bluuebunny/crossref_metadata_2025_split huggingface dataset:
Anaerobic Oxidation of Methane Coupled to Nitrite Reduction by Halophilic Marine NC10 Bacteria
Authors: He Zhanfei , Geng Sha , Cai Chaoyang , Liu Shuai , Liu Yan , Pan Yawei , Lou Liping , Zheng Ping , Xu Xinhua , Hu Baolan 
Published: June 2015

ABSTRACT

Anaerobic oxidation of methane (AOM) coupled to nitrite reduction is a novel AOM process that is mediated by denitrifying methanotrophs. To date, enrichments of these denitrifying methanotrophs have been confined to freshwater systems; however, the recent findings of 16S rRNA and
pmoA
gene sequences in marine sediments suggest a possible occurrence of AOM coupled to nitrite reduction in marine systems. In this research, a marine denitrifying methanotrophic culture was obtained after 20 months of enrichment. Activity testing and quantitative PCR (qPCR) analysis were then conducted and showed that the methane oxidation activity and the number of NC10 bacteria increased correlatively during the enrichment period. 16S rRNA gene sequencing indicated that only bacteria in group A of the NC10 phylum were enriched and responsible for the resulting methane oxidation activity, although a diverse community of NC10 bacteria was harbored in the inoculum. Fluorescence
in situ
hybridization showed that NC10 bacteria were dominant in the enrichment culture after 20 months. The effect of salinity on the marine denitrifying methanotrophic culture was investigated, and the apparent optimal salinity was 20.5‰, which suggested that halophilic bacterial AOM coupled to nitrite reduction was obtained. Moreover, the apparent substrate affinity coefficients of the halophilic denitrifying methanotrophs were determined to be 9.8 ± 2.2 μM for methane and 8.7 ± 1.5 μM for nitrite.
Extracellular Glycoside Hydrolase Activities in the Human Oral Cavity
Authors: Inui Taichi , Walker Lauren C. , Dodds Michael W. J. , Hanley A. Bryan 
Published: June 2015

ABSTRACT

Carbohydrate availability shifts when bacteria attach to a surface and form biofilm. When salivary planktonic bacteria form an oral biofilm, a variety of polysaccharides and glycoproteins are the primary carbon sources; however, simple sugar availabilities are limited due to low diffusion from saliva to biofilm. We hypothesized that bacterial glycoside hydrolase (GH) activities would be higher in a biofilm than in saliva in order to maintain metabolism in a low-sugar, high-glycoprotein environment. Salivary bacteria from 13 healthy individuals were used to grow
in vitro
biofilm using two separate media, one with sucrose and the other limiting carbon sources to a complex carbohydrate. All six GHs measured were higher
in vitro
when grown in the medium with complex carbohydrate as the sole carbon source. We then collected saliva and overnight dental plaque samples from the same individuals and measured
ex vivo
activities for the same six enzymes to determine how oral microbial utilization of glycoconjugates shifts between the planktonic phase in saliva and the biofilm phase in overnight dental plaque. Overall higher GH activities were observed in plaque samples, in agreement with
in vitro
observation. A similar pattern was observed in GH activity profiles between
in vitro
and
ex vivo
data. 16S rRNA gene analysis showed that plaque samples had a higher abundance of microorganisms with larger number of GH gene sequences. These results suggest differences in sugar catabolism between the oral bacteria located in the biofilm and those in saliva.
Inequalities in non-small cell lung cancer treatment and mortality
Authors: Nur Ula , Quaresma Manuela , De Stavola Bianca , Peake Michael , Rachet Bernard 
Published: June 2015

