bluuebunny/crossref_metadata_2025_split huggingface dataset:
Metastatic adenocarcinoma of the mandibular condyle from uterine cervix: Report of a case
Authors: Sugiyama Goro , Ohyama Yukiko , Kiyoshima Tamotsu , Shimizu Mayumi , Kaneki Eisuke , Takenoshita Yasuharu 
Published: December 2013

AbstractMetastasis to the mandibular condyle is rare, and such lesions should be identified by both clinical and pathological examinations. We experienced a case of adenocarcinoma occurring in the right mandibular condyle. A 65‐year‐old female with uterine cervical cancer showed condylar dysfunction. Imaging examinations revealed a tumor with bone destruction and a rapidly progressive course, while pathological examinations suggested metastasis originating from another site. Based on the clinical and pathological findings, the patient was diagnosed with condylar metastasis derived from the uterine cervix, in addition to a recurrence of uterine cervical cancer.
Trunk bend and twist coordination is affected by low back pain status during running
Authors: Seay Joseph F. , Van Emmerik Richard E. A. , Hamill Joseph 
Published: December 2013

AbstractRecent literature has related differences in pelvis–trunk coordination to low back pain (LBP) status. In addition, repetitive motions involving bending and twisting have been linked to high incidence of LBP. The purpose of this study was to examine trunk sagittal motion – axial rotation (‘bend and twist’) coordination during locomotion in three groups of runners classified by LBP status (LBP: current low back pain; RES: resolved low back pain and CTR: control group with no history of LBP). Trunk kinematic data were collected as running speed was systematically increased on a treadmill. Within‐segment coordination between trunk sagittal and transverse planes of motion (trunk lean and axial rotation, respectively) was calculated using continuous relative phase (CRP), and coordination variability was defined as the between stride cycle standard deviation of CRP (CRPvar). Bend–twist coordination was more in‐phase for the LBP group than CTR (p = 0.010) regardless of running speed. No differences in CRPvar were found between the groups. The results from our coordination (CRP) analysis were sensitive to LBP status and suggest that multi‐plane interactions of the trunk should be considered in the assessment of LBP. This analysis also has potential for athletically oriented tasks that involve multi‐plane interactions of the trunk, particularly ones that contain asymmetric action, such as sweep rowing or a shot on goal in field hockey or ice hockey.
ChromoHub V2: cancer genomics
Authors: Shah Muhammad A. , Denton Emily L. , Liu Lihua , Schapira Matthieu 
Published: December 2013

Abstract
Summary: Cancer genomics data produced by next-generation sequencing support the notion that epigenetic mechanisms play a central role in cancer. We have previously developed Chromohub, an open access online interface where users can map chemical, structural and biological data from public repositories on phylogenetic trees of protein families involved in chromatin mediated-signaling. Here, we describe a cancer genomics interface that was recently added to Chromohub; the frequency of mutation, amplification and change in expression of chromatin factors across large cohorts of cancer patients is regularly extracted from The Cancer Genome Atlas and the International Cancer Genome Consortium and can now be mapped on phylogenetic trees of epigenetic protein families. Explorators of chromatin signaling can now easily navigate the cancer genomics landscape of writers, readers and erasers of histone marks, chromatin remodeling complexes, histones and their chaperones.
Availability and implementation: http://www.thesgc.org/chromohub/.
Contact: matthieu.schapira@utoronto.ca
Supplementary information: Supplementary data are available at Bioinformatics online.
The Religious Marketplace: Public Disputations in Civil War and Interregnum England
Authors: Capp Bernard 
Published: December 2013

