bluuebunny/crossref_metadata_2025_split huggingface dataset:
Autologous decellularized extracellular matrix protects against H2O2-induced senescence and aging in adipose-derived stem cells and stimulates proliferation in vitro
Authors: Yu Xiaofang , He Yucang , Chen Zhuojie , Qian Yao , Wang Jingping , Ji Ziwan , Tan Xiaoyan , Li Liqun , Lin Ming 
Published: May 2019

Abstract
Background: Adipose-derived stem cells have attracted significant interest, especially in stem cell therapy and regenerative medicine. However, these cells undergo gradual premature senescence in long-term cultures, which are essential for clinical applications that require cell-assisted lipotransfer or tissue repair. Methods: Since the extracellular matrix forms the microenvironment around stem cells in vitro and regulates self-renewal and multipotency in part by slowing down stem cell aging, we evaluated its potential to protect against senescence, using H2O2-induced adipose-derived stem cells as a model. Results: We found that supplementing cultures with decellularized extracellular matrix harvested from the same cells significantly promotes proliferation and reverses signs of senescence, including decreased multipotency, increased expression of senescence-associated β-galactosidase, and accumulation of reactive oxygen species. Conclusion: These findings suggest a novel approach in which an autologous decellularized extracellular matrix is used to prevent cellular senescence to enable the use of adipose-derived stem cells in regenerative medicine.
Imageability and Neighborhood Density Facilitate the Age of Word Acquisition in Czech
Authors: Smolík Filip 
Published: May 2019

Purpose
The study examined the effects of imageability and phonological neighborhood density on the acquisition of word production in Czech, controlling for part-of-speech class, word length, and word frequency. Phonological neighborhood density is of interest because previous research has not examined highly inflected languages such as Czech. The effects of imageability on word acquisition are widely assumed, but only a few empirical studies examined such effects using child data directly.

Method

Data from the Czech norming study of the MacArthur-Bates Communicative Development Inventories (
Smolík, Turková, Marušincová, & Malechová, 2017
) adaptation were used, and all nouns and action words in the data set were examined (total 359). Based on the norming sample of 493 children, the expected age of acquisition was calculated.

Results
A small but significant effect of neighborhood density (explaining 1.5% of unique variance) was found, as well as a robust effect of imageability (9% of unique variance). Imageability also accounted for the difference between nouns and verbs in the age of acquisition.

Conclusion
Imageability is a robust predictor of word age of acquisition that should be taken into account in future studies. The identifiability of the referent and the memory mechanisms are likely responsible for the strong imageability effect. Words with large phonological neighborhoods are acquired earlier, even in a language with complex inflectional morphology.
Reliability of Paris Classification for superficial neoplastic gastric lesions improves with training and narrow band imaging
Authors: Ribeiro Helena , Libânio Diogo , Castro Rui , Ferreira Anibal , Barreiro Pedro , Boal Carvalho Pedro , Capela Tiago , Pimentel-Nunes Pedro , Santos Cristina , Dinis-Ribeiro Mário 
Published: May 2019

Abstract
Background and study aims Paris Classification is used to classify gastrointestinal superficial neoplastic lesions and to predict presence of submucosal invasion. We aimed to evaluate interobserver reliability and agreement for this classification among Western endoscopists.
Methods A total of 54 superficial gastric lesions were independently classified according to Paris classification by eight endoscopists (4 experts and 4 non-experts). Observers were asked to classify two sets of images – first, obtained with high-resolution white light (HR-WL) endoscopy and secondly, with the same HR-WL images paired with images obtained with high-resolution Narrow Band Imaging (HR-NBI) – HR-WL + NBI image group.
Results Overall interobserver reliability when asked to classify in I, II or III was good both using HR-WL images and HR-WL + NBI images (wK of 0.65 and 0.70, respectively). The proportion of agreement for type III lesions was 0.48 for HR-WL images increasing to 0.74 in the HR-WL + NBI group. Interobserver reliability for identification of a IIc component was only moderate (wK 0,47). NBI improves both sensitivity and interobserver reliability among trainees (from wK 0.19 to 0.47). Specificity was higher than sensitivity in predicting submucosal invasion.
Conclusion Overall, the reliability of Paris classification is moderate to good. Training on this classification or its revision and use of technology such as NBI may improve not only reliability and agreement but also accuracy.
Glaukomchirurgie bei Vorderabschnittsdysgenesien
Authors: van Oterendorp Christian 
Published: May 2019

