazine that inhibits the p53-MDM2 protein-protein interaction. For the general biological and bioengineering community, several noncanonical backbones have been incorporated into web applications that allow users to freely and rapidly test the presented protocols (http://rosie.rosettacommons.org). This work helps address the peptidomimetic community's need for an automated and expandable modeling tool for noncanonical backbones.
Fannie Mae's National Housing Survey Monthly Home Purchase Sentiment Index (HPSI) and Key Indicators - October, 2016 (a subset of the complete monthly Fannie Mae National Housing Survey)
Creators: name: Foundation, Fannie Mae
Publisher: name: Roper Center for Public Opinion Research
Year: 2019

description: Economy on right/wrong track (1); personal financial situation (1); good/bad time to buy a house (1); good/bad time to sell a house (1); home price changes (3); rental price changes (3); mortgage interest rate changes (1); ability to obtain a home mortgage today (1); current homeownership status (1); renting vs. buying a home in the future (1); concern about unemployment (1); change in income (1).
Phase diagram of dipolar bosons in 2D with tilted polarization
Creators: name: Macia, A.
name: Boronat, J.
name: Mazzanti, F.
Publisher: name: arXiv
Year: 2014
Subjects: subject: Quantum Gases (cond-mat.quant-gas)
subject: FOS: Physical sciences

description: We analyze the ground state of a system of dipolar bosons moving in the $XY$ plane and such that their dipolar moments are all aligned in a fixed direction in space. We focus on the general case where the polarization field forms a generic angle $α$ with respect to the $Z$ axis. We use the Path Integral Ground State method to analyze the static properties of the system as both $α$ and the density $n$ vary over a wide range were the system is stable. We use the maximum of the static structure function as an order parameter to characterize the different phases and the transition lines among them. We find that aside of a superfluid gas and a solid phase, the system reaches a stripe phase at large tilting angles that is entirely induced by the anisotropic character of the interaction. We also show that the quantum phase transition from the gas to the stripe phase is of second order, and report approximate values for the critical exponents.
description: 4 figures
Fannie Mae's National Housing Survey Monthly Home Purchase Sentiment Index (HPSI) and Key Indicators - November, 2016 (a subset of the complete monthly Fannie Mae National Housing Survey)
Creators: name: Foundation, Fannie Mae
Publisher: name: Roper Center for Public Opinion Research
Year: 2019

description: Economy on right/wrong track (1); personal financial situation (1); good/bad time to buy a house (1); good/bad time to sell a house (1); home price changes (3); rental price changes (3); mortgage interest rate changes (1); ability to obtain a home mortgage today (1); current homeownership status (1); renting vs. buying a home in the future (1); concern about unemployment (1); change in income (1).
Fannie Mae's National Housing Survey Monthly Home Purchase Sentiment Index (HPSI) and Key Indicators - December, 2016 (a subset of the complete monthly Fannie Mae National Housing Survey)
Creators: name: Foundation, Fannie Mae
Publisher: name: Roper Center for Public Opinion Research
Year: 2019

description: Economy on right/wrong track (1); personal financial situation (1); good/bad time to buy a house (1); good/bad time to sell a house (1); home price changes (3); rental price changes (3); mortgage interest rate changes (1); ability to obtain a home mortgage today (1); current homeownership status (1); renting vs. buying a home in the future (1); concern about unemployment (1); change in income (1).
Additional file 1 of Employment status of AFROHUN-Uganda one health alumni, and facilitators and barriers to application of the one health approach: a tracer study
Creators: name: Ssekamatte, Tonny
name: Mugambe, Richard K.
name: Nalugya, Aisha
name: Isunju, John Bosco
name: Kalibala, Patrick
name: Musewa, Angella
name: Bikaako, Winnie
name: Nattimba, Milly
name: Tigaiza, Arnold
name: Nakalembe, Doreen
name: Osuret, Jimmy
name: Wafula, Solomon T.
name: Okech, Samuel
name: Buregyeya, Esther
name: Tsiouris, Fatima
name: Michaels-Strasser, Susan
name: Kabasa, John David
name: Bazeyo, William
Publisher: name: figshare
Year: 2022
Subjects: subject: Medicine
subject: Biotechnology
subject: Science Policy
subject: Plant Biology
subject: FOS: Biological sciences