BackgroundNon-small cell lung cancer (NSCLC) comprises approximately 85% of all lung cancer cases, and surgery is the preferred treatment for patients. The National Health Service established Primary Care Trusts (PCTs) in 2002 to manage local health needs. We investigate whether PCTs with a lower uptake of surgical treatment are those with above-average mortality 1 year after diagnosis. The applied methods can be used to monitor the performance of any administrative bodies responsible for the management of patients with cancer.MethodsAll adults diagnosed with NSCLC lung cancer during 1998–2006 in England were identified. We fitted mixed effect logistic models to predict surgical treatment within 6 months after diagnosis, and mortality within 1 year of diagnosis.ResultsAround 10% of the NCSLC patients received curative surgery. Older deprived patients and those who did not receive surgery had much higher odds of death 1 year after being diagnosed with cancer. In total, 69% of the PCTs were below the lower control limit of surgery and have predicted random intercepts above the mean value of zero of the random effect for mortality, whereas 40% were above the upper control limit of mortality within 1 year.ConclusionsOur main results suggest the presence of clear geographical variation in the use of surgical treatment of NSCLC and mortality. Mixed-effects models combined with the funnel plot approach were useful for assessing the performance of PCTs that were above average in mortality and below average in surgery.
Identification of Oncogenic and Drug-Sensitizing Mutations in the Extracellular Domain of FGFR2
Authors: Tanizaki Junko , Ercan Dalia , Capelletti Marzia , Dodge Michael , Xu Chunxiao , Bahcall Magda , Tricker Erin M. , Butaney Mohit , Calles Antonio , Sholl Lynette M. , Hammerman Peter S. , Oxnard Geoffrey R. , Wong Kwok-Kin , Jänne Pasi A. 
Published: June 2015

Abstract
The discovery of oncogenic driver mutations and the subsequent developments in targeted therapies have led to improved outcomes for subsets of lung cancer patients. The identification of additional oncogenic and drug-sensitive alterations may similarly lead to new therapeutic approaches for lung cancer. We identify and characterize novel FGFR2 extracellular domain insertion mutations and demonstrate that they are both oncogenic and sensitive to inhibition by FGFR kinase inhibitors. We demonstrate that the mechanism of FGFR2 activation and subsequent transformation is mediated by ligand-independent dimerization and activation of FGFR2 kinase activity. Both FGFR2-mutant forms are predominantly located in the endoplasmic reticulum and Golgi but nevertheless can activate downstream signaling pathways through their interactions with fibroblast growth factor receptor substrate 2 (FRS2). Our findings provide a rationale for therapeutically targeting this unique subset of FGFR2-mutant cancers as well as insight into their oncogenic mechanisms. Cancer Res; 75(15); 3139–46. ©2015 AACR.
Using CellMiner 1.6 for Systems Pharmacology and Genomic Analysis of the NCI-60
Authors: Reinhold William C. , Sunshine Margot , Varma Sudhir , Doroshow James H. , Pommier Yves 
Published: June 2015

Abstract
The NCI-60 cancer cell line panel provides a premier model for data integration, and systems pharmacology being the largest publicly available database of anticancer drug activity, genomic, molecular, and phenotypic data. It comprises gene expression (25,722 transcripts), microRNAs (360 miRNAs), whole-genome DNA copy number (23,413 genes), whole-exome sequencing (variants for 16,568 genes), protein levels (94 genes), and cytotoxic activity (20,861 compounds). Included are 158 FDA-approved drugs and 79 that are in clinical trials. To improve data accessibility to bioinformaticists and non-bioinformaticists alike, we have developed the CellMiner web–based tools. Here, we describe the newest CellMiner version, including integration of novel databases and tools associated with whole-exome sequencing and protein expression, and review the tools. Included are (i) “Cell line signature” for DNA, RNA, protein, and drugs; (ii) “Cross correlations” for up to 150 input genes, microRNAs, and compounds in a single query; (iii) “Pattern comparison” to identify connections among drugs, gene expression, genomic variants, microRNA, and protein expressions; (iv) “Genetic variation versus drug visualization” to identify potential new drug:gene DNA variant relationships; and (v) “Genetic variant summation” designed to provide a synopsis of mutational burden on any pathway or gene group for up to 150 genes. Together, these tools allow users to flexibly query the NCI-60 data for potential relationships between genomic, molecular, and pharmacologic parameters in a manner specific to the user's area of expertise. Examples for both gain- (RAS) and loss-of-function (PTEN) alterations are provided. Clin Cancer Res; 21(17); 3841–52. ©2015 AACR.
FDA Approval Summary: Ramucirumab for Gastric Cancer
Authors: Casak Sandra J. , Fashoyin-Aje Ibilola , Lemery Steven J. , Zhang Lillian , Jin Runyan , Li Hongshan , Zhao Liang , Zhao Hong , Zhang Hui , Chen Huanyu , He Kun , Dougherty Michele , Novak Rachel , Kennett Sarah , Khasar Sachia , Helms Whitney , Keegan Patricia , Pazdur Richard 
Published: June 2015