Abstract
The civil wars and interregnum (1640–60) ushered in a period of religious flux and debate, with controversies pursued in fierce pamphlet wars. Equally important, but far less familiar to us, were the public disputations, which spread across England and Wales to become a significant aspect of the religious culture of the age. This article traces their antecedents in the European tradition of university disputation, in the sixteenth-century continental Reformation and in England. The civil-war disputations represented a dramatically new development, in their number and scale, in their genuinely open character, and in the participation of lay preachers, especially Baptists and Quakers. The article explores their appeal for separatist evangelists—and for the huge audiences they attracted—and the factors that could drive parish ministers, often reluctantly, to accept a radical’s challenge. About fifty disputations generated printed narratives, and often also rival accounts, which throw new light on the relationship between oral and print culture in this period. The article explores how editors shaped texts to sway reader reaction, and uses these texts for insights into debating tactics and audience participation. Disputations also offer new evidence in the ongoing debate over the emergence of the ‘public sphere’. In their formal procedures, social inclusivity and geographical spread they far surpass Habermas’s coffee-house milieu, but this was a rough public arena far removed from the world of bourgeois politeness. And with live debates often triggering new pamphlet-wars, we can identify a public sphere in which oral and print culture coalesced.
The Vertebrate Genome Annotation browser 10 years on
Authors: Harrow Jennifer L. , Steward Charles A. , Frankish Adam , Gilbert James G. , Gonzalez Jose M. , Loveland Jane E. , Mudge Jonathan , Sheppard Dan , Thomas Mark , Trevanion Stephen , Wilming Laurens G. 
Published: December 2013

Abstract
The Vertebrate Genome Annotation (VEGA) database (http://vega.sanger.ac.uk), initially designed as a community resource for browsing manual annotation of the human genome project, now contains five reference genomes (human, mouse, zebrafish, pig and rat). Its introduction pages have been redesigned to enable the user to easily navigate between whole genomes and smaller multi-species haplotypic regions of interest such as the major histocompatibility complex. The VEGA browser is unique in that annotation is updated via the Human And Vertebrate Analysis aNd Annotation (HAVANA) update track every 2 weeks, allowing single gene updates to be made publicly available to the research community quickly. The user can now access different haplotypic subregions more easily, such as those from the non-obese diabetic mouse, and display them in a more intuitive way using the comparative tools. We also highlight how the user can browse manually annotated updated patches from the Genome Reference Consortium (GRC).
Molecular dissection of complex agronomic traits of rice: a team effort by Chinese scientists in recent years
Authors: Zuo Jianru , Li Jiayang 
Published: December 2013

AbstractRice is a staple food for more than half of the worldwide population and is also a model species for biological studies on monocotyledons. Through a team effort, Chinese scientists have made rapid and important progresses in rice biology in recent years. Here, we briefly review these advances, emphasizing on the regulatory mechanisms of the complex agronomic traits that affect rice yield and grain quality. Progresses in rice genome biology and genome evolution have also been summarized.
Reprogram to pluripotency: a new logic and a chemical cocktail
Authors: Song Hongjun , Ming Guo-li 
Published: December 2013

Abstract
Somatic cells from animals and humans can be reprogrammed into pluripotent stem cells by pluripotency factors. Hongkui Deng and colleagues discovered that pluripotency can also be induced with exogenous lineage specifiers via balancing competing differentiation forces. In a related study they achieved, for the first time, restoration of pluripotency in adult somatic cells using a chemical cocktail alone.
The Endoplasmic Reticulum Binding Protein BiP Displays Dual Function in Modulating Cell Death Events
Authors: Carvalho Humberto H. , Silva Priscila A. , Mendes Giselle C. , Brustolini Otávio J.B. , Pimenta Maiana R. , Gouveia Bianca C. , Valente Maria Anete S. , Ramos Humberto J.O. , Soares-Ramos Juliana R.L. , Fontes Elizabeth P.B. 
Published: December 2013