description: Additional file 1.
Exact Inference on Gaussian Graphical Models of Arbitrary Topology using Path-Sums
Creators: name: Giscard, P. -L.
name: Choo, Z.
name: Thwaite, S. J.
name: Jaksch, D.
Publisher: name: arXiv
Year: 2014
Subjects: subject: Statistics Theory (math.ST)
subject: FOS: Mathematics

description: We present the path-sum formulation for exact statistical inference of marginals on Gaussian graphical models of arbitrary topology. The path-sum formulation gives the covariance between each pair of variables as a branched continued fraction of finite depth and breadth. Our method originates from the closed-form resummation of infinite families of terms of the walk-sum representation of the covariance matrix. We prove that the path-sum formulation always exists for models whose covariance matrix is positive definite: i.e.~it is valid for both walk-summable and non-walk-summable graphical models of arbitrary topology. We show that for graphical models on trees the path-sum formulation is equivalent to Gaussian belief propagation. We also recover, as a corollary, an existing result that uses determinants to calculate the covariance matrix. We show that the path-sum formulation formulation is valid for arbitrary partitions of the inverse covariance matrix. We give detailed examples demonstrating our results.
Fannie Mae's National Housing Survey Monthly Home Purchase Sentiment Index (HPSI) and Key Indicators - January, 2017 (a subset of the complete monthly Fannie Mae National Housing Survey)
Creators: name: Foundation, Fannie Mae
Publisher: name: Roper Center for Public Opinion Research
Year: 2019

description: Economy on right/wrong track (1); personal financial situation (1); good/bad time to buy a house (1); good/bad time to sell a house (1); home price changes (3); rental price changes (3); mortgage interest rate changes (1); ability to obtain a home mortgage today (1); current homeownership status (1); renting vs. buying a home in the future (1); concern about unemployment (1); change in income (1).
Altered Modular Organization of Structural Cortical Networks in Children with Autism
Creators: name: Peng, Ziwen
name: Shen, Dinggang
name: Shi, Feng
name: Wang, Li
name: Wee, Chong-Yaw
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2013

description: Autism is a complex developmental disability that characterized by deficits in social interaction, language skills, repetitive stereotyped behaviors and restricted interests. Although great heterogeneity exists, previous findings suggest that autism has atypical brain connectivity patterns and disrupted small-world network properties. However, the organizational alterations in the autistic brain network are still poorly understood. We explored possible organizational alterations of 49 autistic children and 51 typically developing controls, by investigating their brain network metrics that are constructed upon cortical thickness correlations. Three modules were identified in controls, including cortical regions associated with brain functions of executive strategic, spatial/auditory/visual, and self-reference/episodic memory. There are also three modules found in autistic children with similar patterns. Compared with controls, autism demonstrates significantly reduced gross network modularity, and a larger number of inter-module connections. However, the autistic brain network demonstrates increased intra- and inter-module connectivity in brain regions including middle frontal gyrus, inferior parietal gyrus, and cingulate, suggesting one underlying compensatory mechanism associated with brain functions of self-reference and episodic memory. Results also show that there is increased correlation strength between regions inside frontal lobe, as well as impaired correlation strength between frontotemporal and frontoparietal regions. This alteration of correlation strength may contribute to the organization alteration of network structures in autistic brains.
Oxymorons in Tamil Literature
Creators: name: S.Subbulakshmi
Publisher: name: gjrpublication
Year: 2024

description: Oxymorons in Tamil literature is not just a stylistic choice but a reflection of the culture’s deep engagement with the complexities of life. They enrich the language by adding layers of meaning, making the expressions more vivid, profound, and resonant. The use of oxymorons highlights the beauty of the Tamil language, showcasing its ability to convey nuanced emotions and philosophical ideas with elegance and depth. In literature, an oxymoron is a powerful rhetorical device that combines two contradictory words to create a unique expression Tamil literature, with its rich tradition of poetry and epics, has long used oxymorons to explore and express the intricate nature of human experiences. Tamil poets have employed oxymorons extensively. Oxymorons are a unique and powerful rhetorical device in language, offering several distinctive qualities that make them special. Characteristic features of Oxymorons are Irony, Emphasizing conflict, Memorable phrasing, Expressing complex emotions, high lighting dualities, Aesthetic beauty, paradoxical nature, Richness in meaning, Enhancing the deapth of expression, Versatality across contexts and so on. Tamil devotional works like Thevaram, Thiruvasagam, Thirumandiram, Thiruvisaippa, thiruppugazh, Thiruarutpa employs oxymorons as a powerful literary device to express the profound and often paradoxical nature of divine experiences. The use of oxymorons in the hymns adds to the poetic beauty and spiritual resonance of the Divya Prabandham, making it a timeless work of Tamil devotional literature.
Fragmentation of Random Trees
Creators: name: Kalay, Z.
name: Ben-Naim, E.
Publisher: name: arXiv
Year: 2014
Subjects: subject: Statistical Mechanics (cond-mat.stat-mech)
subject: Combinatorics (math.CO)
subject: Probability (math.PR)
subject: FOS: Physical sciences
subject: FOS: Mathematics