Abstract
The FDA approved ramucirumab (CYRAMZA; Eli Lilly and Company) for previously treated patients with advanced or metastatic gastric or gastroesophageal junction adenocarcinoma initially as monotherapy (April 21, 2014) and subsequently as combination therapy with paclitaxel (November 5, 2014). In the monotherapy trial, 355 patients in the indicated population were randomly allocated (2:1) to receive ramucirumab or placebo, 8 mg/kg intravenously every 2 weeks. In the combination trial, 665 patients were randomly allocated (1:1) to receive ramucirumab or placebo, 8 mg/kg intravenously every 2 weeks, in combination with paclitaxel, 80 mg/m2 on days 1, 8, and 15 of 28-day cycles. Overall survival (OS) was increased in patients who received ramucirumab in both the monotherapy [HR, 0.78; 95% confidence interval (CI), 0.60–0.998; log rank P = 0.047] and combination trials (HR, 0.81; 95% CI, 0.68–0.96; P = 0.017). The most common adverse reactions were hypertension and diarrhea in the monotherapy trial and fatigue, neutropenia, diarrhea, and epistaxis in the combination trial. Because of concerns about the robustness of the monotherapy trial results, FDA approved the original application after receiving the results of the combination trial confirming the OS effect. Based on exploratory exposure–response analyses, there is residual uncertainty regarding the optimal dose of ramucirumab. Clin Cancer Res; 21(15); 3372–6. ©2015 AACR.
Melanoma Induces, and Adenosine Suppresses, CXCR3-Cognate Chemokine Production and T-cell Infiltration of Lungs Bearing Metastatic-like Disease
Authors: Clancy-Thompson Eleanor , Perekslis Thomas J. , Croteau Walburga , Alexander Matthew P. , Chabanet Tamer B. , Turk Mary Jo , Huang Yina H. , Mullins David W. 
Published: June 2015

Abstract
Despite immunogenicity, melanoma-specific vaccines have demonstrated minimal clinical efficacy in patients with established disease but enhanced survival when administered in the adjuvant setting. Therefore, we hypothesized that organs bearing metastatic-like melanoma may differentially produce T-cell chemotactic proteins over the course of tumor development. Using an established model of metastatic-like melanoma in lungs, we assessed the production of specific cytokines and chemokines over a time course of tumor growth, and we correlated chemokine production with chemokine receptor–specific T-cell infiltration. We observed that the interferon (IFN)-inducible CXCR3-cognate chemokines (CXCL9 and CXCL10) were significantly increased in lungs bearing minimal metastatic lesions, but chemokine production was at or below basal levels in lungs with substantial disease. Chemokine production was correlated with infiltration of the organ compartment by adoptively transferred CD8+ tumor antigen-specific T cells in a CXCR3- and host IFNγ-dependent manner. Adenosine signaling in the tumor microenvironment (TME) suppressed chemokine production and T-cell infiltration in the advanced metastatic lesions, and this suppression could be partially reversed by administration of the adenosine receptor antagonist aminophylline. Collectively, our data demonstrate that CXCR3-cognate ligand expression is required for efficient T-cell access of tumor-infiltrated lungs, and these ligands are expressed in a temporally restricted pattern that is governed, in part, by adenosine. Therefore, pharmacologic modulation of adenosine activity in the TME could impart therapeutic efficacy to immunogenic but clinically ineffective vaccine platforms. Cancer Immunol Res; 3(8); 956–67. ©2015 AACR.
Feasibility of the Ultrasonic Bone Aspirator in Retrosigmoid Vestibular Schwannoma Removal
Authors: Golub Justin S. , Weber Jon D. , Leach James L. , Pottschmidt Natalie R. , Zuccarello Mario , Pensak Myles L. , Samy Ravi N. 
Published: June 2015

