bluuebunny/crossref_metadata_2025_split huggingface dataset:
Identification of putative adhesins and carbohydrate ligands of Lactobacillus paracasei using a combinatorial in silico and glycomics microarray profiling approach
Authors: Houeix Benoit , Synowsky Silvia , Cairns Michael T , Kane Marian , Kilcoyne Michelle , Joshi Lokesh 
Published: November 2019

AbstractCommensal bacteria must colonize host mucosal surfaces to exert health-promoting properties, and bind to gastrointestinal tract (GIT) mucins via their cell surface adhesins. Considerable effort has been directed towards discovery of pathogen adhesins and their ligands to develop anti-infective strategies; however, little is known about the lectin-like adhesins and associated carbohydrate ligands in commensals. In this study, an in silico approach was used to detect surface exposed adhesins in the human commensal Lactobacillus paracasei subsp. paracasei, a promising probiotic commonly used in dairy product fermentation that presents anti-microbial activity. Of the 13 adhesin candidates, 3 sortase-dependent pili clusters were identified in this strain and expression of the adhesin candidate genes was confirmed in vitro. Mass spectrometry analysis confirmed the presence of surface adhesin elongation factor Tu and the chaperonin GroEL, but not pili expression. Whole cells were subsequently incubated on microarrays featuring a panel of GIT mucins from nine different mammalian species and two human-derived cell lines and a library of carbohydrate structures. Binding profiles were compared to those of two known pili-producing lactobacilli, L. johnsonii and L. rhamnosus and all Lactobacillus species displayed overlapping but distinct signatures, which may indicate different abilities for regiospecific GIT colonization. In addition, L. paracasei whole cells favoured binding to α-(2 → 3)-linked sialic acid and α-(1 → 2)-linked fucose-containing carbohydrate structures including blood groups A, B and O and Lewis antigens x, y and b. This study furthers our understanding of host-commensal cross-talk by identifying potential adhesins and specific GIT mucin and carbohydrate ligands and provides insight into the selection of colonization sites by commensals in the GIT.
Inequalities in access to birth by caesarean section in the context of user fee exemption for maternal health services in southwest and north central Nigeria
Authors: Ajayi Anthony Idowu 
Published: November 2019

Abstract

Background
User fee exemption for maternal healthcare services was introduced with a focus on providing free maternal health services, including caesarean sections (CS), in Nigeria. This policy has had a positive impact on access to facility-based delivery; however, the extent to which inequality in access to CS exists in the context of user fee exemption is unclear. The objective of this study was to examine inequalities in access to birth by CS 5 y after the implementation of the user fee exemption policy.

Methods
Data were obtained from 1227 women who gave birth between 2011 and 2015 and were selected using cluster random sampling between May and August 2016 from two of the six main regions of the country. Adjusted and unadjusted binary logistic regression models were performed.

Results
An overall CS rate of 6.1% was found, but varied by income, education and place of residence. Women who earned a monthly income of ≤20 000 naira (US${\$}$150) were 50% less likely to have a birth by CS compared with those who earned more. Compared with women who were educated to the tertiary level, women who had a secondary education or less were 51% less likely to give birth by CS.

Conclusions
This study shows that inequality in access to CS persists despite the implementation of free maternal healthcare services.
PARAMO: A Pipeline for Reconstructing Ancestral Anatomies Using Ontologies and Stochastic Mapping
Authors: Tarasov Sergei , Mikó István , Yoder Matthew Jon , Uyeda Josef C 
Published: November 2019

AbstractComparative phylogenetics has been largely lacking a method for reconstructing the evolution of phenotypic entities that consist of ensembles of multiple discrete traits—entire organismal anatomies or organismal body regions. In this study, we provide a new approach named PARAMO (PhylogeneticAncestralReconstruction ofAnatomy byMappingOntologies) that appropriately models anatomical dependencies and uses ontology-informed amalgamation of stochastic maps to reconstruct phenotypic evolution at different levels of anatomical hierarchy including entire phenotypes. This approach provides new opportunities for tracking phenotypic radiations and evolution of organismal anatomies.
Jumping and Grasping: Universal Locking Mechanisms in Insect Legs
Authors: Földvári Mihály , Mikó István , Ulmer Jonah M , dos Santos Rolo Tomy , Csősz Sándor , Pomiankowski Andrew , Baumbach Tilo , van de Kamp Thomas 
Published: November 2019

