bluuebunny/crossref_metadata_2025 huggingface dataset:
Comparison of atherogenic risk factors among poorly controlled and well-controlled adolescent phenylketonuria patients
Authors: Gündüz Mehmet , Çakar Sevim , Kuyum Pınar , Makay Balahan , Arslan Nur
Published: August 2015

Background

Previous studies investigating the known risk factors of atherosclerosis in phenylketonuria patients have shown conflicting results. The primary aim of our study was to investigate the serum atherogenic markers in adolescent classical phenylketonuria patients and compare these parameters with healthy peers. The secondary aim was to compare these atherogenic markers in well-controlled and poorly controlled patients.

Methods

A total of 59 patients (median age: 12.6 years, range: 11–17 years) and 44 healthy controls (median age: 12.0 years, range: 11–15 years) were enrolled in our study. Phenylketonuria patients were divided into two groups: well-controlled (serum phenylalanine levels below 360 µmol/L; 24 patients) and poorly controlled patients (serum phenylalanine levels higher than 360 µmol/L).

Results

The mean high-density lipoprotein cholesterol levels of well-controlled patients (1.0±0.2 mmol/L) were significantly lower compared with poorly controlled patients and controls (1.1±0.2 mmol/L, p=0.011 and 1.4±0.2 mmol/L, p<0.001, respectively). Poorly controlled patients had lower high-density lipoprotein cholesterol levels than healthy controls (p=0.003). Homocysteine levels of both well-controlled (9.8±6.4 µmol/L) and poorly controlled (9.2±5.6 µmol/L) patients were higher compared with controls (5.8±1.8 µmol/L, p<0.01). The mean platelet volume of well-controlled patients (9.5±1.1 fL) was higher than that of poorly controlled patients and controls (8.9±0.8 fL, p=0.024 and 7.7±0.6 fL, p<0.001, respectively).

Conclusion

Lower high-density lipoprotein cholesterol and higher homocysteine and mean platelet volume levels were detected in phenylketonuria patients. In particular, these changes were more prominent in well-controlled patients. We conclude that phenylketonuria patients might be at risk for atherosclerosis, and therefore screening for atherosclerotic risk factors should be included in the phenylketonuria therapy and follow-up in addition to other parameters.
Variation in nasal–obstruent clusters and its influence on price and mouth in Scouse
Authors: CARDOSO AMANDA
Published: August 2015

This article has two main goals: (i) to show how nasal–obstruent clusters interact with a Canadian-Raising-type pattern in Liverpool English and (ii) to provide evidence that fine phonetic variation in the realisation of nasal–obstruent clusters influences the production of the preceding vowels. I present quantitative evidence from an acoustic study on price and mouth vowel realisations before nasal–obstruent clusters in Liverpool English. The investigation looks at price and mouth separately before obstruents, nasals and nasal–obstruent clusters, in order to demonstrate that nasal–obstruent clusters influence vowels differently depending on the quality of the vowel. Price realisations before nasal–obstruent clusters are similar to productions before singleton obstruents with the same voicing. Specifically, price has a raised realisation before nasal–voiceless obstruent clusters, but a non-raised realisation before nasal–voiced obstruent clusters, which is the same pattern as before singleton obstruents. Mouth realisations preceding nasal–obstruent clusters show evidence of a greater influence from the nasal. The nucleus formant measurements are similar to those before singleton obstruents, but there is frequent monophthongisation preceding nasal–obstruent clusters in mouth, which is mainly found before singleton nasals. Furthermore, I show that the variation in nasal–obstruent clusters in Liverpool English helps to explain the differences in realisation of the target vowels. Nasal deletion is more frequent in nasal–voiceless obstruent clusters following price, leading to vowel productions similar to those before singleton voiceless obstruents. However, nasal durations are longer in nasal–obstruent clusters following mouth, leading to a greater influence of the nasal in the form of more monophthongal vowel productions.
The effect of mood induction and language of testing on bilingual creativity
Authors: KHARKHURIN ANATOLIY V. , ALTARRIBA JEANETTE
Published: August 2015

This study explores the hypothesis that language of testing and mood states can influence creativity in bilinguals. Arabic–English bilingual speakers were induced into positive or negative mood states using film clips and recall-of-events procedures. Then, participants’ creativity was assessed with the Abbreviated Torrance Test for Adults. Participants were tested in either English or Arabic. A Picture Naming Test revealed English as participants’ stronger language and Arabic as their weaker language. Testing in English was found to enhance verbal fluency and originality, as compared to testing in Arabic. Most importantly, an interactive effect of induction (positive, negative) and language of testing (English, Arabic) on creativity emerged. The results revealed two conditions beneficial for participants’ nonverbal originality: a positive mood state when tested in English and a negative mood state when tested in Arabic. These results are discussed in light of the interactive effect of mood induction and linguistic context (stronger vs. weaker) on an individual's creativity.
Macronutrient and micronutrient intakes of children in Oklahoma child-care centres, USA
Authors: Rasbold Andrea H , Adamiec Ruth , Anderson Michael P , Campbell Janis E , Horm Diane M , Sitton Leslie K , Sisson Susan B
Published: August 2015

Objective

To determine macronutrients and micronutrients in foods served to and consumed by children at child-care centres in Oklahoma, USA and compare them with Dietary Reference Intakes (DRI).

Design

Observed lunch nutrients compared with one-third of the age-based DRI (for 1–3 years-olds and 4–8-year-olds).