Objective:Postoperative headache is an undesirable consequence of retrosigmoid vestibular schwannoma (VS) removal. An ultrasonic bone aspirator (UBA) may reduce headache by minimizing subarachnoid bone dust dispersion. The feasibility of removing internal auditory canal (IAC) bone with a UBA is unknown. This study assessed volume and duration of IAC bone removal in clinical and laboratory settings.Study Design:(1) Retrospective review of radiologic data and intraoperative videos. (2) Cadaveric temporal bone model.Setting:(1) Tertiary care medical center. (2) Laboratory.Subjects Methods:We calculated the volume of IAC bone drilled during retrosigmoid VS removal using postoperative computed tomography scans. We then measured the time spent actively drilling IAC bone by analyzing operative videos. Finally, we measured bone ablation rates in a cadaveric temporal bone model using a drill and UBA.Results:The mean ± SD volume of IAC bone removed during surgery was 0.32 ± 0.17 mL (n = 9). The time spent actively removing IAC bone with a drill was only 10.4 ± 3.5 minutes, less than a third of the total IAC opening time of 34.2 ± 13.1 minutes (n = 5). On cadaveric specimens, the UBA removed bone at 0.21 ± 0.03 or 0.35 ± 0.07 µL/s at 15% or 50% power, respectively (n = 4). This extrapolates to 15.0 ± 3.0 to 25.0 ± 3.9 minutes to remove the same 0.32 mL from surgery.Conclusions:The volume and duration of IAC bone removal during retrosigmoid VS surgery are small. Using a UBA at low power instead of a drill would extend the length of surgery by 5 to 15 minutes, with the theoretical potential for reducing headache.
Mucin 1 is a potential therapeutic target in cutaneous T-cell lymphoma
Authors: Jain Salvia , Stroopinsky Dina , Yin Li , Rosenblatt Jacalyn , Alam Maroof , Bhargava Parul , Clark Rachael A. , Kupper Thomas S. , Palmer Kristen , Coll Maxwell D. , Rajabi Hasan , Pyzer Athalia , Bar-Natan Michal , Luptakova Katarina , Arnason Jon , Joyce Robin , Kufe Donald , Avigan David 
Published: June 2015

Key PointsMUC1-C oncoprotein contributes toward maintenance of redox balance in CTCL. Targeting the MUC1-C oncoprotein in CTCL cells induces ROS-mediated death highlighting its potential as an effective strategy.
Severe but not mild hypercapnia affects the outcome in patients with severe cardiogenic pulmonary edema treated by non-invasive ventilation
Authors: Contou Damien , Fragnoli Chiara , Córdoba-Izquierdo Ana , Boissier Florence , Brun-Buisson Christian , Thille Arnaud W 
Published: June 2015

Abstract

Background
Patients with severe cardiogenic pulmonary edema (CPE) are frequently hypercapnic, possibly because of associated underlying chronic lung disease (CLD). Since hypercapnia has been associated with outcome, we aimed to identify factors associated to hypercapnia and its role on outcome of patients with CPE and no underlying CLD.

