bluuebunny/crossref_metadata_2025_split huggingface dataset:
IFN-α/IFN-λ responses to respiratory viruses in paediatric asthma
Authors: Bergauer Annika , Sopel Nina , Kroß Bettina , Vuorinen Tytti , Xepapadaki Paraskevi , Weiss Scott T. , Blau Ashley , Sharma Himanshu , Kraus Cornelia , Springel Rebekka , Rauh Manfred , Mittler Susanne , Graser Anna , Zimmermann Theodor , Melichar Volker O. , Kiefer Alexander , Kowalski Marek L. , Sobanska Anna , Jartti Tuomas , Lukkarinen Heikki , Papadopoulos Nikolaos G. , Finotto Susetta 
Published: November 2016

We analysed the influence of rhinovirus (RV) in nasopharyngeal fluid (NPF) on type I and III interferon (IFN) responses (e.g.IFN-α and IFN-λ) and their signal transduction, at baseline and during disease exacerbation, in cohorts of pre-school children with and without asthma.At the time of recruitment into the Europe-wide study PreDicta, and during symptoms, NPF was collected and the local RV colonisation was analysed. Peripheral blood mononuclear cells (PBMCs) were challengedin vitrowith RV or not. RNA was analysed by quantitative real-time PCR and gene arrays. Serum was analysed with ELISA for IFNs and C-reactive protein.We found that PBMCs from asthmatic children infectedin vitrowith the RV1b serotype upregulatedMYD88,IRF1,STAT1andSTAT2mRNA, whereasMYD88,IRF1,STAT1andIRF9were predominantly induced in control children. Moreover, during symptomatic visits because of disease exacerbation associated with RV detection in NPF, IFN-α production was found increased, while IFN-λ secretion was already induced by RV in asthmatic children at baseline.During asthma exacerbations associated with RV, asthmatic children can induce IFN-α secretion, indicating a hyperactive immune response to repeated respiratory virus infection.
Correlates of tuberculosis risk: predictive biomarkers for progression to active tuberculosis
Authors: Petruccioli Elisa , Scriba Thomas J. , Petrone Linda , Hatherill Mark , Cirillo Daniela M. , Joosten Simone A. , Ottenhoff Tom H. , Denkinger Claudia M. , Goletti Delia 
Published: November 2016

New approaches to control the spread of tuberculosis (TB) are needed, including tools to predict development of active TB from latent TB infection (LTBI). Recent studies have described potential correlates of risk, in order to inform the development of prognostic tests for TB disease progression. These efforts have included unbiased approaches employing “omics” technologies, as well as more directed, hypothesis-driven approaches assessing a small set or even individual selected markers as candidate correlates of TB risk. Unbiased high-throughput screening of blood RNAseq profiles identified signatures of active TB risk in individuals with LTBI, ≥1 year before diagnosis. A recent infant vaccination study identified enhanced expression of T-cell activation markers as a correlate of risk prior to developing TB; conversely, high levels of Ag85A antibodies and high frequencies of interferon (IFN)-γ specific T-cells were associated with reduced risk of disease. Others have described CD27−IFN-γ+CD4+T-cells as possibly predictive markers of TB disease. T-cell responses to TB latency antigens, including heparin-binding haemagglutinin and DosR-regulon-encoded antigens have also been correlated with protection.Further studies are needed to determine whether correlates of risk can be used to prevent active TB through targeted prophylactic treatment, or to allow targeted enrolment into efficacy trials of new TB vaccines and therapeutic drugs.
Prevalence and characteristics ofTERTandTERCmutations in suspected genetic pulmonary fibrosis
Authors: Borie Raphael , Tabèze Laure , Thabut Gabriel , Nunes Hilario , Cottin Vincent , Marchand-Adam Sylvain , Prevot Grégoire , Tazi Abdellatif , Cadranel Jacques , Mal Herve , Wemeau-Stervinou Lidwine , Bergeron Lafaurie Anne , Israel-Biet Dominique , Picard Clement , Reynaud Gaubert Martine , Jouneau Stephane , Naccache Jean-Marc , Mankikian Julie , Ménard Christelle , Cordier Jean-François , Valeyre Dominique , Reocreux Marion , Grandchamp Bernard , Revy Patrick , Kannengiesser Caroline , Crestani Bruno 
Published: November 2016