description: We study fragmentation of a random recursive tree into a forest by repeated removal of nodes. The initial tree consists of N nodes and it is generated by sequential addition of nodes with each new node attaching to a randomly-selected existing node. As nodes are removed from the tree, one at a time, the tree dissolves into an ensemble of separate trees, namely, a forest. We study statistical properties of trees and nodes in this heterogeneous forest, and find that the fraction of remaining nodes m characterizes the system in the limit N --> infty. We obtain analytically the size density phi_s of trees of size s. The size density has power-law tail phi_s ~ s^(-alpha) with exponent alpha=1+1/m. Therefore, the tail becomes steeper as further nodes are removed, and the fragmentation process is unusual in that exponent alpha increases continuously with time. We also extend our analysis to the case where nodes are added as well as removed, and obtain the asymptotic size density for growing trees.
description: 9 pages, 5 figures
Additional file 2 of Employment status of AFROHUN-Uganda one health alumni, and facilitators and barriers to application of the one health approach: a tracer study
Creators: name: Ssekamatte, Tonny
name: Mugambe, Richard K.
name: Nalugya, Aisha
name: Isunju, John Bosco
name: Kalibala, Patrick
name: Musewa, Angella
name: Bikaako, Winnie
name: Nattimba, Milly
name: Tigaiza, Arnold
name: Nakalembe, Doreen
name: Osuret, Jimmy
name: Wafula, Solomon T.
name: Okech, Samuel
name: Buregyeya, Esther
name: Tsiouris, Fatima
name: Michaels-Strasser, Susan
name: Kabasa, John David
name: Bazeyo, William
Publisher: name: figshare
Year: 2022
Subjects: subject: Medicine
subject: Biotechnology
subject: Science Policy
subject: Plant Biology
subject: FOS: Biological sciences

description: Additional file 2.
Fannie Mae's National Housing Survey Monthly Home Purchase Sentiment Index (HPSI) and Key Indicators - February, 2017 (a subset of the complete monthly Fannie Mae National Housing Survey)
Creators: name: Foundation, Fannie Mae
Publisher: name: Roper Center for Public Opinion Research
Year: 2019

description: Economy on right/wrong track (1); personal financial situation (1); good/bad time to buy a house (1); good/bad time to sell a house (1); home price changes (3); rental price changes (3); mortgage interest rate changes (1); ability to obtain a home mortgage today (1); current homeownership status (1); renting vs. buying a home in the future (1); concern about unemployment (1); change in income (1).
Additional file 3 of Employment status of AFROHUN-Uganda one health alumni, and facilitators and barriers to application of the one health approach: a tracer study
Creators: name: Ssekamatte, Tonny
name: Mugambe, Richard K.
name: Nalugya, Aisha
name: Isunju, John Bosco
name: Kalibala, Patrick
name: Musewa, Angella
name: Bikaako, Winnie
name: Nattimba, Milly
name: Tigaiza, Arnold
name: Nakalembe, Doreen
name: Osuret, Jimmy
name: Wafula, Solomon T.
name: Okech, Samuel
name: Buregyeya, Esther
name: Tsiouris, Fatima
name: Michaels-Strasser, Susan
name: Kabasa, John David
name: Bazeyo, William
Publisher: name: figshare
Year: 2022
Subjects: subject: Medicine
subject: Biotechnology
subject: Science Policy
subject: Plant Biology
subject: FOS: Biological sciences

description: Additional file 3.
Fannie Mae's National Housing Survey Monthly Home Purchase Sentiment Index (HPSI) and Key Indicators - March, 2017 (a subset of the complete monthly Fannie Mae National Housing Survey)
Creators: name: Foundation, Fannie Mae
Publisher: name: Roper Center for Public Opinion Research
Year: 2019