AbstractThickened femora of insects are correlated to enlarged muscle masses and serve two basic purposes: jumping/kicking and grasping/holding. Modifications on the ventral femoral wall and the tibial flexor tendon that are possibly involved in catch mechanisms have been described in multiple insect taxa with both jumping and grasping legs. Our comparative study aims to explore the functional and structural similarities of these modification in jumping and grasping leg types from Coleoptera, Hymenoptera, Diptera, and Orthoptera with the combination of cutting edge, noninvasive imaging methods, and classical dissections techniques. Our data indicate that locking mechanisms are present in the jumping and grasping legs of insects. We describe three femoro-tibial lock types based on the location of the interacting sclerites relative to the site of origin of the tibial flexor tendon. All of the three types can be found in jumping insect legs, whereas only one type is present in grasping legs. The locking mechanism might aid in keeping the femoro-tibial joint in a flexed position for an extended period of time. Our data indicate that morphologically similar modifications in the femoro-tibial joint are involved in energy-saving mechanisms both in jumping and grasping legs in insects.
Response to survey directed to patient portal members differs by age, race, and healthcare utilization
Authors: Peltz-Rauchman Cathryn D , Divine George , McLaren Daniel , Rubinfeld Ilan S , Conway William A , Allard David , Johnson Christine Cole 
Published: November 2019

AbstractHealth care systems are increasingly utilizing electronic medical record—associated patient portals to facilitate communication with patients and between providers and their patients. These patient portals are growing in recognition as potentially valuable research tools. While there is much information about the response rates and demographics of internet-based surveys as well as the demographics of patients who are portal members, not much is known about the response rate of internet-based surveys directed to a group of patient portal members or the demographics of which portal members respond to internet-based surveys issued within that specific population. The objective of these analyses was to determine the demographics of patient portal users who respond to an internet-based survey request. We hypothesized that respondents would more likely be: (1) older (65+), (2) European American, (3) married, (4) female, (5) college educated, (6) have higher medical care utilization, (7) have more comorbidities, and (8) have a private practice primary care physician (as opposed to a salaried group practice primary care physician). We found that our respondents tended to be older, of European geographic ancestry, and more frequent users of healthcare. While patient portal members are an easily identifiable and contactable group that are potentially valuable participants for research, it is important to understand that respondents to surveys solicited from this sampling frame may not be entirely representative. It will be important to develop strategies to more fully engage populations that represent the target population in order to increase overall and subgroup response rates.
Economical connections between several European countries based on TSP data
Authors: Crişan Gloria Cerasela , Pintea Camelia-M , Pop Petrică C , Matei Oliviu 
Published: November 2019

AbstractA fluent economical collaboration between countries is a major need. European flows of trade and people are supported by efficient connections between main localities from a geographic region, in many cases overriding national borders. This paper introduces three traveling salesmen problem instances based on freely available geographic coordinates of the main cities of France, Portugal and Spain. These instances are unified, generating other four larger instances: three with all pairs of countries and one instance with the settlements from all the three countries. The study includes an analysis of quality of solutions for a version of branch & cut algorithm and some hybrid heuristics including the Lin–Kernighan algorithm. $Bor\mathring{u}vka$, Quick$Bor\mathring{u}vka$ and Greedy algorithms are also used in the hybrid approaches in order to obtain a potential beneficent initial solution for the Lin–Kernighan algorithm. Concorde solver, nowadays state-of-the-art exact software, together with the already mentioned algorithms, is used to test and furthermore analyze the new TSP instances. Some results are represented using online services such as Google Maps, showing the potential integration of the Concorde’s optimum results into commercial routing applications. The very good results provided by the Lin–Kernighan method allow its usage for real medium-sized routing instances.
Lithium iron phosphate power cell fault detection system based on hybrid intelligent system
Authors: Luis Casteleiro-Roca José , Quintián Héctor , Luis Calvo-Rolle José , Méndez-Pérez Juan-Albino , Javier Perez-Castelo Francisco , Corchado Emilio 
Published: November 2019