ZusammenfassungKongenitale Vorderabschnittsdysgenesien sind selten und treten meist sporadisch auf. Ihre phänotypische Ausprägung ist sehr variabel. In etwa 50% aller Fälle tritt ein Glaukom auf – entweder als Teil der Dysgenesie oder als Sekundärglaukom, vor allem nach Lentektomie bei kongenitaler Katarakt. In diesem Übersichtsartikel werden neben den embryologischen Grundlagen und dem Spektrum der Erkrankungen vor allem die chirurgischen Möglichkeiten zu Senkung des intraokularen Drucks vorgestellt. Ein Schwerpunkt liegt hierbei auf der in letzter Zeit zunehmend angewandten mikrokatheterassistierten 360°-Trabekulotomie sowie dem Einsatz von Drainageimplantaten.
Endoscopic submucosal dissection with a novel high viscosity injection solution (LiftUp) in an ex vivo model: a prospective randomized study
Authors: Wedi E. , Koehler P. , Hochberger J. , Maiss J. , Milenovic S. , Gromski M. , Ho N. , Gabor C. , Baulain U. , Ellenrieder V. , Jung C. 
Published: May 2019

Abstract
Introduction Endoscopic submucosal dissection (ESD) is increasingly being used in the western world. Submucosal injectates are an essential tool for the ESD procedure. In this study, we evaluated a novel copolymer injectate (LiftUp, Ovesco, Tübingen Germany) in an established ESD model (EASIE-R) in comparison to existing submucosal injectables.
Materials and methods We conducted a prospective, randomized ex vivo study performing ESD with three injectates: LiftUp, hydroxyethyl starch (HAES 6 %) and normal saline solution (NaCl 0.9 %). A total of 60 artificial lesions, each 3 × 3 cm in size, were resected in an ex vivo porcine model, utilizing one of the three studied injectates (n = 20 ESDs per injectate). Study parameters were: en bloc resection rate, perforation rate, lifting property, time of injection, injectate volume, general ESD procedure time, and overall procedure time.
Results All 60 lesions were successfully resected using the standard ESD technique. LiftUp had no procedure related perforations, one perforation occurred in the HAES group, and two perforations in the NaCl group (P > 0.05). Furthermore, adequate lifting was achieved in 16/20 (80 %) using LiftUp, 6/20 (30 %) in the HAES group and 6/20 (30 %) in the NaCl group (P < 0.0002). En bloc resection was achieved in 19 (95 %) with LiftUp, in 20 (100 %) with HAES, and in 16 (80 %) with NaCl. General ESD procedure time and overall procedure time were not different among the three groups.
Conclusion LiftUp appears to be a safe alternative to established fluids for ESD. It had a significantly improved lifting effect and required significantly less injected volume compared to well-established lifting solutions.
Serum Myeloperoxidase, C-reactive Protein and α1-acid Glycoprotein: Insights about Cardiovascular Risk in End-stage Renal Disease
Authors: Rickli Cristiane , Borato Danielle Cristyane Kalva , Silva Anderson José de Melo E , Schuinski Adriana Fatima Menegat , Vilela Gustavo Henrique Frigieri , Vellosa José Carlos Rebuglio 
Published: May 2019

Abstract
Background Cardiovascular disease (CVD) is the leading cause of death in patients with end-stage renal disease (ESRD). Elevated serum concentrations of myeloperoxidase (MPO) are associated with an increased risk of developing CVD. The objective of this study was to evaluate serum MPO levels, as well as other laboratory parameters, in individuals with ESRD, with and without CVD, undergoing hemodialysis.
Methods 80 volunteers were admitted, divided into the following groups: control group (CON): 20 individuals without chronic kidney disease (CKD); ESRD group: 45 individuals with CKD stage V and ESRD/CVD group: 15 individuals with CKD stage V and with CVD. The following biomarkers were evaluated: MPO, High sensitivity C-reactive protein (hs-CRP) and α1-acid glycoprotein, following the manufacturer's guidelines in the package inserts. The data were processed through the statistical software SPSS 20.0®.
Results The level of MPO for the CON group was 84 ng/mL (73–87 ng/mL), for the ESRD group 77 ng/mL (11–89 ng/mL) and for the ESRD/CVD group 21 ng/mL (8–47 ng/mL), with a significant statistical difference of the ESRD/CVD group from the CON and ESRD groups (p<0.001). For the parameters hs-CRP and α1-acid glycoprotein a statistical difference between the ESRD and ESRD/CVD groups from the CON group (p<0.0001) was observed, but not between the ESRD and ESRD/CVD groups.
Conclusion It is suggested that further studies should be performed to define the potential role of MPO as a cardiovascular risk marker for patients with ESRD on hemodialysis.
The impact of climate change on fertility*
Authors: Casey Gregory , Shayegh Soheil , Moreno-Cruz Juan , Bunzl Martin , Galor Oded , Caldeira Ken 
Published: May 2019