description: Economy on right/wrong track (1); personal financial situation (1); good/bad time to buy a house (1); good/bad time to sell a house (1); home price changes (3); rental price changes (3); mortgage interest rate changes (1); ability to obtain a home mortgage today (1); current homeownership status (1); renting vs. buying a home in the future (1); concern about unemployment (1); change in income (1).
Alternative Computational Protocols for Supercharging Protein Surfaces for Reversible Unfolding and Retention of Stability
Creators: name: Kluwe, Christien
name: Georgiou, George
name: Jacak, Ron
name: Gray, Jeffrey J.
name: Kuhlman, Brian
name: Lyskov, Sergey
name: Der, Bryan S.
name: Ellington, Andrew D.
name: Miklos, Aleksandr E.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2013

description: Reengineering protein surfaces to exhibit high net charge, referred to as “supercharging”, can improve reversibility of unfolding by preventing aggregation of partially unfolded states. Incorporation of charged side chains should be optimized while considering structural and energetic consequences, as numerous mutations and accumulation of like-charges can also destabilize the native state. A previously demonstrated approach deterministically mutates flexible polar residues (amino acids DERKNQ) with the fewest average neighboring atoms per side chain atom (AvNAPSA). Our approach uses Rosetta-based energy calculations to choose the surface mutations. Both protocols are available for use through the ROSIE web server. The automated Rosetta and AvNAPSA approaches for supercharging choose dissimilar mutations, raising an interesting division in surface charging strategy. Rosetta-supercharged variants of GFP (RscG) ranging from −11 to −61 and +7 to +58 were experimentally tested, and for comparison, we re-tested the previously developed AvNAPSA-supercharged variants of GFP (AscG) with +36 and −30 net charge. Mid-charge variants demonstrated ∼3-fold improvement in refolding with retention of stability. However, as we pushed to higher net charges, expression and soluble yield decreased, indicating that net charge or mutational load may be limiting factors. Interestingly, the two different approaches resulted in GFP variants with similar refolding properties. Our results show that there are multiple sets of residues that can be mutated to successfully supercharge a protein, and combining alternative supercharge protocols with experimental testing can be an effective approach for charge-based improvement to refolding.
Asteroid body-fixed hovering using nonideal solar sails
Creators: name: Zeng, Xiang-yuan
name: Jiang, Fang-hua
name: Li, Jun-feng
Publisher: name: arXiv
Year: 2014
Subjects: subject: Solar and Stellar Astrophysics (astro-ph.SR)
subject: Earth and Planetary Astrophysics (astro-ph.EP)
subject: FOS: Physical sciences

description: Asteroid body-fixed hovering problem using nonideal solar sail models in a compact form with controllable sail area is investigated in this paper. The nonlinear dynamic equations for the hovering problem are constructed for a spherically symmetric asteroid. The feasible region for the body-fixed hovering is solved from the above equations by using a shooting method. The effect of the sail models, including the ideal, optical, parametric and solar photon thrust, on the feasible region is studied through numerical simulations. The influence of the asteroid spinning rate and the sail area-to-mass ratio on the feasible region is discussed in a parametric way. The required sail orientations and their corresponding variable lightness numbers are given for different hovering radii to identify the feasibility of the body-fixed hovering. An attractive mission scenario is introduced to enhance the advantage of the solar sail hovering mission.
description: 10 pages, 5 figures
Analysis of the Murine Immune Response to Pulmonary Delivery of Precisely Fabricated Nano- and Microscale Particles
Creators: name: Hasan, Warefta
name: Roberts, Reid A.
name: Ting, Jenny P. Y.
name: Allen, Irving C.
name: Shen, Tammy
name: DeSimone, Joseph M.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2013