Abstract
Nowadays, batteries play an important role in a lot of different applications like energy storage, electro-mobility, consumer electronic and so on. All the battery types have a common factor that is their complexity, independently of its nature. Usually, the batteries have an electrochemical nature. Several different test are accomplished to check the batteries performance, and commonly, it is predictable how they work depending of their technology. The present research describes the hybrid intelligent system created to accomplish fault detection over a Lithium Iron Phosphate—LiFePO4 power cell type, commonly used in electro-mobility applications. The approach is based on the cell temperatures behaviour for voltage and current specific values. Taken into account the operating range of a real system based on a LiFePO4 cell, a large set of points of operation have been used to achieve the dataset. The different behaviour zones have been obtained by clustering as a first step. Then, different regression techniques have been used over each cluster. Polynomial regression, artificial neural networks and support vector regression were the combined techniques to develop the hybrid intelligent model proposed. The intelligent system gives very good results over the operating range, detecting all the faults tested during the validation.
A case of sigmoid colon perforation presenting with pneumomediastinum
Authors: Kuroda Yukihito , Hisakura Katsuji , Akashi Yoshimasa , Enomoto Tsuyoshi , Oda Tatsuya 
Published: November 2019

Abstract
A 62-year-old woman had developed polymyositis 12 years previously and had taken oral steroids. Chest and abdominal computed tomography showed pneumomediastinum and free air in the abdominal cavity. Although a colon perforation was suspected, the perforation site could not be identified on the image. In addition, a diagnosis of oesophageal rupture could not be excluded from the findings of pneumomediastinum. After general anaesthesia, an upper gastrointestinal endoscopy was performed before surgery. Because there was no obvious perforation in the oesophagus, a laparotomy approach was used. A perforation was found on the mesentery side of the sigmoid colon, and a perforation of the sigmoid colon’s diverticulum towards the mesentery was diagnosed. A Hartmann’s procedure was performed. Colon perforations are rarely associated with pneumomediastinum. Preoperative endoscopy is useful to help diagnose and determine the surgical procedure if an obvious perforation cannot be identified.
Pseudo-BCI algebras with derivations
Authors: Corina Ciungu Lavinia 
Published: November 2019

AbstractIn this paper we define two types of implicative derivations on pseudo-BCI algebras, we investigate their properties and we give a characterization of regular implicative derivations of type II. We also define the notion of a $d$-invariant deductive system of a pseudo-BCI algebra $A$ proving that $d$ is a regular derivation of type II if and only if every deductive system on $A$ is $d$-invariant. It is proved that a pseudo-BCI algebra is $p$-semisimple if and only if the only regular derivation of type II is the identity map. Another main result consists of proving that the set of all implicative derivations of a $p$-semisimple pseudo-BCI algebra forms a commutative monoid with respect to function composition. Two types of symmetric derivations on pseudo-BCI algebras are also introduced and it is proved that in the case of $p$-semisimple pseudo-BCI algebras the sets of type II implicative derivations and type II symmetric derivations are equal.
Efficacy of a Temporary Hemostatic Device in a Swine Model of Closed, Lethal Liver Injury
Authors: Qin Hao , Yang Lei , Liu Daocheng , Chen Sixu , Lyu Mingrui , Bao Quanwei , Lai Xinan , Liu Huayu , Chen Qiang , Zong Zhaowen 
Published: November 2019