Methods
Observational cohort study using data prospectively collected over a 3-year period. After excluding patients with any CLD or obstructive sleep apneas, all patients treated by non-invasive ventilation (NIV) for severe CPE were included. Hypercapnia was defined as PaCO2 >45 mmHg and non-rapid favorable outcome was defined as the need for intubation or continuation of NIV for more than 48 h.

Results
After excluding 60 patients with underlying CLD or sleep apneas, 112 patients were studied. The rates of intubation and of prolonged NIV were 6.3 % (n = 7) and 21.4 % (n = 24), respectively. Half of the patients (n = 56) had hypercapnia upon admission. Hypercapnic patients were older, more frequently obese, and were more likely to have a respiratory tract infection than non-hypercapnic patients. Hypercapnia had no influence on intubation rate or the need for prolonged NIV. However, patients with severe hypercapnia (PaCO2 >60 mmHg) needed longer durations of NIV and intensive care unit (ICU) stay than the others.

Conclusions
Among the patients admitted for severe CPE without CLD, half of them had hypercapnia at admission. Hypercapnic patients were older and more frequently obese but their outcome was similar compared to non-hypercapnic patients. Patients with severe hypercapnia needed longer durations of NIV than the others without increase in intubation rate.
The poorly known genus Ventrifurca Roewer, 1913 revisited (Opiliones: Cranaidae)
Authors: Villarreal M Osvaldo , Kury Adriano B , Pinto-da-Rocha Ricardo 
Published: June 2015

AbstractBackgroundThe distinction of genera in Cranaidae (as in many other Gonyleptoidea) is traditionally made on the basis of a combination of armature of scutal areas, tarsomere counts, and some secondary sexual structures (which may vary among males). This historically led to the creation of non-natural groups of species as meaningless genera. Here some nominal genera of Cranaidae are addressed, and this paucity of diagnostic characters is alleviated with more detailed diagnoses and descriptions.ResultsThe poorly known genusVentrifurcaRoewer, 1913, hitherto monotypic, is revisited. The generaMicrocranausRoewer, 1913 (with three species),CayabeusRoewer, 1932 (monotypic), andAngistrius(monotypic) are here proposed as junior subjective synonyms ofVentrifurca. Both type species ofMicrocranausandCayabeusare considered junior subjective synonyms ofVentrifurca albipustulata; thus,Cayabeus perlatusRoewer, 1932 andMicrocranaus pustulatusRoewer, 1913 = Ventrifurca albipustulataRoewer, 1913.Ventrifurca abnormiscomb. nov. is proposed forAngistrius abnormisRoewer, 1932.Rhopalocranaus dybasiGoodnight & Goodnight, 1947, currentlyNeocranaus dybasi, is transferred toVentrifurca, and the new combinationVentrifurca dybasicomb. nov. is herein proposed for it.Ventrifurca albipustulatais redescribed, and for the first time, the male genitalia is described and illustrated, and SEM pictures are offered. The new speciesVentrifurca caffeinicasp. nov. is described from Quindío department, Colombia. A new diagnosis toVentrifurcais proposed. The relationships ofVentrifurcaare discussed. The remaining two species ofMicrocranausare transferred to the family Manaosbiidae: (1)Microcranaus columbianusnewly combined asRhopalocranaus columbianus(Roewer, 1963) and (2)Microcranaus gracilisnewly combined asCamelianus gracilis(Roewer, 1913). New diagnoses are given for both species.ConclusionsA non-monotypic genus of Andean Cranaidae is defined, associated with a well-defined geographic region, and unloaded of extraneous species which belong to another family. Recognition of variation in heteromorphic males reveals past errors of assignment when only limited samples were available for study.
What are you looking at?: Staring down notions of the disabled body in dance
Authors: Durham-Wall Meghan 
Published: June 2015