description: Nanomedicine has the potential to transform clinical care in the 21st century. However, a precise understanding of how nanomaterial design parameters such as size, shape and composition affect the mammalian immune system is a prerequisite for the realization of nanomedicine's translational promise. Herein, we make use of the recently developed Particle Replication in Non-wetting Template (PRINT) fabrication process to precisely fabricate particles across and the nano- and micro-scale with defined shapes and compositions to address the role of particle design parameters on the murine innate immune response in both in vitro and in vivo settings. We find that particles composed of either the biodegradable polymer poly(lactic-co-glycolic acid) (PLGA) or the biocompatible polymer polyethylene glycol (PEG) do not cause release of pro-inflammatory cytokines nor inflammasome activation in bone marrow-derived macrophages. When instilled into the lungs of mice, particle composition and size can augment the number and type of innate immune cells recruited to the lungs without triggering inflammatory responses as assayed by cytokine release and histopathology. Smaller particles (80×320 nm) are more readily taken up in vivo by monocytes and macrophages than larger particles (6 µm diameter), yet particles of all tested sizes remained in the lungs for up to 7 days without clearance or triggering of host immunity. These results suggest rational design of nanoparticle physical parameters can be used for sustained and localized delivery of therapeutics to the lungs.
Fannie Mae's National Housing Survey Monthly Home Purchase Sentiment Index (HPSI) and Key Indicators - April, 2017 (a subset of the complete monthly Fannie Mae National Housing Survey)
Creators: name: Foundation, Fannie Mae
Publisher: name: Roper Center for Public Opinion Research
Year: 2019

description: Economy on right/wrong track (1); personal financial situation (1); good/bad time to buy a house (1); good/bad time to sell a house (1); home price changes (3); rental price changes (3); mortgage interest rate changes (1); ability to obtain a home mortgage today (1); current homeownership status (1); renting vs. buying a home in the future (1); concern about unemployment (1); change in income (1).
Androgen Signaling Promotes Translation of TMEFF2 in Prostate Cancer Cells via Phosphorylation of the α Subunit of the Translation Initiation Factor 2
Creators: name: Geyer, Christopher B.
name: Green, Thomas
name: Ruiz-Echevarría, Maria J.
name: Overcash, Ryan F.
name: Asch, Adam S.
name: Chappell, Vesna A.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2013

description: The type I transmembrane protein with epidermal growth factor and two follistatin motifs 2 (TMEFF2), is expressed mainly in brain and prostate. Expression of TMEFF2 is deregulated in prostate cancer, suggesting a role in this disease, but the molecular mechanism(s) involved in this effect are not clear. Although androgens promote tmeff2 transcription, androgen delivery to castrated animals carrying CWR22 xenografts increases TMEFF2 protein levels in the absence of mRNA changes, suggesting that TMEFF2 may also be post-transcriptionally regulated. Here we show that translation of TMEFF2 is regulated by androgens. Addition of physiological concentrations of dihydrotestosterone (DHT) to prostate cancer cell lines increases translation of endogenous TMEFF2 or transfected TMEFF2-Luciferase fusions, and this effect requires the presence of upstream open reading frames (uORFs) in the 5′-untranslated region (5′-UTR) of TMEFF2. Using chemical and siRNA inhibition of the androgen receptor (AR), we show that the androgen effect on TMEFF2 translation is mediated by the AR. Importantly, DHT also promotes phosphorylation of the α subunit of the translation initiation factor 2 (eIF2α) in an AR-dependent manner, paralleling the effect on TMEFF2 translation. Moreover, endoplasmic reticulum (ER) stress conditions, which promote eIF2α phosphorylation, also stimulate TMEFF2 translation. These results indicate that androgen signaling promotes eIF2α phosphorylation and subsequent translation of TMEFF2 via a mechanism that requires uORFs in the 5′-UTR of TMEFF2.
Molecular profiling of cancer-derived small extracellular vesicles by SERS assay
Creators: name: Ngo, Cao Hoang Long
Publisher: name: Macquarie University
Year: 2022
Subjects: Other education not elsewhere classified