Telomerase reverse transcriptase (TERT) or telomerase RNA (TERC) gene mutation is a major monogenic cause of pulmonary fibrosis. Sequencing ofTERT/TERCgenes is proposed to patients with familial pulmonary fibrosis. Little is known about the possible predictors of this mutation and its impact on prognosis.We retrospectively analysed all the genetic diagnoses made between 2007–2014 in patients with pulmonary fibrosis. We evaluated the prevalence ofTERT/TERCdisease-associated variant (DAV), factors associated with a DAV, and the impact of the DAV on survival.237 patients with pulmonary fibrosis (153 with familial pulmonary fibrosis, 84 with telomere syndrome features without familial pulmonary fibrosis) were tested forTERT/TERCDAV. DAV was diagnosed in 40 patients (16.8%), including five with non-idiopathic interstitial pneumonia. Prevalence ofTERT/TERCDAV did not significantly differ between patients with familial pulmonary fibrosis or with only telomere syndrome features (18.2%versus16.4%). Young age, red blood cell macrocytosis, and low platelet count were associated with the presence of DAV; the probability of DAV was increased for patients 40–60 years. Transplant-free survival was lower with than withoutTERT/TERCDAV (4.2versus7.2 years; p=0.046).TERT/TERCDAV were associated with specific clinical and biological features and reduced transplant-free survival.
Feature-based classification of human transcription factors into hypothetical sub-classes related to regulatory function
Authors: Ehsani Rezvan , Bahrami Shahram , Drabløs Finn 
Published: November 2016

Abstract
Background
Transcription factors are key proteins in the regulation of gene transcription. An important step in this process is the opening of chromatin in order to make genomic regions available for transcription. Data on DNase I hypersensitivity has previously been used to label a subset of transcription factors as Pioneers, Settlers and Migrants to describe their potential role in this process. These labels represent an interesting hypothesis on gene regulation and possibly a useful approach for data analysis, and therefore we wanted to expand the set of labeled transcription factors to include as many known factors as possible. We have used a well-annotated dataset of 1175 transcription factors as input to supervised machine learning methods, using the subset with previously assigned labels as training set. We then used the final classifier to label the additional transcription factors according to their potential role as Pioneers, Settlers and Migrants. The full set of labeled transcription factors was used to investigate associated properties and functions of each class, including an analysis of interaction data for transcription factors based on DNA co-binding and protein-protein interactions. We also used the assigned labels to analyze a previously published set of gene lists associated with a time course experiment on cell differentiation.

Results
The analysis showed that the classification of transcription factors with respect to their potential role in chromatin opening largely was determined by how they bind to DNA. Each subclass of transcription factors was enriched for properties that seemed to characterize the subclass relative to its role in gene regulation, with very general functions for Pioneers, whereas Migrants to a larger extent were associated with specific processes. Further analysis showed that the expanded classification is a useful resource for analyzing other datasets on transcription factors with respect to their potential role in gene regulation. The analysis of transcription factor interaction data showed complementary differences between the subclasses, where transcription factors labeled as Pioneers often interact with other transcription factors through DNA co-binding, whereas Migrants to a larger extent use protein-protein interactions. The analysis of time course data on cell differentiation indicated a shift in the regulatory program associated with Pioneer-like transcription factors during differentiation.

Conclusions
The expanded classification is an interesting resource for analyzing data on gene regulation, as illustrated here on transcription factor interaction data and data from a time course experiment. The potential regulatory function of transcription factors seems largely to be determined by how they bind DNA, but is also influenced by how they interact with each other through cooperativity and protein-protein interactions.
Composite cell sheet for periodontal regeneration: crosstalk between different types of MSCs in cell sheet facilitates complex periodontal-like tissue regeneration
Authors: Zhang Hao , Liu Shiyu , Zhu Bin , Xu Qiu , Ding Yin , Jin Yan 
Published: November 2016

Abstract
Background
Tissue-engineering strategies based on mesenchymal stem cells (MSCs) and cell sheets have been widely used for periodontal tissue regeneration. However, given the complexity in periodontal structure, the regeneration methods using a single species of MSC could not fulfill the requirement for periodontal regeneration.

Methods
We researched the interaction between the periodontal ligament stem cells (PDLSCs) and jaw bone marrow-derived mesenchymal stem cells (JBMMSCs), and constructed a composite cell sheet comprising both of the above MSCs to regenerate complex periodontium-like structures in nude mice.