Abstract
The binding protein (BiP) has been demonstrated to participate in innate immunity and attenuate endoplasmic reticulum- and osmotic stress-induced cell death. Here, we employed transgenic plants with manipulated levels of BiP to assess whether BiP also controlled developmental and hypersensitive programmed cell death (PCD). Under normal conditions, the BiP-induced transcriptome revealed a robust down-regulation of developmental PCD genes and an up-regulation of the genes involved in hypersensitive PCD triggered by nonhost-pathogen interactions. Accordingly, the BiP-overexpressing line displayed delayed leaf senescence under normal conditions and accelerated hypersensitive response triggered by Pseudomonas syringae pv tomato in soybean (Glycine max) and tobacco (Nicotiana tabacum), as monitored by measuring hallmarks of PCD in plants. The BiP-mediated delay of leaf senescence correlated with the attenuation of N-rich protein (NRP)-mediated cell death signaling and the inhibition of the senescence-associated activation of the unfolded protein response (UPR). By contrast, under biological activation of salicylic acid (SA) signaling and hypersensitive PCD, BiP overexpression further induced NRP-mediated cell death signaling and antagonistically inhibited the UPR. Thus, the SA-mediated induction of NRP cell death signaling occurs via a pathway distinct from UPR. Our data indicate that during the hypersensitive PCD, BiP positively regulates the NRP cell death signaling through a yet undefined mechanism that is activated by SA signaling and related to ER functioning. By contrast, BiP’s negative regulation of leaf senescence may be linked to its capacity to attenuate the UPR activation and NRP cell death signaling. Therefore, BiP can function either as a negative or positive modulator of PCD events.
Seroreactive marker for inflammatory bowel disease and associations with antibodies to dietary proteins in bipolar disorder
Authors: Severance Emily G , Gressitt Kristin L , Yang Shuojia , Stallings Cassie R , Origoni Andrea E , Vaughan Crystal , Khushalani Sunil , Alaedini Armin , Dickerson Faith B , Yolken Robert H 
Published: December 2013

ObjectivesImmune sensitivity to wheat glutens and bovine milk caseins may affect a subset of individuals with bipolar disorder. Digested byproducts of these foods are exorphins that have the potential to impact brain physiology through action at opioid receptors. Inflammation in the gastrointestinal (GI) tract might accelerate exposure of food antigens to systemic circulation and help explain elevated gluten and casein antibody levels in individuals with bipolar disorder.MethodsWe measured a marker of GI inflammation, anti‐Saccharomyces cerevisiae antibodies (ASCA), in non‐psychiatric controls (n = 207), in patients with bipolar disorder without a recent onset of psychosis (n = 226), and in patients with bipolar disorder with a recent onset of psychosis (n = 38). We compared ASCA levels to antibodies against gluten, casein, Epstein–Barr virus (EBV), herpes simplex virus 1 (HSV‐1), influenza A, influenza B, measles, and Toxoplasma gondii.ResultsElevated ASCA conferred a 3.5–4.4‐fold increased odds ratio of disease association (age‐, race‐, and gender‐corrected multinomial logistic regressions, p ≤ 0.00001) that was independent of type of medication received. ASCA correlated with food antibodies in both bipolar disorder groups (R2 = 0.29–0.59, p ≤ 0.0005), and with measles and T. gondii immunoglobulin G (IgG) in the recent onset psychosis bipolar disorder group (R2 = 0.31–0.36, p ≤ 0.004–0.01).ConclusionsElevated seropositivity of a GI‐related marker and its association with antibodies to food‐derived proteins and self‐reported GI symptoms suggest a GI comorbidity in at least a subgroup of individuals with bipolar disorder. Marker seroreactivity may also represent part of an overall heightened activated immune state inherent to this mood disorder.
Hodgkin lymphoma patients in first remission: routine positron emission tomography/computerized tomography imaging is not superior to clinical follow‐up for patients with no residual mass
Authors: Dann Eldad J. , Berkahn Leanne , Mashiach Tatiana , Frumer Michael , Agur Ariel , McDiarmid Bridgett , Bar‐Shalom Rachel , Paltiel Ora , Goldschmidt Neta 
Published: December 2013

SummaryThere is no consensus regarding optimal follow‐up mode for Hodgkin lymphoma (HL) patients that achieve complete remission following chemotherapy or combined chemo‐ and radiation therapy. Several studies demonstrated high sensitivity of positron emission tomography/computerized tomography (PET/CT) in detecting disease progression; however, these techniques are currently not recommended for routine follow‐up. This retrospective study conducted in two Israeli (N = 291) and one New Zealand academic centres (N = 77), compared a group of HL patients, followed‐up with routine imaging every 6 months during the first 2 years after achieving remission, once in the third year, with additional dedicated studies performed due to symptoms or physical findings (Group I) to a group of patients without residual masses who underwent clinically‐based surveillance with dedicated imaging upon relapse suspicion (Group II). Five‐year overall survival (OS) was 94% and median time to relapse was 8·6 months for both modes. Relapse rates in Groups I and II were 13% and 9%, respectively. During the first 3 years of follow‐up, 47·5 and 4·7 studies were performed per detected relapse in Groups I and II, respectively. The current study demonstrated no benefit in either progression‐free survival (PFS) or OS in HL patients followed by routine imaging versus clinical follow‐up. The cost was 10 times higher for routine imaging.
Face engagement during infancy predicts later face recognition ability in younger siblings of children with autism
Authors: de Klerk Carina C.J.M. , Gliga Teodora , Charman Tony , Johnson Mark H. 
Published: December 2013