Settings

Oklahoma child-care centres (n25), USA.

Subjects

Children aged 3–5 years (n415).

Results

Regarding macronutrients, children were served 1782 (sd686) kJ (426 (sd164) kcal), 22·0 (sd9·0) g protein, 51·5 (sd20·4) g carbohydrate and 30·7 (sd8·7) % total fat; they consumed 1305 (sd669) kJ (312 (sd160 kcal), 16·0 (sd9·1) g protein, 37·6 (sd18·5) g carbohydrate and 28·9 (sd10·6) % total fat. For both age-based DRI: served energy (22–33 % of children), protein and carbohydrate exceeded; consumed energy (7–13 % of children) and protein exceeded, while carbohydrate was inadequate. Regarding micronutrients, for both age-based DRI: served Mg (65·9 (sd24·7) mg), Zn (3·8 (sd11·8) mg), vitamin A (249·9 (sd228·3) μg) and folate (71·9 (sd40·1) µg) exceeded; vitamin E (1·4 (sd2·1) mg) was inadequate; served Fe (2·8 (sd1·8) mg) exceeded only in 1–3-year-olds. Consumed folate (48·3 (sd38·4) µg) met; Ca (259·4 (sd146·2) mg) and Zn (2·3 (sd3·0) mg) exceeded for 1–3-year-olds, but were inadequate for 4–8-year-olds. For both age-based DRI: consumed Fe (1·9 (sd1·2) mg) and vitamin E (1·0 (sd1·7) mg) were inadequate; Mg (47·2 (sd21·8) mg) and vitamin A (155·0 (sd126·5) µg) exceeded.

Conclusions

Lunch at child-care centres was twice the age-based DRI for consumed protein, while energy and carbohydrate were inadequate. Areas of improvement for micronutrients pertain to Fe and vitamin E for all children; Ca, Zn, vitamin E and folate for older pre-schoolers. Adequate nutrients are essential for development and the study reveals where public health nutrition experts, policy makers and care providers should focus to improve the nutrient density of foods.
Prevalence and covariates of food insecurity among residents of single-room occupancy housing in Chicago, IL, USA
Authors: Bowen Elizabeth A , Bowen Sarah K , Barman-Adhikari Anamika
Published: August 2015

Objective

Emerging evidence suggests that food insecurity is a significant public health concern among people who are homeless or marginally housed. The present study assessed prevalence of food insecurity and its covariates among a group of marginally housed individuals living in single-room occupancy (SRO) dwellings, a population for which there is little extant health or nutrition research.

Design

Cross-sectional survey incorporating the Household Food Insecurity Access Scale.

Setting

Ten private SRO residences in the Uptown neighbourhood of Chicago, IL, USA, 2013.

Subjects

SRO residents over 18 years of age who were able to communicate verbally in English (n153).

Results

Food insecurity was widespread among SRO residents, with 75 % of the sample considered food insecure and 52 % meeting criteria for severe food insecurity. Bivariate analyses indicated that female gender, eating most meals at a soup kitchen, having a mental health condition, problem drinking, having at least one chronic health condition, and diabetes were all significantly associated with food insecurity. In the multivariate ordered logistic regression model, eating most meals at a soup kitchen remained as the only significant correlate of food insecurity (OR=10·13).

Conclusions

SRO residents and other marginally housed populations face unique food access challenges. Although targeted assistance in the form of food stamps and congregate meal programmes remains critical, efforts to prevent and address food insecurity among homeless and marginally housed individuals should include policy interventions that recognize poverty as the root cause of food insecurity and aim to increase overall income and improve housing conditions.
Gothic possessives, adjectives, and other modifiers in-ata
Authors: Ratkus Artūras
Published: August 2015

The paradigm of some possessive pronouns, adjectives, and some other modifiers in Gothic contains an instance of morphological variation in the neuter nominative and accusative singular, where the bare stem of the modifier alternates with the pronominally inflected form in-ata(for example,juggversusjuggata‘young’). In an effort to account for this morphological variation, this paper examines the evidence for the competition between the bare stem and inflected forms in-ataattested in the Gothic New Testament. Further, it assesses the synchronic and diachronic implications of the variation with a view to gaining a better understanding of the development of the Germanic strong modifier inflection. It demonstrates that-atais a stylistically charged form observed in specific contexts and grammatical environments. From a diachronic point of view, the evidence of-atasheds light on the development of the Germanic strong modifier inflection, pointing toward a lexical diffusion-type development, with the inflection of demonstrative pronouns spreading across the lexicon of modifiers through possessive pronouns and quantifiers to adjectives and participles.*
Results of the market-oriented reform in the Netherlands: a review
Authors: Maarse Hans , Jeurissen Patrick , Ruwaard Dirk
Published: August 2015

The market-oriented reform in the Dutch health care system is now in its 10th year. This article offers a concise overview of some of its effects thus far on health insurance, healthcare purchasing and healthcare provision. Furthermore, attention is given to its impact on healthcare expenditures, power and trust relationships as well as the relationship between the Minister of Health and the Dutch Healthcare Authority. The reform triggered various alterations in Dutch health care some occurring quickly (e.g. health insurance), others taking longer (e.g. purchasing). These developments suggest a process of gradual transformation. The reform has instigated controversy which is increasingly framed as a power conflict between insurers and providers. Weakened consumer trust in insurers threatens the legitimacy of the reform. The relationship between Minister and Healthcare Authority appears to be more intimate than the formal independent status of this regulatory agency would suggest.
FROM TEXT TO SCREEN: CELLULOID HELENS AND FEMALE STARDOM IN THE 1950s
Authors: Nikoloutsos Konstantinos P.
Published: August 2015