Abstract
We examine the potential for climate change to impact fertility via adaptations in human behavior. We start by discussing a wide range of economic channels through which climate change might impact fertility, including sectoral reallocation, the gender wage gap, longevity, and child mortality. Then, we build a quantitative model that combines standard economic-demographic theory with existing estimates of the economic consequences of climate change. In the model, increases in global temperature affect agricultural and non-agricultural sectors differently. Near the equator, where many poor countries are located, climate change has a larger negative effect on agriculture. The resulting scarcity in agricultural goods acts as a force towards higher agricultural prices and wages, leading to a labor reallocation into this sector. Since agriculture makes less use of skilled labor, climate damage decreases the return to acquiring skills, inducing parents to invest less resources in the education of each child and to increase fertility. These patterns are reversed at higher latitudes, suggesting that climate change may exacerbate inequities by reducing fertility and increasing education in richer northern countries, while increasing fertility and reducing education in poorer tropical countries. While the model only examines the role of one mechanism, it suggests that climate change could have an impact on fertility, indicating the need for future work on this important topic.
The morphometrics of autopolyploidy: insignificant differentiation among sexual–apomictic cytotypes
Authors: Bigl Karin , Paule Juraj , Dobeš Christoph 
Published: May 2019

AbstractPolyploidization of the plant genome affects the phenotype of individuals including their morphology, i.e. size and form. In autopolyploids, we expect mainly nucleotypic effects, from a number of monoploid genomes (i.e. chromosome sets) or genome size, seen from an increase in size or dimension of the polyploids compared with the diploids (or lower ploids). To identify nucleotypic effects, confounding effects of hybridity (observed in allopolyploids), postpolyploidization processes or environmental effects need to be considered. We morphometrically analysed five ploidy cytotypes of the sexual–apomictic species Potentilla puberula cultivated ex situ under the same experimental conditions. Sexuals are mainly tetraploid, while higher ploidy (penta- to octoploidy) is typically associated with the expression of apomixis. The cytotypes likely arose via autopolyploidization although historic involvement of another species in the origin of apomicts cannot be fully ruled out, suggested by a slight molecular differentiation among reproductive modes. We (i) revisited molecular differentiation using amplified fragment length polymorphisms and performed a morphometric analysis to test (ii) if cytotypes are morphologically differentiated from each other and (iii) if the size of individuals is related to their ploidy. Weak molecular differentiation of sexual versus apomictic individuals was confirmed. Cytotypes and reproductive modes were also morphologically poorly differentiated from each other, i.e. apomicts largely resampled the variation of the sexuals and did not exhibit a unique morphology. Overall size of individuals increased moderately but significantly with ploidy (ca. 14 % in the comparison of octo- with tetraploids). The results support an autopolyploid origin of the P. puberula apomicts and suggest a nucleotypic effect on overall plant size. We discuss taxonomic consequences of the results in the context of data on reproductive relationships among cytotypes and their ecological preferences and evolutionary origin, and conclude that cytotypes are best treated as intraspecific variants within a single species.
Qualitative Scoring of the Pentagon Test: A Tool for the Identification of Subtle Cognitive Deficits in Isolated REM Sleep Behavior Disorder Patients
Authors: Galbiati Andrea , Carli Giulia , Dodich Alessandra , Marelli Sara , Caterina Pagnini , Cerami Chiara , Zucconi Marco , Ferini-Strambi Luigi 
Published: May 2019

Abstract

Objective
Isolated rapid eye movement (REM) sleep behavior disorder (iRBD) frequently represents the prodromal stage of alpha-synucleinopathies, and similar to these pathologies, iRBD patients show neuropsychological deficits, particularly in the domain of visuospatial abilities and executive functions. We hypothesized that the qualitative scoring of the Mini-Mental State Examination pentagon test (QSPT) may detect subtle visuospatial deficits in these subjects, and we evaluated its relationship with indexes of sleep quality, as measured by polysomnography.