Results
Our results show that by co-culturing PDLSCs and JBMMSCs, the expressions of bone and extracellular matrix (ECM)-related genes and proteins were significantly improved in both MSCs. Further investigations showed that, compared to the cell sheet using PDLSCs or JBMMSCs, the composite stem cell sheet (CSCS), which comprises these two MSCs, expressed higher levels of bone- and ECM-related genes and proteins, and generated a composite structure more similar to the native periodontal tissue physiologically in vivo.

Conclusions
In conclusion, our results demonstrate that the crosstalk between PDLSCs and JBMMSCs in cell sheets facilitate regeneration of complex periodontium-like structures, providing a promising new strategy for physiological and functional regeneration of periodontal tissue.
Role of dendritic cell maturation factors produced by human invariant NKT cells in immune tolerance
Authors: Lee Hyeong-Woo , Jie Hyun Bae , Bollyky Paul L , Sarracino David , Kim Tong-Soo , Wilson Brian S 
Published: November 2016

Abstract
In this study, we used the culture supernatant of iNKT cells to identify human myeloid DC maturation factors produced by human CD4+ iNKT cells. S100A8 had a strong maturation effect. Notably, the recombinant S100A8 protein displayed properties of DC maturation functioning, and the induction of DC differentiation by both the purified and the recombinant protein were blocked by anti-S100A8 and anti-TLR-4 mAbs. DC differentiation induced by anti-major histocompatibility complex class II/CD1d Ab, S100A8, or both was qualitatively indistinguishable from that induced by the coculture of DCs and iNKT cells or via culture supplementation with supernatants from activated CD4+ iNKT cells. S100A8 also induced CD4+/CD25+/Foxp3+ Treg cells from naïve T cells. S100A8 may contribute to DC differentiation by elevating transcription factors or activating transcription factor-2, heat shock factor-1, or both, in mature DCs. S100A8 is a novel candidate iNKT cell-dependent DC maturation factor.
Chronic alcohol consumption inhibits peripheral NK cell development and maturation by decreasing the availability of IL-15
Authors: Zhang Faya , Little Alex , Zhang Hui 
Published: November 2016

Abstract
NK cells are innate immune cells and have important roles in antiviral and antitumor immunity. Based on the transcriptional regulation, organ distribution, and cell function, NK cells have recently been further divided into cytotoxic conventional NK cells (cNK) and noncytotoxic helper-like group 1 innate lymphoid cells (ILC1s). It is well known that chronic alcohol consumption decreases peripheral NK cell number and cytolytic activity; however, the underlying mechanism remains to be elucidated. How chronic alcohol consumption affects ILC1s is, to our knowledge, completely unexplored. Herein, we used a well-established mouse model of chronic alcohol consumption to study the effects of alcohol on transcription factor expression, maturation, and cytokine production of cNK cells and ILC1s in various organs. We found that alcohol consumption significantly decreased Eomes-expressing cNK cells in all the examined organs, except BM, but did not significantly affect ILC1s. Alcohol consumption compromised cNK cell development and maturation. Exogenous IL-15/IL-15Rα treatment caused full recovery of Eomes-expressing cNK cell number and maturation. Taken together, our data indicated that chronic alcohol consumption decreases cNK cell number and cytolytic activity by arresting cNK cell development at the CD27+CD11b+ stage. This developmental arrest of NK cells results from a lack of IL-15 availability in the microenvironment. IL-15/IL-15Rα treatment can recover alcohol consumption-induced developmental defect in NK cells.
Differing rates of antibody acquisition to merozoite antigens in malaria: implications for immunity and surveillance
Authors: McCallum Fiona J , Persson Kristina E M , Fowkes Freya J I , Reiling Linda , Mugyenyi Cleopatra K , Richards Jack S , Simpson Julie A , Williams Thomas N , Gilson Paul R , Hodder Anthony N , Sanders Paul R , Anders Robin F , Narum David L , Chitnis Chetan , Crabb Brendan S , Marsh Kevin , Beeson James G 
Published: November 2016