This paper investigates the visual recreation of Helen in the medium of cinema by using as case studies two runaway productions of the 1950s:L'amante di Paridestarring Hedy Lamarr andHelen of Troywith Rosanna Podestà in the title role. Examination of features such as costumes, makeup and hairstyle shows that in the former film Helen's representation is informed by and seeks to capitalize on Lamarr's status as a queen of glamour, equating Greek royalty with Hollywood royalty. The analysis of the second film explores further the homology between ancient and modern celebrity on screen and in extra-cinematic discourses, and shows how Podestà's stardom was built on and remained anchored in Helen's iconicity.
The northernmost records of two Neoclinus blennies (Teleostei: Chaenopsidae) from the Sea of Japan
Authors: Murase Atsunobu , Tashiro Fumihito , Awata Satoshi
Published: August 2015

Two chaenopsid fishes,Neoclinus chihiroeandNeoclinus lacunicola, were collected from Sadogashima Island, the Sea of Japan. The collected specimens represent the northernmost records of the two species and the first voucher specimens from the Sea of Japan. Morphological information and colour photographs, including underwater photos, of these specimens were provided. Additional photographic evidence from Tobi-shima Island, ~100 km north-north-east of Sadogashima Island, further extended the northernmost record ofNeoclinus lacunicola.
Tunable multiport system for measurement of two-port scattering parameters
Authors: Staszek Kamil , Gruszczynski Slawomir , Wincza Krzysztof
Published: August 2015

A novel multiport system, allowing for measurements of scattering parameters in over-two-octave frequency range is proposed. It is composed of two directional couplers and a standard 4 × 4 Butler matrix, and does not require any isolators. The presented system features a uniform power distribution providing the high precision of measurements, which can be further enhanced by a simple adjustment of the system's parameters. A comprehensive analysis of the proposed system configurations, a fully analytical calibration for transmission coefficient measurement, and the estimation of maximum measurement error are given. The proposed measuring system has been experimentally verified in a wide frequency range 1–5 GHz, by measurements of S-parameters of exemplary components. The measurement results are very close to the values obtained with the use of a commercial vector network analyser within the 50 dB range of measured values’ magnitude.
Review of the importance of nutrition during the first 1000 days: maternal nutritional status and its associations with fetal growth and birth, neonatal and infant outcomes among African women
Authors: Wrottesley S. V. , Lamper C. , Pisa P. T.
Published: August 2015

Maternal nutritional status (MNS) is a strong predictor of growth and development in the first 1000 days of life and may influence susceptibility to non-communicable diseases in adulthood. However, the role of nutrition during this window of developmental plasticity in Africa is unclear. This paper reviews published data to address whether maternal nutrition during the first 1000 days is important for Africa, with a focus on MNS and its associations with fetal growth and birth, neonatal and infant outcomes. A systematic approach was used to search the following databases: Medline, EMBASE, Web of Science, Google Scholar, ScienceDirect, SciSearch and Cochrane Library. In all, 26 studies met the inclusion criteria for the specific objectives. MNS in Africa showed features typical of the epidemiological transition: higher prevalences of maternal overweight and obesity and lower underweight, poor diet quality 1 and high anaemia prevalence. Maternal body mass index and greater gestational weight gain (GWG) were positively associated with birth weight; however, maternal overweight and obesity were associated with increased risk of macrosomia and intrauterine growth restriction. Maternal anaemia was associated with lower birth weight. Macro- and micronutrient supplementation during pregnancy were associated with improvements in GWG, birth weight and mortality risk. Data suggest poor MNS in Africa and confirms the importance of the first 1000 days as a critical period for nutritional intervention to improve growth, birth outcomes and potential future health risk. However, there is a lack of data beyond birth and a need for longitudinal data through infancy to 2 years of age.
From Mindless Masses to Small Groups: Conceptualizing Collective Behavior in Crowd Modeling
Authors: Templeton Anne , Drury John , Philippides Andrew
Published: August 2015

Computer simulations are increasingly used to monitor and predict behavior at large crowd events, such as mass gatherings, festivals and evacuations. We critically examine the crowd modeling literature and call for future simulations of crowd behavior to be based more closely on findings from current social psychological research. A systematic review was conducted on the crowd modeling literature ( N = 140 articles) to identify the assumptions about crowd behavior that modelers use in their simulations. Articles were coded according to the way in which crowd structure was modeled. It was found that 2 broad types are used: mass approaches and small group approaches. However, neither the mass nor the small group approaches can accurately simulate the large collective behavior that has been found in extensive empirical research on crowd events. We argue that to model crowd behavior realistically, simulations must use methods which allow crowd members to identify with each other, as suggested by self-categorization theory.
Why Psychology Isn't Unified, and Probably Never Will Be
Authors: Green Christopher D.
Published: August 2015