description: Cancer-derived small extracellular vesicles (sEVs) have been recognized as a promising biomarker for early cancer diagnosis. Thus, the overall aim of this thesis is to isolate, characterize cancer-derived sEVs from ovarian cancer cell lines and employ surface-enhanced Raman scattering (SERS) assay for molecular profiling of sEVs. Firstly, we demonstrated the isolation of sEVs from 2D cultured A2780-WT (wild-type), A2780-MT (mutant), and OVCAR-3 cell lines, as well 3D cultured A2780-WT and A2780-MT cell lines. Secondly, we characterized the physical properties of sEVs by utilizing nanoparticles tracking analysis (NTA), zetasizer, and transmission electron microscopy (TEM). We found that sEVs are highly heterogeneous (size range of 100–125 nm, and concentration from 1.9x10¹⁰ - 8.9x10¹⁰ particles/mL). We further characterize the molecular features of sEVs by using flow cytometry, Bicinchoninic Acid (BCA) assay, and western blot (WB). We discovered that CA125 and EpCAM expressed on OVCAR3 cell-derived sEVs but not A2780-WT cell-derived sEVs. The SERS assay was employed to profile surface protein (CA125) on sEVs derived from OVCAR3 cell lines, which share similar results as flow cytometry and western blot. This demonstrates SERS assay is a specific and reliable assay. Further studies will be conducted in the PhD project.
Fannie Mae's National Housing Survey Monthly Home Purchase Sentiment Index (HPSI) and Key Indicators - May, 2017 (a subset of the complete monthly Fannie Mae National Housing Survey)
Creators: name: Foundation, Fannie Mae
Publisher: name: Roper Center for Public Opinion Research
Year: 2019

description: Economy on right/wrong track (1); personal financial situation (1); good/bad time to buy a house (1); good/bad time to sell a house (1); home price changes (3); rental price changes (3); mortgage interest rate changes (1); ability to obtain a home mortgage today (1); current homeownership status (1); renting vs. buying a home in the future (1); concern about unemployment (1); change in income (1).
What "structures of feeling" charge the affective economies of renting in the Majority World? (Briefing Paper 3)
Creators: name: Soaita, Adriana Mihaela
Publisher: name: Zenodo
Year: 2023
Subjects: housing
structures of feeling
landlords and tenants
Raymond Williams
Greed and exploitation
Ethics of care
Cruel optimism
Majority World
private renting
Critical Interpretative Synthesis

description: Reporting the findings of a Critical Interpretative Synthesis of the qualitative academic scholarship on private landlords' and tenants' experiences in the Majority World, this briefing paper asks: What "structures of feeling" charge the affective economies of rental housing? The paper first introduces Raymond Williams' concept of structures of feeling. It then brings together three lines of thoughts to deduce three structures of feeling that are likely to shape landlords' and tenants' (affective) practices: greed and exploitation, ethics of care, and cruel optimism. Findings are briefly presented in the form of a table, based on which six critical observations on how structures of feeling work are presented. A brief conclusion invites housing scholars to engage the concept in housing research. The methodology is presented in the related Briefing Paper One (https://zenodo.org/records/7566096).
Application of Multiplexed Kinase Inhibitor Beads to Study Kinome Adaptations in Drug-Resistant Leukemia
Creators: name: Cooper, Matthew J.
name: Cox, Nathan J.
name: Frye, Stephen V.
name: Johnson, Gary L.
name: Smalley, David M.
name: Whittle, Martin C.
name: Baldwin, Albert S.
name: Richards, Kristy L.
name: Duncan, James S.
name: Jones, Lauren S.
name: Christopherson, Richard I.
name: Jin, Jian
name: Nguyen, Thien A.
name: Kuan, Pei Fen
name: Ghose Roy, Sreerupa
name: Zimmerman, Eric I.
name: Graves, Lee M.
name: Dewar, Brian J.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2013