AbstractFace recognition difficulties are frequently documented in children with autism spectrum disorders (ASD). It has been hypothesized that these difficulties result from a reduced interest in faces early in life, leading to decreased cortical specialization and atypical development of the neural circuitry for face processing. However, a recent study by our lab demonstrated that infants at increased familial risk for ASD, irrespective of their diagnostic status at 3 years, exhibit a clear orienting response to faces. The present study was conducted as a follow‐up on the same cohort to investigate how measures of early engagement with faces relate to face‐processing abilities later in life. We also investigated whether face recognition difficulties are specifically related to an ASD diagnosis, or whether they are present at a higher rate in all those at familial risk. At 3 years we found a reduced ability to recognize unfamiliar faces in the high‐risk group that was not specific to those children who received an ASD diagnosis, consistent with face recognition difficulties being an endophenotype of the disorder. Furthermore, we found that longer looking at faces at 7 months was associated with poorer performance on the face recognition task at 3 years in the high‐risk group. These findings suggest that longer looking at faces in infants at risk for ASD might reflect early face‐processing difficulties and predicts difficulties with recognizing faces later in life.
Dopamine agonist monotherapy in Parkinson's disease and potential risk factors for dyskinesia: a meta‐analysis of levodopa‐controlled trials
Authors: Chondrogiorgi M. , Tatsioni A. , Reichmann H. , Konitsiotis S. 
Published: December 2013

Background and purposeDopamine agonists (DAs) are generally considered to be deprived of the highly dyskinetic effect of levodopa in Parkinson's disease (PD) patients. However, the risk for dyskinesia induced by DA monotherapy and the contribution of clinically significant factors in the development of this disorder have never been systematically assessed.MethodsA systematic literature search was conducted for randomized, levodopa‐controlled trials of DAs in early PD. A meta‐analysis was performed to calculate the combined odds ratio (OR) for dyskinesia. Meta‐regressions were subsequently performed on dyskinesia OR including individually as covariates the effects of mean disease duration, treatment duration and DA dose. In an additional analysis the effect of adjunct levodopa on the odds for dyskinesia was investigated.ResultsDA monotherapy resulted in an 87% lower risk for dyskinesia compared with treatment with levodopa (OR = 0.13, 95% confidence interval 0.09–0.19, P < 0.001). The risk for dyskinesia was independent of the dose of DA, disease duration and treatment duration. A dose‐related pattern was revealed between adjunct levodopa in the DA group and dyskinesia. Nevertheless, the odds for dyskinesia in the DA group were constantly lower than in the levodopa group.ConclusionInitial DA treatment encompasses a lower risk for dyskinesia even after the unavoidable introduction of levodopa that increases the risk for dyskinesia in a dose‐related manner. As the dose and treatment duration with DAs are factors independent of the risk of dyskinesia, monotherapy with DAs in early PD is suggested at doses that ensure efficacy and delay the need for levodopa, always following an adequate evaluation of the risks DAs can pose in individual patients.
Do cardiovascular risk factors explain the link between white matter hyperintensities and brain volumes in old age? A population‐based study
Authors: Wang R. , Fratiglioni L. , Laveskog A. , Kalpouzos G. , Ehrenkrona C.‐H. , Zhang Y. , Bronge L. , Wahlund L.‐O. , Bäckman L. , Qiu C. 
Published: December 2013