Over the past few decades, a large literature has emerged on the question of how one might unify all or most of psychology under a single, coherent, rigorous framework, in a manner similar to that which unified physics under Newton's Laws, or biology under Darwin's theory of natural selection. It is argued here that this is a highly unlikely scenario in psychology given the contingent and opportunistic character of the processes that brought its original topics together into a new discipline, and the nearly continuous institutional, social, and even political negotiating and horse-trading that has determined psychology's “boundaries” in the 14 decades since. Psychology, as the field currently stands, does not have the intellectual coherence to be brought together by any set of principles that would enable its phenomena to be captured and explained as rigorous products of those principles. If there is a kind of unification in psychology's future, it is more likely to be one that, paradoxically, sees it broken up into a number of large “super-subdisciplines,” each of which exhibits more internal coherence than does the current sprawling and heterogeneous whole.
Involvement of inhibitory PAS domain protein in neuronal cell death in Parkinson’s disease
Authors: Torii S , Kasai S , Suzuki A , Todoroki Y , Yokozawa K , Yasumoto K-I , Seike N , Kiyonari H , Mukumoto Y , Kakita A , Sogawa K
Published: August 2015

Inhibitory PAS domain protein (IPAS), a repressor of hypoxia-inducible factor-dependent transcription under hypoxia, was found to exert pro-apoptotic activity in oxidative stress-induced cell death. However, physiological and pathological processes associated with this activity are not known. Here we show that IPAS is a key molecule involved in neuronal cell death in Parkinson’s disease (PD). IPAS was ubiquitinated by Parkin for proteasomal degradation following carbonyl cyanide m-chlorophenyl hydrazone treatment. Phosphorylation of IPAS at Thr12 by PTEN-induced putative kinase 1 (PINK1) was required for ubiquitination to occur. Activation of the PINK1–Parkin pathway attenuated IPAS-dependent apoptosis. IPAS was markedly induced in the midbrain following 1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine (MPTP) administration, and IPAS-deficient mice showed resistance to MPTP-induced degeneration of dopaminergic neurons in the substantia nigra pars compacta (SNpc). A significant increase in IPAS expression was found in SNpc neurons in patients with sporadic PD. These results indicate a mechanism of neurodegeneration in PD.
An openable artificial intestinal tract system for the in vitro evaluation of medicines
Authors: Konishi Satoshi , Fujita Takuya , Hattori Koji , Kono Yusuke , Matsushita Yoshifumi
Published: August 2015

In vitro drug screening systems for pharmacological targets have been studied as substitutes for whole-animal experiments. Cultured cells or tissues provide promising substitution models when coupled with technological innovations in micro total analysis systems. In this study, we focus on an intestinal drug absorption assay, as the oral route is most frequently used for drug administration. Pharmacological studies have reported the development of artificial vessels that include tubular structures. However, it is difficult to observe the insides of these tubes in situ. To address this problem, we developed a micro-device that uses a pneumatic balloon actuator (PBA) to open and close an artificial intestinal tract. A human colon carcinoma cell line (Caco-2) was cultivated on the flat surface of the micro-device for 7 days to form the inner cellular layer of an artificial intestinal tract with which to evaluate drug transport. The artificial intestinal tract was completely actuated from a flat plate to a circular tube via a PBA with a pressure of 65 kPa, and drugs were perfused at a flow rate of 0.05 mL min−1 into the tubular artificial intestinal tract for 1 h. Using the openable artificial intestinal tract, the in vitro absorption of calcein and Texas Red were successfully estimated as models of hydrophilic and hydrophobic drugs, respectively. The artificial intestinal tract enables the effective evaluation of the in vitro intestinal absorption of drug candidates and contributes to the reduction of costs incurred during the initial stage of drug development.
Sperm navigation along helical paths in 3D chemoattractant landscapes
Authors: Jikeli Jan F. , Alvarez Luis , Friedrich Benjamin M. , Wilson Laurence G. , Pascal René , Colin Remy , Pichlo Magdalena , Rennhack Andreas , Brenker Christoph , Kaupp U. Benjamin
Published: August 2015

Sperm require a sense of direction to locate the egg for fertilization. They follow gradients of chemical and physical cues provided by the egg or the oviduct. However, the principles underlying three-dimensional (3D) navigation in chemical landscapes are unknown. Here using holographic microscopy and optochemical techniques, we track sea urchin sperm navigating in 3D chemoattractant gradients. Sperm sense gradients on two timescales, which produces two different steering responses. A periodic component, resulting from the helical swimming, gradually aligns the helix towards the gradient. When incremental path corrections fail and sperm get off course, a sharp turning manoeuvre puts sperm back on track. Turning results from an ‘off’ Ca2+ response signifying a chemoattractant stimulation decrease and, thereby, a drop in cyclic GMP concentration and membrane voltage. These findings highlight the computational sophistication by which sperm sample gradients for deterministic klinotaxis. We provide a conceptual and technical framework for studying microswimmers in 3D chemical landscapes.
Batf is important for IL-4 expression in T follicular helper cells
Authors: Sahoo Anupama , Alekseev Andrei , Tanaka Kentaro , Obertas Lidiya , Lerman Beatrisa , Haymaker Cara , Clise-Dwyer Karen , McMurray John S. , Nurieva Roza
Published: August 2015