Methods
A total of 80 polysomnography-confirmed iRBD patients and 40 healthy controls (HCs) were retrospectively recruited. Global and specific qualitative performances were evaluated according to QSPT procedure. Comparisons between iRBD and HC regarding all QSPT parameters, neuropsychological tests, and polysomnographic recordings were performed.

Results
Patients displayed significantly lower scores in both “closing-in” and total score parameters in comparison to HC. The QSPT total score exhibited significant positive correlations with verbal comprehension, fluency, visuospatial abilities, and executive functions. Notably, iRBD patients with impaired performance at QSPT showed decreased neuropsychological performances and higher percentages of slow wave sleep (SWS). In addition, SWS percentages negatively correlated with verbal comprehension, fluency, visuospatial abilities, executive functions, and QSPT total score.

Conclusion
QSPT may represent a brief and easy to administer tool for the detection of subtle visuospatial changes in iRBD patients. Furthermore, polysomnographic findings suggest a possible slowdown of electroencephalographic pattern during non-REM sleep in iRBD patients in line with the presence of cognitive decline.
Accurate peptide fragmentation predictions allow data driven approaches to replace and improve upon proteomics search engine scoring functions
Authors: C. Silva Ana S , Bouwmeester Robbin , Martens Lennart , Degroeve Sven 
Published: May 2019

AbstractMotivationThe use of post-processing tools to maximize the information gained from a proteomics search engine is widely accepted and used by the community, with the most notable example being Percolator—a semi-supervised machine learning model which learns a new scoring function for a given dataset. The usage of such tools is however bound to the search engine’s scoring scheme, which doesn’t always make full use of the intensity information present in a spectrum. We aim to show how this tool can be applied in such a way that maximizes the use of spectrum intensity information by leveraging another machine learning-based tool, MS2PIP. MS2PIP predicts fragment ion peak intensities.ResultsWe show how comparing predicted intensities to annotated experimental spectra by calculating direct similarity metrics provides enough information for a tool such as Percolator to accurately separate two classes of peptide-to-spectrum matches. This approach allows using more information out of the data (compared with simpler intensity based metrics, like peak counting or explained intensities summing) while maintaining control of statistics such as the false discovery rate.Availability and implementationAll of the code is available online at https://github.com/compomics/ms2rescore.Supplementary informationSupplementary data are available at Bioinformatics online.
SOCCOMAS: a FAIR web content management system that uses knowledge graphs and that is based on semantic programming
Authors: Vogt Lars , Baum Roman , Bhatty Philipp , Köhler Christian , Meid Sandra , Quast Björn , Grobe Peter 
Published: May 2019

Abstract
We introduce Semantic Ontology-Controlled application for web Content Management Systems (SOCCOMAS), a development framework for FAIR (‘findable’, ‘accessible’, ‘interoperable’, ‘reusable’) Semantic Web Content Management Systems (S-WCMSs). Each S-WCMS run by SOCCOMAS has its contents managed through a corresponding knowledge base that stores all data and metadata in the form of semantic knowledge graphs in a Jena tuple store. Automated procedures track provenance, user contributions and detailed change history. Each S-WCMS is accessible via both a graphical user interface (GUI), utilizing the JavaScript framework AngularJS, and a SPARQL endpoint. As a consequence, all data and metadata are maximally findable, accessible, interoperable and reusable and comply with the FAIR Guiding Principles. The source code of SOCCOMAS is written using the Semantic Programming Ontology (SPrO). SPrO consists of commands, attributes and variables, with which one can describe an S-WCMS. We used SPrO to describe all the features and workflows typically required by any S-WCMS and documented these descriptions in a SOCCOMAS source code ontology (SC-Basic). SC-Basic specifies a set of default features, such as provenance tracking and publication life cycle with versioning, which will be available in all S-WCMS run by SOCCOMAS. All features and workflows specific to a particular S-WCMS, however, must be described within an instance source code ontology (INST-SCO), defining, e.g. the function and composition of the GUI, with all its user interactions, the underlying data schemes and representations and all its workflow processes. The combination of descriptions in SC-Basic and a given INST-SCO specify the behavior of an S-WCMS. SOCCOMAS controls this S-WCMS through the Java-based middleware that accompanies SPrO, which functions as an interpreter. Because of the ontology-controlled design, SOCCOMAS allows easy customization with a minimum of technical programming background required, thereby seamlessly integrating conventional web page technologies with semantic web technologies. SOCCOMAS and the Java Interpreter are available from (https://github.com/SemanticProgramming).
RRAD mutation causes electrical and cytoskeletal defects in cardiomyocytes derived from a familial case of Brugada syndrome
Authors: Belbachir Nadjet , Portero Vincent , Al Sayed Zeina R , Gourraud Jean-Baptiste , Dilasser Florian , Jesel Laurence , Guo Hongchao , Wu Haodi , Gaborit Nathalie , Guilluy Christophe , Girardeau Aurore , Bonnaud Stephanie , Simonet Floriane , Karakachoff Matilde , Pattier Sabine , Scott Carol , Burel Sophie , Marionneau Céline , Chariau Caroline , Gaignerie Anne , David Laurent , Genin Emmanuelle , Deleuze Jean-François , Dina Christian , Sauzeau Vincent , Loirand Gervaise , Baró Isabelle , Schott Jean-Jacques , Probst Vincent , Wu Joseph C , Redon Richard , Charpentier Flavien , Le Scouarnec Solena 
Published: May 2019