description: Protein kinases play key roles in oncogenic signaling and are a major focus in the development of targeted cancer therapies. Imatinib, a BCR-Abl tyrosine kinase inhibitor, is a successful front-line treatment for chronic myelogenous leukemia (CML). However, resistance to imatinib may be acquired by BCR-Abl mutations or hyperactivation of Src family kinases such as Lyn. We have used multiplexed kinase inhibitor beads (MIBs) and quantitative mass spectrometry (MS) to compare kinase expression and activity in an imatinib-resistant (MYL-R) and -sensitive (MYL) cell model of CML. Using MIB/MS, expression and activity changes of over 150 kinases were quantitatively measured from various protein kinase families. Statistical analysis of experimental replicates assigned significance to 35 of these kinases, referred to as the MYL-R kinome profile. MIB/MS and immunoblotting confirmed the over-expression and activation of Lyn in MYL-R cells and identified additional kinases with increased (MEK, ERK, IKKα, PKCβ, NEK9) or decreased (Abl, Kit, JNK, ATM, Yes) abundance or activity. Inhibiting Lyn with dasatinib or by shRNA-mediated knockdown reduced the phosphorylation of MEK and IKKα. Because MYL-R cells showed elevated NF-κB signaling relative to MYL cells, as demonstrated by increased IκBα and IL-6 mRNA expression, we tested the effects of an IKK inhibitor (BAY 65-1942). MIB/MS and immunoblotting revealed that BAY 65-1942 increased MEK/ERK signaling and that this increase was prevented by co-treatment with a MEK inhibitor (AZD6244). Furthermore, the combined inhibition of MEK and IKKα resulted in reduced IL-6 mRNA expression, synergistic loss of cell viability and increased apoptosis. Thus, MIB/MS analysis identified MEK and IKKα as important downstream targets of Lyn, suggesting that co-targeting these kinases may provide a unique strategy to inhibit Lyn-dependent imatinib-resistant CML. These results demonstrate the utility of MIB/MS as a tool to identify dysregulated kinases and to interrogate kinome dynamics as cells respond to targeted kinase inhibition.
Interplay between electron-electron and electron-vibration interactions on the thermoelectric properties of molecular junctions
Creators: name: Perroni, C. A.
name: Ninno, D.
name: Cataudella, V.
Publisher: name: arXiv
Year: 2014
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: Strongly Correlated Electrons (cond-mat.str-el)
subject: FOS: Physical sciences

description: The linear thermoelectric properties of molecular junctions are theoretically studied close to room temperature within a model including electron-electron and electron-vibration interactions on the molecule. A nonequilibrium adiabatic approach is generalized to include large Coulomb repulsion through a self-consistent procedure and applied to the investigation of large molecules, such as fullerenes, within the Coulomb blockade regime. The focus is on the phonon thermal conductance which is quite sensitive to the effects of strong electron-electron interactions within the intermediate electron-vibration coupling regime. The electron-vibration interaction enhances the phonon and electron thermal conductance, and it reduces the charge conductance and the thermopower inducing a decrease of the thermoelectric figure of merit. For realistic values of junction parameters, the peak values of the thermoelectric figure of merit are still of the order of unity since the phonon thermal conductance can be even smaller than the electron counterpart.
description: 8 pages, 1 Appendix, 12 pages. arXiv admin note: substantial text overlap with arXiv:1406.3771
Association between U.S. State AIDS Drug Assistance Program (ADAP) Features and HIV Antiretroviral Therapy Initiation, 2001–2009
Creators: name: Stuart, Elizabeth A.
name: Althoff, Keri N.
name: Sterling, Timothy R.
name: Gange, Stephen J.
name: Hessol, Nancy A.
name: Korthuis, P. Todd
name: Buchacz, Kate
name: Horberg, Michael A.
name: Patel, Pragna
name: Moore, Richard D.
name: Napravnik, Sonia
name: Gebo, Kelly A.
name: Samji, Hasina
name: Thorne, Jennifer E.
name: Martin, Jeffrey N.
name: Kitahata, Mari M.
name: Rodriguez, Benigno
name: Jacobson, Lisa P.
name: Willig, James H.
name: Hanna, David B.
name: Kirk, Gregory D.
name: Collier, Ann
name: Silverberg, Michael J.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2013

description: BackgroundU.S. state AIDS Drug Assistance Programs (ADAPs) are federally funded to provide antiretroviral therapy (ART) as the payer of last resort to eligible persons with HIV infection. States differ regarding their financial contributions to and ways of implementing these programs, and it remains unclear how this interstate variability affects HIV treatment outcomes.MethodsWe analyzed data from HIV-infected individuals who were clinically-eligible for ART between 2001 and 2009 (i.e., a first reported CD4+ <350 cells/uL or AIDS-defining illness) from 14 U.S. cohorts of the North American AIDS Cohort Collaboration on Research and Design (NA-ACCORD). Using propensity score matching and Cox regression, we assessed ART initiation (within 6 months following eligibility) and virologic suppression (within 1 year) based on differences in two state ADAP features: the amount of state funding in annual ADAP budgets and the implementation of waiting lists. We performed an a priori subgroup analysis in persons with a history of injection drug use (IDU).ResultsAmong 8,874 persons, 56% initiated ART within six months following eligibility. Persons living in states with no additional state contribution to the ADAP budget initiated ART on a less timely basis (hazard ratio [HR] 0.73, 95% CI 0.60–0.88). Living in a state with an ADAP waiting list was not associated with less timely initiation (HR 1.12, 95% CI 0.87–1.45). Neither additional state contributions nor waiting lists were significantly associated with virologic suppression. Persons with an IDU history initiated ART on a less timely basis (HR 0.67, 95% CI 0.47–0.95).ConclusionsWe found that living in states that did not contribute additionally to the ADAP budget was associated with delayed ART initiation when treatment was clinically indicated. Given the changing healthcare environment, continued assessment of the role of ADAPs and their features that facilitate prompt treatment is needed.
Documenting the Instrument and Instrument-making of Angkuoch, Cambodian Mouth Harp (EMKP-SG02).
Creators: name: Grant, Catherine
Publisher: name: Griffith University
Year: 2022
Subjects: subject: 190409 Musicology and Ethnomusicology
subject: FOS: Arts (arts, history of arts, performing arts, music)