Apart from T helper (Th)-2 cells, T follicular helper (Tfh) cells are a major class of IL-4-producing T cells, required for regulation of type 2 humoral immunity; however, transcriptional control of IL-4 production in Tfh cells remains mainly unknown. Here, we show that the basic leucine zipper transcription factor ATF-like, Batf is important for IL-4 expression in Tfh cells rather than in canonical Th2 cells. Functionally, Batf in cooperation with interferon regulatory factor (IRF) 4 along with Stat3 and Stat6 trigger IL-4 production in Tfh cells by directly binding to and activation of the CNS2 region in the IL-4 locus. In addition, Batf-to-c-Maf signalling is an important determinant of IL-4 expression in Tfh cells. Batf deficiency impairs the generation of IL-4-producing Tfh cells that results in protection against allergic asthma. Our results thus indicate a positive role of Batf in promoting the generation of pro-allergic IL-4-producing Tfh cells.
Cell shape dynamics during the staphylococcal cell cycle
Authors: Monteiro João M. , Fernandes Pedro B. , Vaz Filipa , Pereira Ana R. , Tavares Andreia C. , Ferreira Maria T. , Pereira Pedro M. , Veiga Helena , Kuru Erkin , VanNieuwenhze Michael S. , Brun Yves V. , Filipe Sérgio R. , Pinho Mariana G.
Published: August 2015

Staphylococcus aureus is an aggressive pathogen and a model organism to study cell division in sequential orthogonal planes in spherical bacteria. However, the small size of staphylococcal cells has impaired analysis of changes in morphology during the cell cycle. Here we use super-resolution microscopy and determine that S. aureus cells are not spherical throughout the cell cycle, but elongate during specific time windows, through peptidoglycan synthesis and remodelling. Both peptidoglycan hydrolysis and turgor pressure are required during division for reshaping the flat division septum into a curved surface. In this process, the septum generates less than one hemisphere of each daughter cell, a trait we show is common to other cocci. Therefore, cell surface scars of previous divisions do not divide the cells in quadrants, generating asymmetry in the daughter cells. Our results introduce a need to reassess the models for division plane selection in cocci.
Urothelial cells undergo epithelial-to-mesenchymal transition after exposure to muscle invasive bladder cancer exosomes
Authors: Franzen C A , Blackwell R H , Todorovic V , Greco K A , Foreman K E , Flanigan R C , Kuo P C , Gupta G N
Published: August 2015

Bladder cancer, the fourth most common noncutaneous malignancy in the United States, is characterized by high recurrence rate, with a subset of these cancers progressing to a deadly muscle invasive form of disease. Exosomes are small secreted vesicles that contain proteins, mRNA and miRNA, thus potentially modulating signaling pathways in recipient cells. Epithelial-to-mesenchymal transition (EMT) is a process by which epithelial cells lose their cell polarity and cell–cell adhesion and gain migratory and invasive properties to become mesenchymal stem cells. EMT has been implicated in the initiation of metastasis for cancer progression. We investigated the ability of bladder cancer-shed exosomes to induce EMT in urothelial cells. Exosomes were isolated by ultracentrifugation from T24 or UMUC3 invasive bladder cancer cell conditioned media or from patient urine or bladder barbotage samples. Exosomes were then added to the urothelial cells and EMT was assessed. Urothelial cells treated with bladder cancer exosomes showed an increased expression in several mesenchymal markers, including α-smooth muscle actin, S100A4 and snail, as compared with phosphate-buffered saline (PBS)-treated cells. Moreover, treatment of urothelial cells with bladder cancer exosomes resulted in decreased expression of epithelial markers E-cadherin and β-catenin, as compared with the control, PBS-treated cells. Bladder cancer exosomes also increased the migration and invasion of urothelial cells, and this was blocked by heparin pretreatment. We further showed that exosomes isolated from patient urine and bladder barbotage samples were able to induce the expression of several mesenchymal markers in recipient urothelial cells. In conclusion, the research presented here represents both a new insight into the role of exosomes in transition of bladder cancer into invasive disease, as well as an introduction to a new platform for exosome research in urothelial cells.
Global database of matched Plasmodium falciparum and P. vivax incidence and prevalence records from 1985–2013
Authors: Battle Katherine E. , Guerra Carlos A. , Golding Nick , Duda Kirsten A. , Cameron Ewan , Howes Rosalind E. , Elyazar Iqbal R.F. , Baird J. Kevin , Reiner Robert C. , Gething Peter W. , Smith David L. , Hay Simon I.
Published: August 2015

Measures of clinical incidence are necessary to help estimate the burden of a disease. Incidence is a metric not commonly measured in malariology because the longitudinal surveys required are costly and labour intensive. This database is an effort to collate published incidence records obtained using active case detection for Plasmodium falciparum and Plasmodium vivax malaria. The literature search methods, data abstraction procedures and data processing procedures are described here. A total of 1,680 spatio-temporally unique incidence records were collected for the database: 1,187 for P. falciparum and 493 for P. vivax. These data were gathered to model the relationship between clinical incidence and prevalence of infection and can be used for a variety of modelling exercises including the assessment of change in disease burden in relation to age and control interventions. The subset of data that have been used for such modelling exercises are described and identified.
The Pacific Northwest National Laboratory library of bacterial and archaeal proteomic biodiversity
Authors: Payne Samuel H. , Monroe Matthew E. , Overall Christopher C. , Kiebel Gary R. , Degan Michael , Gibbons Bryson C. , Fujimoto Grant M. , Purvine Samuel O. , Adkins Joshua N. , Lipton Mary S. , Smith Richard D.
Published: August 2015