Abstract

Aims
The Brugada syndrome (BrS) is an inherited cardiac disorder predisposing to ventricular arrhythmias. Despite considerable efforts, its genetic basis and cellular mechanisms remain largely unknown. The objective of this study was to identify a new susceptibility gene for BrS through familial investigation.

Methods and results
Whole-exome sequencing performed in a three-generation pedigree with five affected members allowed the identification of one rare non-synonymous substitution (p.R211H) in RRAD, the gene encoding the RAD GTPase, carried by all affected members of the family. Three additional rare missense variants were found in 3/186 unrelated index cases. We detected higher levels of RRAD transcripts in subepicardium than in subendocardium in human heart, and in the right ventricle outflow tract compared to the other cardiac compartments in mice. The p.R211H variant was then subjected to electrophysiological and structural investigations in human cardiomyocytes derived from induced pluripotent stem cells (iPSC-CMs). Cardiomyocytes derived from induced pluripotent stem cells from two affected family members exhibited reduced action potential upstroke velocity, prolonged action potentials and increased incidence of early afterdepolarizations, with decreased Na+ peak current amplitude and increased Na+ persistent current amplitude, as well as abnormal distribution of actin and less focal adhesions, compared with intra-familial control iPSC-CMs Insertion of p.R211H-RRAD variant in control iPSCs by genome editing confirmed these results. In addition, iPSC-CMs from affected patients exhibited a decreased L-type Ca2+ current amplitude.

Conclusion
This study identified a potential new BrS-susceptibility gene, RRAD. Cardiomyocytes derived from induced pluripotent stem cells expressing RRAD variant recapitulated single-cell electrophysiological features of BrS, including altered Na+ current, as well as cytoskeleton disturbances.
An Emergent Integrated Aging Process Conserved Across Primates
Authors: Wey Tina W , Roberge Émy , Legault Véronique , Kemnitz Joseph W , Ferrucci Luigi , Cohen Alan A 
Published: May 2019

Abstract
Aging is a complex process emerging from integrated physiological networks. Recent work using principal component analysis (PCA) of multisystem biomarkers proposed a novel fundamental physiological process, “integrated albunemia,” which was consistent across human populations and more strongly associated with age and mortality risk than individual biomarkers. Here we tested for integrated albunemia and associations with age and mortality across six diverse nonhuman primate species and humans. PCA of 13 physiological biomarkers recovered in all species a primary axis of variation (PC1) resembling integrated albunemia, which increased with age in all but one species but was less predictive of mortality risk. Within species, PC1 scores were often reliably recovered with a minimal biomarker subset and usually stable between sexes. Even among species, correlations in PC1 structure were often strong, but the effect of phylogeny was inconclusive. Thus, integrated albunemia likely reflects an evolutionarily conserved process across primates and appears to be generally associated with aging but not necessarily with negative impacts on survival. Integrated albunemia is unlikely to be the only conserved emergent physiological process; our findings hence have implications both for the evolution of the aging process and of physiological networks more generally.