AbstractIntroductionSolid abdominal organ hemorrhage remains one of the leading causes of death both on the battlefield of modern warfare and in the civilian setting. A novel, temporary hemostatic device combining CELOX and direct intra-abdominal physical compression was invented to control closed SAOH during transport to a medical treatment facility.Materials and MethodsA swine model of closed, lethal liver injury was established to determine hemostasis. The animals were randomly divided into group A (extra-abdominal compression), group B (gauze packing), group C (intra-abdominal compression), group D (CELOX coverage), and group E (intra-abdominal compression and CELOX coverage) with six swines per group. Survival time (ST), blood loss (BL), vital signs, pathologic examination, and CT-scan were monitored to further observe the effectiveness of the device.ResultsGroup E had an average 30-minute extension in ST (74.3 ± 15.4 minutes versus 44.0 ± 13.8 minutes, p = 0.026) with less BL (46.0 ± 13.0 versus 70.8 ± 8.2 g/kg, p = 0.018), and maintained mean arterial pressure≥70 mmHg and cardiac output ≥ 3.5 L/minute for a longer time. No significant differences were observed in ST and BL of groups B and E, and there were no marked differences in ST and BL of groups A, C, and D. No CELOX clots were noted in the spleen, pancreas, lungs, heart, kidneys, or the adjacent large vessels in groups D and E. Compared to group A, the CT-scan showed better hepatic hemorrhage control in group E.ConclusionsThe device, which combined 20 g of CELOX particles and 20 pieces of CELOX (8 g) sponge tablets with 50-mmHg intra-abdominal compression for 10 minutes, prolonged the ST by an average of 30 minutes with less BL. It was not markedly different from the full four quadrants gauze packing of liver in hemostatic effect, with no CELOX clot formation in other organs.
Optical intensity interferometry observations using the MAGIC imaging atmospheric Cherenkov telescopes
Authors: Acciari V A , Bernardos M I , Colombo E , Contreras J L , Cortina J , Delgado C , Díaz C , Fink D , Mariotti M , Mangano S , Mirzoyan R , Polo M , Schweizer T , Will M 
Published: November 2019

Abstract
Imaging Atmospheric Cherenkov Telescopes (IACTs) currently in operation feature large mirrors and order of 1 ns time response to signals of a few photo-electrons produced by optical photons. This means that they are ideally suited for optical interferometry observations. Thanks to their sensitivity to visible wavelengths and long baselines optical intensity interferometry with IACTs allows reaching angular resolutions of tens to microarcsec. We have installed a simple optical setup on top of the cameras of the two 17 m diameter MAGIC IACTs and observed coherent fluctuations in the photon intensity measured at the two telescopes for three different stars. The sensitivity is roughly 10 times better than that achieved in the 1970’s with the Narrabri interferometer.
Xenbase: deep integration of GEO & SRA RNA-seq and ChIP-seq data in a model organism database
Authors: Fortriede Joshua D , Pells Troy J , Chu Stanley , Chaturvedi Praneet , Wang DongZhuo , Fisher Malcom E , James-Zorn Christina , Wang Ying , Nenni Mardi J , Burns Kevin A , Lotay Vaneet S , Ponferrada Virgilio G , Karimi Kamran , Zorn Aaron M , Vize Peter D 
Published: November 2019

Abstract
Xenbase (www.xenbase.org) is a knowledge base for researchers and biomedical scientists that employ the amphibian Xenopus as a model organism in biomedical research to gain a deeper understanding of developmental and disease processes. Through expert curation and automated data provisioning from various sources Xenbase strives to integrate the body of knowledge on Xenopus genomics and biology together with the visualization of biologically significant interactions. Most current studies utilize next generation sequencing (NGS) but until now the results of different experiments were difficult to compare and not integrated with other Xenbase content. Xenbase has developed a suite of tools, interfaces and data processing pipelines that transforms NCBI Gene Expression Omnibus (GEO) NGS content into deeply integrated gene expression and chromatin data, mapping all aligned reads to the most recent genome builds. This content can be queried and visualized via multiple tools and also provides the basis for future automated ‘gene expression as a phenotype’ and gene regulatory network analyses.
SyntDB: defining orthologues of human long noncoding RNAs across primates
Authors: Bryzghalov Oleksii , Szcześniak Michał Wojciech , Makałowska Izabela 
Published: November 2019