This Data Descriptor announces the submission to public repositories of the PNNL Biodiversity Library, a large collection of global proteomics data for 112 bacterial and archaeal organisms. The data comprises 35,162 tandem mass spectrometry (MS/MS) datasets from ~10 years of research. All data has been searched, annotated and organized in a consistent manner to promote reuse by the community. Protein identifications were cross-referenced with KEGG functional annotations which allows for pathway oriented investigation. We present the data as a freely available community resource. A variety of data re-use options are described for computational modelling, proteomics assay design and bioengineering. Instrument data and analysis files are available at ProteomeXchange via the MassIVE partner repository under the identifiers PXD001860 and MSV000079053.
Point mutations in KAL1 and the mitochondrial gene MT-tRNAcys synergize to produce Kallmann syndrome phenotype
Authors: Wang Fei , Huang Guo-dong , Tian Hui , Zhong Ying-bin , Shi Hui-juan , Li Zheng , Zhang Xian-sheng , Wang Han , Sun Fei
Published: August 2015

Kallmann syndrome (KS) is an inherited developmental disorder defined as the association of hypogonadotropic hypogonadism and anosmia or hyposmia. KS has been shown to be a genetically heterogeneous disease with different modes of inheritance. However, variants in any of the causative genes identified so far are only found in approximately one third of KS patients, thus indicating that other genes or pathways remain to be discovered. Here, we report a large Han Chinese family with inherited KS which harbors two novel variants, KAL1 c.146G>T (p.Cys49Phe) and mitochondrial tRNAcys (m.5800A>G). Although two variants can’t exert obvious effects on the migration of GnRH neurons, they show the synergistic effect, which can account for the occurrence of the disorder in this family. Furthermore, the disturbance of the mitochondrial cysteinyl-tRNA pathway can significantly affect the migration of GnRH cells in vitro and in vivo by influencing the chemomigration function of anosmin-1. Our work highlights a new mode of inheritance underlay the genetic etiology of KS and provide valuable clues to understand the disease development.
Moiré induced organization of size-selected Pt clusters soft landed on epitaxial graphene
Authors: Linas Sébastien , Jean Fabien , Zhou Tao , Albin Clément , Renaud Gilles , Bardotti Laurent , Tournus Florent
Published: August 2015

Two-dimensional hexagonal arrays of Pt nanoparticles (1.5 nm diameter) have been obtained by deposition of preformed and size selected Pt nanoparticles on graphene. This original self-organization is induced, at room temperature, by the 2D periodic undulation (the moiré pattern) of graphene epitaxially grown on the Ir(111) surface. By means of complementary techniques (scanning tunneling microscopy, grazing incidence X ray scattering), the Pt clusters shapes and organization are characterized and the structural evolution during annealing is investigated. The soft-landed clusters remain quasi-spherical and a large proportion appears to be pinned on specific moiré sites. The quantitative determination of the proportion of organized clusters reveals that the obtained hexagonal array of the almost spherical nanoparticles is stable up to 650 K, which is an indication of a strong cluster-surface interaction.
Bacterial floc mediated rapid streamer formation in creeping flows
Authors: Hassanpourfard Mahtab , Nikakhtari Zahra , Ghosh Ranajay , Das Siddhartha , Thundat Thomas , Liu Yang , Kumar Aloke
Published: August 2015

One of the central puzzles concerning the interaction of low Reynolds number "Equation missing" fluid transport with bacterial biomass is the formation of filamentous structures called streamers. In this manuscript, we report our discovery of a new kind of low Re bacterial streamers, which appear from pre-formed bacterial flocs. In sharp contrast to the biofilm-mediated streamers, these streamers form over extremely small timescales (less than a second). Our experiments, carried out in a microchannel with micropillars rely on fluorescence microscopy techniques to illustrate that floc-mediated streamers form when a freely-moving floc adheres to the micropillar wall and gets rapidly sheared by the background flow. We also show that at their inception the deformation of the flocs is dominated by recoverable large strains indicating significant elasticity. These strains subsequently increase tremendously to produce filamentous streamers. Interestingly, we find that these fully formed streamers are not static structures and show viscous response at time scales larger than their formation time scales. Finally, we show that such novel streamer formation can lead to rapid clogging of microfluidic devices.
Machine Learning methods for Quantitative Radiomic Biomarkers
Authors: Parmar Chintan , Grossmann Patrick , Bussink Johan , Lambin Philippe , Aerts Hugo J. W. L.
Published: August 2015

Radiomics extracts and mines large number of medical imaging features quantifying tumor phenotypic characteristics. Highly accurate and reliable machine-learning approaches can drive the success of radiomic applications in clinical care. In this radiomic study, fourteen feature selection methods and twelve classification methods were examined in terms of their performance and stability for predicting overall survival. A total of 440 radiomic features were extracted from pre-treatment computed tomography (CT) images of 464 lung cancer patients. To ensure the unbiased evaluation of different machine-learning methods, publicly available implementations along with reported parameter configurations were used. Furthermore, we used two independent radiomic cohorts for training (n = 310 patients) and validation (n = 154 patients). We identified that Wilcoxon test based feature selection method WLCX (stability = 0.84 ± 0.05, AUC = 0.65 ± 0.02) and a classification method random forest RF (RSD = 3.52%, AUC = 0.66 ± 0.03) had highest prognostic performance with high stability against data perturbation. Our variability analysis indicated that the choice of classification method is the most dominant source of performance variation (34.21% of total variance). Identification of optimal machine-learning methods for radiomic applications is a crucial step towards stable and clinically relevant radiomic biomarkers, providing a non-invasive way of quantifying and monitoring tumor-phenotypic characteristics in clinical practice.
Generation of Subwavelength Plasmonic Nanovortices via Helically Corrugated Metallic Nanowires
Authors: Huang Changming , Chen Xianfeng , Oladipo Abiola O. , Panoiu Nicolae C. , Ye Fangwei
Published: August 2015