Abstract
Antibodies play a key role in acquired human immunity to Plasmodium falciparum (Pf) malaria and target merozoites to reduce or prevent blood-stage replication and the development of disease. Merozoites present a complex array of antigens to the immune system, and currently, there is only a partial understanding of the targets of protective antibodies and how responses to different antigens are acquired and boosted. We hypothesized that there would be differences in the rate of acquisition of antibodies to different antigens and how well they are boosted by infection, which impacts the acquisition of immunity. We examined responses to a range of merozoite antigens in 2 different cohorts of children and adults with different age structures and levels of malaria exposure. Overall, antibodies were associated with age, exposure, and active infection, and the repertoire of responses increased with age and active infection. However, rates of antibody acquisition varied between antigens and different regions within an antigen following exposure to malaria, supporting our hypothesis. Antigen-specific responses could be broadly classified into early response types in which antibodies were acquired early in childhood exposure and late response types that appear to require substantially more exposure for the development of substantial levels. We identified antigen-specific responses that were effectively boosted after recent infection, whereas other responses were not. These findings advance our understanding of the acquisition of human immunity to malaria and are relevant to the development of malaria vaccines targeting merozoite antigens and the selection of antigens for use in malaria surveillance.
Characterization of 5-(2-18F-fluoroethoxy)-L-tryptophan for PET imaging of the pancreas
Authors: Abbas Ahmed , Beamish Christine , McGirr Rebecca , Demarco John , Cockburn Neil , Krokowski Dawid , Lee Ting-Yim , Kovacs Michael , Hatzoglou Maria , Dhanvantari Savita 
Published: November 2016

Purpose: In diabetes, pancreatic beta cell mass declines significantly prior to onset of fasting hyperglycemia. This decline may be due to endoplasmic reticulum (ER) stress, and the system L amino acid transporter LAT1 may be a biomarker of this process. In this study, we used 5-(2-18F-fluoroethoxy)-L-tryptophan (18F-L-FEHTP) to target LAT1 as a potential biomarker of beta cell function in diabetes. Procedures: Uptake of 18F-L-FEHTP was determined in wild-type C57BL/6 mice by ex vivo biodistribution. Both dynamic and static positron emission tomography (PET) images were acquired in wild-type and Akita mice, a model of ER stress-induced diabetes, as well as in mice treated with streptozotocin (STZ). LAT1 expression in both groups of mice was evaluated by immunofluorescence microscopy. Results: Uptake of 18F-L-FEHTP was highest in the pancreas, and static PET images showed highly specific pancreatic signal. Time-activity curves showed significantly reduced 18F-L-FEHTP uptake in Akita mice, and LAT1 expression was also reduced. However, mice treated with STZ, in which beta cell mass was reduced by 62%, showed no differences in 18F-L-FEHTP uptake in the pancreas, and there was no significant correlation of 18F-L-FEHTP uptake with beta cell mass. Conclusions: 18F-L-FEHTP is highly specific for the pancreas with little background uptake in kidney or liver. We were able to detect changes in LAT1 in a mouse model of diabetes, but these changes did not correlate with beta cell function or mass. Therefore, 18F-L-FEHTP PET is not a suitable method for the noninvasive imaging of changes in beta cell function during the progression of diabetes.
In incontinence developing after radical prostatectomy the role of nurses on implementing behavioral therapy
Authors: Aydın Sayılan Aylin 
Published: November 2016

Developing after radical prostatectomy urinary incontinence (UI) is a major health problem affecting the quality of life of men. Urinary incontinence patients in their care and treatment purpose is to provide continence.In the treatment of urinary incontinence surgery, medication and behavioral treatments are used. For the purposes of behavioral therapy; increasing the capacity of the bladder function and is aimed at promoting bladder control. Behavioral treatments for incontinence; diet, exercise bladder training and pelvic floor muscle training (PFMT) is located. Diet is regulated by the bladder diary. PFME is first identified in 1948 by Arnold Kegel, which is aimed pelvic to strengthen the muscles of the base and are expressed in improving the urethral sphincter function. In the literature, in the treatment of incontinence; with drug therapy or surgery, it should be emphasized also behavioral therapy.
Predicting hopelessness by coping styles, depression and meaning in life<p>Başa çıkma stilleri, depresyon ve yaşamda anlamın umutsuzluğu yordama düzeyi
Authors: Savi Çakar Firdevs , Karataş Zeynep , Tagay Özlem 
Published: November 2016