description: Fewer than ten living instrument-makers of the mouth harp angkuoch are known across Cambodia, and the process of making the instrument has never been documented in depth. Working with NGO Cambodian Living Arts and in collaboration with three active instrument-makers and players, this project documented the sociocultural contexts of angkuoch and angkuoch-making in two village communities in Siem Riep province. This creative output encompassess all project materials housed in the EMKP Digital Repository of the British Museum. UNESCO (Cambodia) provided generous support for the dissemination in Cambodia of the outcomes of this project. Collaborators: Song Seng, Patrick Kersale Partners: Cambodian Living Arts
Fannie Mae's National Housing Survey Monthly Home Purchase Sentiment Index (HPSI) and Key Indicators - June, 2017 (a subset of the complete monthly Fannie Mae National Housing Survey)
Creators: name: Foundation, Fannie Mae
Publisher: name: Roper Center for Public Opinion Research
Year: 2019

description: Economy on right/wrong track (1); personal financial situation (1); good/bad time to buy a house (1); good/bad time to sell a house (1); home price changes (3); rental price changes (3); mortgage interest rate changes (1); ability to obtain a home mortgage today (1); current homeownership status (1); renting vs. buying a home in the future (1); concern about unemployment (1); change in income (1).
Associations between Methylation of Paternally Expressed Gene 3 (PEG3), Cervical Intraepithelial Neoplasia and Invasive Cervical Cancer
Creators: name: Swai, Britta
name: Vasquez, Brandi
name: Mlay, Pendo
name: Wang, Frances
name: Huang, Zhiqing
name: Hoyo, Cathrine
name: Obure, Joseph
name: Bartlett, John A.
name: Vidal, Adriana C.
name: Overcash, Francine
name: Gammon, Marilie D.
name: Murphy, Susan K.
name: Oneko, Olola
name: Nye, Monica D.
name: Hernandez, Brenda
name: Smith, Jennifer S.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2013

description: Cytology-based screening for invasive cervical cancer (ICC) lacks sensitivity and specificity to discriminate between cervical intraepithelial neoplasia (CIN) likely to persist or progress from cases likely to resolve. Genome-wide approaches have been used to identify DNA methylation marks associated with CIN persistence or progression. However, associations between DNA methylation marks and CIN or ICC remain weak and inconsistent. Between 2008–2009, we conducted a hospital-based, case-control study among 213 Tanzania women with CIN 1/2/3 or ICC. We collected questionnaire data, biopsies, peripheral blood, cervical scrapes, Human papillomavirus (HPV) and HIV-1 infection status. We assessed PEG3 methylation status by bisulfite pyrosequencing. Multinomial logistic regression was used to estimate odds ratios (OR) and confidence intervals (CI 95%) for associations between PEG3 methylation status and CIN or ICC. After adjusting for age, gravidity, hormonal contraceptive use and HPV infection, a 5% increase in PEG3 DNA methylation was associated with increased risk for ICC (OR = 1.6; 95% CI 1.2–2.1). HPV infection was associated with a higher risk of CIN1-3 (OR = 15.7; 95% CI 5.7–48.6) and ICC (OR = 29.5, 95% CI 6.3–38.4). Infection with high risk HPV was correlated with mean PEG3 differentially methylated regions (DMRs) methylation (r = 0.34 p<0.0001), while the correlation with low risk HPV infection was weaker (r = 0.16 p = 0.047). Although small sample size limits inference, these data support that PEG3 methylation status has potential as a molecular target for inclusion in CIN screening to improve prediction of progression.