We demonstrate that plasmonic helical gratings consisting of metallic nanowires imprinted with helical grooves or ridges can be used efficiently to generate plasmonic vortices with radius much smaller than the operating wavelength. In our proposed approach, these helical surface gratings are designed so that plasmon modes with different azimuthal quantum numbers (topological charge) are phase-matched, thus allowing one to generate optical plasmonic vortices with arbitrary topological charge. The general principles for designing plasmonic helical gratings that facilitate efficient generation of such plasmonic vortices are derived and their applicability to the conversion of plasmonic vortices with zero angular momentum into plasmonic vortices with arbitrary angular momentum is illustrated in several particular cases. Our analysis, based both on the exact solutions for the electromagnetic field propagating in the helical plasmonic grating and a coupled-mode theory, suggests that even in the presence of metal losses the fundamental mode with topological charge m = 0 can be converted to plasmon vortex modes with topological charge m = 1 and m = 2 with a conversion efficiency as large as 60%. The plasmonic nanovortices introduced in this study open new avenues for exciting applications of orbital angular momentum in the nanoworld.
Magma injection beneath the urban area of Naples: a new mechanism for the 2012–2013 volcanic unrest at Campi Flegrei caldera
Authors: D’Auria Luca , Pepe Susi , Castaldo Raffaele , Giudicepietro Flora , Macedonio Giovanni , Ricciolino Patrizia , Tizzani Pietro , Casu Francesco , Lanari Riccardo , Manzo Mariarosaria , Martini Marcello , Sansosti Eugenio , Zinno Ivana
Published: August 2015

We found the first evidence, in the last 30 years, of a renewed magmatic activity at Campi Flegrei caldera from January 2012 to June 2013. The ground deformation, observed through satellite interferometry and GPS measurements, have been interpreted as the effect of the intrusion at shallow depth (3090 ± 138 m) of 0.0042 ± 0.0002 km3 of magma within a sill. This interrupts about 28 years of dominant hydrothermal activity and occurs in the context of an unrest phase which began in 2005 and within a more general ground uplift that goes on since 1950. This discovery has implications on the evaluation of the volcanic risk and in the volcanic surveillance of this densely populated area.
Impaired Activity of Blood Coagulant Factor XIII in Patients with Necrotizing Enterocolitis
Authors: Tao Guo-Zhong , Liu Bo , Zhang Rong , Liu Gigi , Abdullah Fizan , Harris Mary Cay , Brandt Mary L. , Ehrenkranz Richard A. , Bowers Corinna , Martin Camilia R. , Moss R. Lawrence , Sylvester Karl G.
Published: August 2015

Necrotizing enterocolitis (NEC) is the most common gastrointestinal (GI) medical/surgical emergency of the newborn and a leading cause of preterm neonate morbidity and mortality. NEC is a challenge to diagnose since it often shares similar clinical features with neonatal sepsis. In the present study, plasma protein profiling was compared among NEC, sepsis and control cohorts using gel electrophoresis, immunoblot and mass spectrometry. We observed significant impairment in the formation of fibrinogen-γ dimers (FGG-dimer) in the plasma of newborns with NEC that could efficiently differentiate NEC and sepsis with a high level of sensitivity and specificity. Interestingly, the impaired FGG-dimer formation could be restored in NEC plasma by the addition of exogenous active factor XIII (FXIII). Enzymatic activity of FXIII was determined to be significantly lower in NEC subject plasma for crosslinking FGG when compared to sepsis. These findings demonstrate a potential novel biomarker and related biologic mechanism for diagnosing NEC, as well as suggest a possible therapeutic strategy.
Transfer Effect of Speech-sound Learning on Auditory-motor Processing of Perceived Vocal Pitch Errors
Authors: Chen Zhaocong , Wong Francis C. K. , Jones Jeffery A. , Li Weifeng , Liu Peng , Chen Xi , Liu Hanjun
Published: August 2015

Speech perception and production are intimately linked. There is evidence that speech motor learning results in changes to auditory processing of speech. Whether speech motor control benefits from perceptual learning in speech, however, remains unclear. This event-related potential study investigated whether speech-sound learning can modulate the processing of feedback errors during vocal pitch regulation. Mandarin speakers were trained to perceive five Thai lexical tones while learning to associate pictures with spoken words over 5 days. Before and after training, participants produced sustained vowel sounds while they heard their vocal pitch feedback unexpectedly perturbed. As compared to the pre-training session, the magnitude of vocal compensation significantly decreased for the control group, but remained consistent for the trained group at the post-training session. However, the trained group had smaller and faster N1 responses to pitch perturbations and exhibited enhanced P2 responses that correlated significantly with their learning performance. These findings indicate that the cortical processing of vocal pitch regulation can be shaped by learning new speech-sound associations, suggesting that perceptual learning in speech can produce transfer effects to facilitating the neural mechanisms underlying the online monitoring of auditory feedback regarding vocal production.
Functional Ser205Leu polymorphism of the nerve growth factor receptor (NGFR) gene is associated with vagal autonomic dysregulation in humans
Authors: Chang Chuan-Chia , Fang Wen-Hui , Chang Hsin-An , Huang San-Yuan
Published: August 2015