The aim of this study is to determine whether levels of hopelessness are predicted by variables of coping styles, depression and meaning in life. This research is in survey model and the study was conducted with 152 teacher candidates (68 males, 84 females) who were senior students of the faculty of educational. It is used Beck Hopelessness Scale, Coping Styles Survey Short Form, Beck Depression Scale and Meaning in Life Scale. For the analysis of data, progressive regression analysis and Pearson Product-Moment Correlation Coefficient were used.In this respect, coping style, depression andmeaning in life are significantly predicted the sense of students’ hopelessness. ÖzetBu çalışmanın amacı, başa çıkma stilleri, depresyon ve yaşamda anlamın umutsuzluğu anlamlı düzeyde yordayıp yordamadığının saptanmasıdır. Bu araştırma betimsel bir çalışma olup, çalışma grubunu Eğitim Fakültesi son sınıfında okuyan 152 öğretmen adayı oluşturmaktadır. Çalışmada kullanılan ölçme araçları Beck Umutsuzluk Ölçeği, Başa Çıkma Stilleri Ölçeği Kısa Formu, Beck Depresyon Ölçeği ve Yaşamda Anlam Ölçeği’dir. Araştırmanın verilerinin analizi Pearson Momentler Çarpımı Korelasyon Katsayısı ve Aşamalı Regresyon Analizi ile gerçekleştirilmiştir. Bu doğrultuda başa çıkma stilleri, depresyon ve yaşamda anlam eğitim fakültesi son sınıf öğrencilerinin umutsuzluğunu anlamlı düzeyde yordamaktadır.
Isolation and identification of the marine diatom Entomoneis sp. MMOGRB 0374S (Bacillariophyta): a strain with high arachidonic acid composition
Authors: He Lijuan , Lou Sulin , Lin Xiangzhi , Qian Xueqiao , Xie Shouqi , Wang Zhaokai 
Published: November 2016

AbstractA unicellular marine diatom,
Advances in laboratory diagnosis of hereditary spherocytosis
Authors: Farias Mariela Granero 
Published: November 2016

AbstractAmong the red cell membrane disorders, hereditary spherocytosis (HS) is one of the most common causes of inherited hemolytic anemia. HS results from the deficiency or dysfunction of red blood cell membrane proteins, such as α spectrin, β spectrin, ankyrin, anion channel protein (Band-3 protein), protein 4.1 and protein 4.2. Conventionally, HS diagnosis is established through a series of tests, which include spherocytes identification in peripheral smear, reticulocyte count, osmotic fragility, etc. Currently, different hematological analyzers provide erythrocyte indicators that estimate the presence of spherocytes and correlate that with HS, which can be useful for disease screening. The most traditional method is the osmotic fragility (OF) test, which is labor-intensive and time-consuming to perform and presents low sensitivity and specificity values. Thus, new methods have been developed for HS diagnosis, such as flow cytometry. Current guidelines recommend the use of flow cytometry as a screening test for HS diagnosis using the eosin-5′-maleimide (EMA) binding test. Thus, HS diagnosis is the result of a collaboration between clinicians and laboratories, who should take into account the family history and the exclusion of other causes of secondary spherocytosis.
The sum of modules of Walsh coefficients of Boolean functions
Authors: de la Cruz Jimenez Reynier A. , Kamlovskiy Oleg V. 
Published: November 2016

Abstract
We obtain achievable lower and upper bounds for the sums of modules of Walsh coefficients of Boolean functions of nvariables. An average value of such sums in the class of all Boolean functions of n variables and in its subclass consisting of all balanced functions is evaluated. We present some classes of nonlinear balanced functions whose sums of modules of Walsh coefficients are close to the obtained lower and upper bounds
The algorithm for identical object searching with bounded worst-case complexity and linear memory
Authors: Gasanov El’yar E. , Zubkov Andrey M. , Klykova Natalia V. 
Published: November 2016

Abstract
We propose and investigate new algorithms permitting to find an identical object in the database using the number of operations not depending on the volume of the database. One algorithm requires memory size that depends linearly on the database volume in the average.
Tests of contact closure for contact circuits
Authors: Popkov Kirill A. 
Published: November 2016

Abstract
The paper is concerned with the problem of synthesis of two-pole contact circuits implementing n-place Boolean functions and admitting short fault detection and diagnostic tests with respect to closures of contacts. It is shown that almost all n-place Boolean functions are implemented by irredundant two-pole contact circuits admitting single fault detection, complete fault detection and single diagnostic tests of constant length. We also prove that: 1) any Boolean function f(x
1,...,x
n) may be implemented by an irredundant two-pole contact circuit containing at most one input variable distinct from the variables x
1,...,x
n and admitting single and complete fault detection tests of length at most 2n; 2) any Boolean function f(x
1,...,x
n) may be implemented by an irredundant two-pole contact circuit containing at most two input variables distinct from the variables x
1,...,x
n and admitting single diagnostic test of length at most 4n.