AbstractSyntDB (http://syntdb.amu.edu.pl/) is a collection of data on long noncoding RNAs (lncRNAs) and their evolutionary relationships in twelve primate species, including humans. This is the first database dedicated to primate lncRNAs, thousands of which are uniquely stored in SyntDB. The lncRNAs were predicted with our computational pipeline using publicly available RNA-Seq data spanning diverse tissues and organs. Most of the species included in SyntDB still lack lncRNA annotations in public resources. In addition to providing users with unique sets of lncRNAs and their characteristics, SyntDB provides data on orthology relationships between the lncRNAs of humans and other primates, which are not available on this scale elsewhere. Keeping in mind that only a small fraction of currently known human lncRNAs have been functionally characterized and that lncRNA conservation is frequently used to identify the most relevant lncRNAs for functional studies, we believe that SyntDB will contribute to ongoing research aimed at deciphering the biological roles of lncRNAs.
Renal physiology of glucose handling and therapeutic implications
Authors: Cherney David Z , Kanbay Mehmet , Lovshin Julie A 
Published: November 2019

Abstract
The rationale for using sodium-glucose cotransporter 2 (SGLT2) inhibitors in patients with type 2 diabetes (T2D) has evolved over the last decade. Due to the effects on glucosuria and body weight loss, SGLT2 inhibitors were originally approved for glycemic control in T2D. Since glucosuria is attenuated in chronic kidney disease (CKD) Stages 3–5, initial regulatory approval for SGLT2 inhibitor use was limited to patients with T2D and preserved estimated glomerular filtration rate. Over time, however, it has become increasingly apparent that these therapies have a variety of important pharmacodynamic and clinical effects beyond glycemic lowering, including antihypertensive and antialbuminuric properties, and the ability to reduce glomerular hypertension. Importantly, these sodium-related effects are preserved across CKD stages, despite attenuated glycemic effects, which are lost at CKD Stage 4. With the completion of cardiovascular (CV) outcome safety trials—EMPA-REG OUTCOME, CANVAS Program and DECLARE TIMI-58—in addition to reductions in CV events, SGLT2 inhibition consistently reduces hard renal endpoints. Importantly, these CV and renal effects are independent of glycemic control. Subsequent data from the recent CREDENCE trial—the first dedicated renal protection trial with SGLT-2 inhibition—demonstrated renal and CV benefits in albuminuric T2D patients, pivotal results that have expanded the clinical importance of these therapies. Ongoing trials will ultimately determine whether SGLT2 inhibition will have a role in renal protection in other clinical settings, including nondiabetic CKD and type 1 diabetes.
ATIM-14. RESULTS OF PHASE II CLINICAL TRIAL OF ONCOLYTIC HERPES VIRUS G47Δ IN PATIENTS WITH GLIOBLASTOMA
Authors: Todo Tomoki 
Published: November 2019

Abstract
Genetically engineered, conditionally replicating herpes simplex viruses type 1 (HSV-1) are promising therapeutic agents for cancer. We have developed a triple-mutated, third-generation oncolytic HSV-1, G47∆, that exhibits enhanced replication capability in a variety of cancer, efficient induction of specific antitumor immunity, and high safety features. G47∆ also kills cancer stem cells very efficiently. The first-in-man, phase I-IIa study of G47∆ in recurrent glioblastoma patients was performed from 2009 to 2014 at the University of Tokyo, followed by phase II investigator-initiated clinical trial in patients with recurrent or residual glioblastoma from 2015 to test the efficacy. In this phase II, each patient received stereotactic injections with G47∆ into the tumor, repeatedly, but into different coordinates, every 4 weeks, for the maximum 6 times. A set dose of 1 x 10E9 pfu/dose was used. In most patients, G47∆ was given in addition to the maintenance chemotherapy using temozolomide. The primary endpoint was a 1-year survival rate. The repeated stereotactic injections were well tolerated. The interim analysis showed that the 1-year survival rate of 13 patients was 92.3%, which was significantly higher than 15%, the preset control value based on meta-analysis of historical data. The statistical significance was above the criteria of early termination, so this trial was terminated early and considered as the pivotal study for new drug application. Severe adverse events related to G47∆ were experienced by 2 patients only, both of which were grade 2 fever. Because G47∆ was designated as a ‘Sakigake’ breakthrough therapy drug by the Japanese government, and further as an orphan drug for malignant glioma, a fast-track drug approval is expected. G47∆ has proven safe even when injected repeatedly 6 times into the brain. The use of G47∆ may become a preferred treatment that potentially leads to a cure of malignant glioma in the near future.