Abstract
This article considers the display of the disabled body in dance performance. I use Heidi Latsky’s Five Open Mouths as an example of how staging physical otherness can be an act of provocation that reframes conventional perceptions of the disabled dancing body. I draw on cultural critic Rosemarie Garland-Thomson’s construct of the ‘baroque stare’ as a prolonged and engaged visual encounter between seer and seen. Used productively in dance, this stare helps viewers recognize how they experience seeing and holds potential as a generative site for renegotiating social, cultural and aesthetic assumptions about the disabled body.
Waltzing disability culture: Moving history with Raimund Hoghe
Authors: Kuppers Petra 
Published: June 2015

Abstract
This article speaks about transmission and disability culture, and about a dance created by a disabled person, German choreographer Raimund Hoghe, in order to excavate something lost: disability culture’s history, disabled people’s sense of a particular history that pertains to them and that puts their unique embodiment and enmindment into a wider temporal perspective. Waltzing and turning are dancerly metaphors throughout this article, ways in which language and movement join in dance work about that which has vanished.
Validation and virtuosity: Perspectives on difference and authorship/control in dance
Authors: Whatley Sarah , Waelde Charlotte , Brown Abbe , Harmon Shawn 
Published: June 2015

Abstract
This article brings together two different perspectives, dance and law, to ask questions about authorship and ownership in disabled dance. The focus is on Caroline Bowditch’s short film project, A Casting Exploration, in which she is recast as the female dancer in a duet section from Joan Cleville’s choreography for Scottish Dance Theatre, Love Games. We explore what medical law, human rights law and intellectual property law might say about Bowditch’s role. We show how the film project raises questions about the aesthetic properties of the double duet, the politics of sameness and difference, and who can claim ‘ownership’ of the dance.
Disabling ability in dance: Intercultural dramaturgies of the Thikwa plus Junkan Project
Authors: Nakajima Nanako 
Published: June 2015

Abstract
From 2008 to 2012, I worked as a dramaturge in Japan and Germany, developing an international dance project titled Thikwa plus Junkan Project with Osamu Jareo, a choreographer based in Japan. This project, involving Japanese and German differently abled performers, was created and performed in both countries. This article highlights our experiences while designing and implementing this mixed-ability, intercultural project. Stretching across disciplines and code systems, this project reveals cultural construction of dis/ability and dance aesthetics and provides an alternative concept for dancing bodies. To avoid using the other culture for one’s own benefit as well as to avoid being consumed as its others in the international dance market, I consider, in this article, how the intercultural dramaturgy of this project aims to realize a cultural ecology of dance by switching our cultural frames to balance the power.
Simon Hantaï Editorial
Authors: Finch Mick , Lisbon Laura , Sturgis Daniel 
Published: June 2015

Abstract
Simon Hantaï’s reputation was established from the early 1960s, with regular exhibitions up until his withdrawal from the art world in 1982. His work had a consistent impact in France where he is regarded as a major post-war artist who initiated a crucial rethinking of painting in the wake of Pollock and Matisse, influencing most specifically the generation epitomized by the groups Buren, Mosset, Parmentier and Toroni and Supports/Surfaces. More recently, however, an exhibition at the Paul Kasmin Gallery in New York (2010) and a major retrospective at the Centre Pompidou in Paris (2013) have contributed to a growing interest in, and recognition of, Hantaï’s work outside of France. This issue of the Journal of Contemporary Painting is an intervention within this emerging reception.
Simon Hantaï’s personal archives
Authors: Hantaï Anna 
Published: June 2015

Abstract
This article deals with the results of a preliminary catalogue of Simon Hantaï’s wonderfully rich collection of personal archives, left untouched in his studio at the time of his death. From 1984, as he voluntarily withdrew from the artistic scene and the public arena, Hantaï never actually ceased working. In the last fifteen years of his life, when he was particularly active, a large part of the work archived was created or else collected, manipulated and reused. These archives are part and parcel of Hantaï’s original creative process at the time, as he reassessed and continued his work.