Evidence indicates that reduced cardiac vagal (parasympathetic) tone, a robust cardiovascular risk factor, is a trait vulnerability marker of major depressive disorder (MDD). The Ser205/Ser205 genotype of the functional polymorphism (Ser205Leu) of the nerve growth factor receptor (NGFR), also called p75 neurotrophin receptor (p75NTR), gene is reported to increase the risk of MDD. Here, we hypothesized that the NGFR Ser205Leu polymorphism may have an effect on vagal control. A sample of 810 healthy, drug-free, unrelated Han Chinese (413 males, 397 females; mean age 35.17 ± 8.53 years) was included in the NGFR genotyping. Short-term heart rate variability (HRV) was used to assess vagus-mediated autonomic function. Potential HRV covariates, such as mood/anxiety status and serum metabolic parameters, were assessed. Homozygotes of the Ser205 allele had significantly lower high frequency power and root mean square of successive heartbeat interval differences, both HRV indices of vagal modulation, compared to Leu205 allele carriers. Even after adjusting for relevant confounders, these associations remained significant. Further stratification by sex revealed that the associations were observed only in males. Our results implicate that decreased parasympathetic activity is associated with the NGFR Ser205/Ser205 genotype in a gender-specific manner, suggesting a potential role of NGFR polymorphism in modulating cardiac autonomic function.
Separability criteria via sets of mutually unbiased measurements
Authors: Liu Lu , Gao Ting , Yan Fengli
Published: August 2015

Mutually unbiased measurements (MUMs) are generalized from the concept of mutually unbiased bases (MUBs) and include the complete set of MUBs as a special case, but they are superior to MUBs as they do not need to be rank one projectors. We investigate entanglement detection using sets of MUMs and derive separability criteria for multipartite qudit systems, arbitrary high-dimensional bipartite systems of ad1-dimensional subsystem and ad2-dimensional subsystem and multipartite systems of multi-level subsystems. These criteria are of the advantages of more effective and wider application range than previous criteria. They provide experimental implementation in detecting entanglement of unknown quantum states.
DKK1 rescues osteogenic differentiation of mesenchymal stem cells isolated from periodontal ligaments of patients with diabetes mellitus induced periodontitis
Authors: Liu Qi , Hu Cheng-Hu , Zhou Cui-Hong , Cui Xiao-Xia , Yang Kun , Deng Chao , Xia Jia-Jia , Wu Yan , Liu Lu-Chuan , Jin Yan
Published: August 2015

Multiple studies have shown that diabetes mellitus is an established risk factor for periodontitis. Recently mesenchymal stem cells derived from periodontal ligament (PDLSCs) have been utilized to reconstruct tissues destroyed by chronic inflammation. However, impact of periodontitis with diabetes mellitus on PDLSCs and mechanisms mediating effects of complex microenvironments remain poorly understood. In this study, we found multiple differentiation potential of PDLSCs from chronic periodontitis with diabetes mellitus donors (D-PDLSCs) was damaged significantly. Inhibition of NF-κB signaling could rescue osteogenic potential of PDLSCs from simple chronic periodontitis patients (P-PDLSCs), whereas did not promote D-PDLSCs osteogenesis. In addition, we found expression of DKK1 in D-PDLSCs did not respond to osteogenic signal and decreased osteogenic potential of D-PDLSCs treated with DKK1 could be reversed. To further elucidate different character between P-PDLSCs and D-PDLSCs, we treated PDLSCs with TNF-α and advanced glycation end products (AGEs) and find out AGEs which enhance effect of TNF-α in PDLSCs might mediate special personality of D-PDLSCs. The adverse effect of AGEs in PDLSCs could be reversed when PDLSCs were treated with DKK1. These results suggested DKK1 mediating WNT signaling might be a therapy target to rescue potential of PDLSCs in periodontitis with diabetes mellitus.
Quantum Simulator for Transport Phenomena in Fluid Flows
Authors: Mezzacapo A. , Sanz M. , Lamata L. , Egusquiza I. L. , Succi S. , Solano E.
Published: August 2015

Transport phenomena still stand as one of the most challenging problems in computational physics. By exploiting the analogies between Dirac and lattice Boltzmann equations, we develop a quantum simulator based on pseudospin-boson quantum systems, which is suitable for encoding fluid dynamics transport phenomena within a lattice kinetic formalism. It is shown that both the streaming and collision processes of lattice Boltzmann dynamics can be implemented with controlled quantum operations, using a heralded quantum protocol to encode non-unitary scattering processes. The proposed simulator is amenable to realization in controlled quantum platforms, such as ion-trap quantum computers or circuit quantum electrodynamics processors.
Crack formation and prevention in colloidal drops
Authors: Kim Jin Young , Cho Kun , Ryu Seul-a , Kim So Youn , Weon Byung Mook
Published: August 2015

Crack formation is a frequent result of residual stress release from colloidal films made by the evaporation of colloidal droplets containing nanoparticles. Crack prevention is a significant task in industrial applications such as painting and inkjet printing with colloidal nanoparticles. Here, we illustrate how colloidal drops evaporate and how crack generation is dependent on the particle size and initial volume fraction, through direct visualization of the individual colloids with confocal laser microscopy. To prevent crack formation, we suggest use of a versatile method to control the colloid-polymer interactions by mixing a nonadsorbing polymer with the colloidal suspension, which is known to drive gelation of the particles with short-range attraction. Gelation-driven crack prevention is a feasible and simple method to obtain crack-free, uniform coatings through drying-mediated assembly of colloidal nanoparticles.