Background and purposeWhite matter hyperintensities (WMHs) and brain atrophy frequently coexist in older people. However, it is unclear whether the association between these two brain lesions is dependent on the aging process, a vascular mechanism or genetic susceptibility. It was therefore investigated whether the association between load of WMHs and brain atrophy measures is related to age, vascular risk factors (VRFs) or the APOE‐ε4 allele.MethodsThis population‐based study included 492 participants (age ≥60 years, 59.6% women) free of dementia and stroke. Data on demographics, VRFs and APOE genotypes were collected through interviews, clinical examination and laboratory tests. WMHs on magnetic resonance images were assessed using manual visual rating and automatic volumetric segmentation. Hippocampal and ventricular volumes were manually delineated, whereas total gray matter (GM) volume was measured by automatic segmentation. Data were analyzed with multivariate linear regression models.ResultsMore global WMHs, assessed using either a visual rating scale or a volumetric approach, were significantly associated with lower GM volume and higher ventricular volume; the associations remained significant after adjusting for age, VRFs and the APOE‐ε4 allele. In contrast, the association between global WMHs and hippocampal volume was no longer significant after adjusting for age, whereas adjustment for VRFs and APOE‐ε4 had no influential effect.ConclusionThe association of global WMHs with lower GM volume and higher ventricular volume is independent of age, VRFs and APOE‐ε4 allele, suggesting that the process of cerebral microvascular disease and neurodegeneration are associated independently of the normal aging process, vascular mechanisms or genetic susceptibility.
Oral vitamin D increases the frequencies of CD38+ human B cells and ameliorates IL‐17‐producing T cells
Authors: Drozdenko Gennadiy , Heine Guido , Worm Margitta 
Published: December 2013

AbstractVitamin D deficiency (serum 25‐hydroxyvitamin D < 50 nm) has been associated with the onset of immunological diseases including atopic dermatitis (AD), cutaneous or systemic lupus erythematosus and allergic asthma. In this study, we assessed whether oral vitamin D (cholecalciferol) supplementation leads to a systemic modulation of the phenotype of circulating lymphocyte populations and whether a defined serum 25‐hydroxyvitamin D (25(OH)D) concentration can be related to the effects on lymphocytes. Cholecalciferol was administered in a dose‐escalation setting to vitamin D–deficient individuals from 2000 up to 8000 IU daily for 12 weeks. Individuals without cholecalciferol intake served as controls. Peripheral B cells and T cells were examined by multicolour flow cytometric analysis. The mean serum 25(OH)D concentrations increased upon cholecalciferol intake up to 159 ± 28.7 nm, and remained low in the control group 30.0 ± 12.5 nm. Following cholecalciferol intake, the frequencies of circulating CD38 expressing B cells were significantly increased and IFN‐γ+, and/or IL‐17+ CD4+ T helper cells were decreased. These data were identified to correlate with the serum 25(OH)D levels by applying two different analysis approaches (ROC and a nonlinear regression analysis). Our data indicate that increasing 25(OH)D serum concentrations are associated with an increased expression of CD38 on B cells and a decreased T‐cell‐dependent proinflammatory cytokine production. The therapeutical role of our findings in systemic immunological diseases should be explored in the future by further controlled clinical studies.
Facility layout design using a multi‐objective interactive genetic algorithm to support the DM
Authors: García‐Hernández Laura , Arauzo‐Azofra Antonio , Salas‐Morera Lorenzo , Pierreval Henri , Corchado Emilio 
Published: December 2013

AbstractThe unequal area facility layout problem (UA‐FLP) has been addressed by many methods. Most of them only take aspects that can be quantified into account. This contribution presents a novel approach, which considers both quantitative aspects and subjective features. To this end, a multi‐objective interactive genetic algorithm is proposed with the aim of allowing interaction between the algorithm and the human expert designer, normally called the decision maker (DM) in the field of UA‐FLP. The contribution of the DM's knowledge into the approach guides the complex search process, adjusting it to the DM's preferences. The entire population associated to facility layout designs is evaluated by quantitative criteria in combination with an assessment prepared by the DM, who gives a subjective evaluation for a set of representative individuals of the population in each iteration. In order to choose these individuals, a soft computing clustering method is used. Two interesting real‐world data sets are analysed to empirically probe the robustness of these models. The first UA‐FLP case study describes an ovine slaughterhouse plant and the second, a design for recycling carton plant. Relevant results are obtained, and interesting conclusions are drawn from the application of this novel intelligent framework.