bluuebunny/crossref_metadata_2025_split huggingface dataset:
Complete Genome Sequence of a Novel Recombinant GII.Pe_GII.17 Norovirus Strain from Hong Kong in 2015
Authors: Chan Martin C. W. , Hung Tin-Nok , Kwok Kirsty , Chan Paul K. S. 
Published: November 2015

ABSTRACT
The complete genome sequence of a novel recombinant GII.Pe_GII.17 norovirus strain, tentatively named GII.17 Hong Kong 2015, was determined. RNA-dependent RNA polymerase has 95.6% and 98.4% and viral protein 1 has 90.6% and 95.9% identity at the nucleotide and amino acid levels, respectively, to the closest sequences in GenBank.
Complete Genome Sequence of the Drug-Naive Classical Staphylococcus aureus Strain FDA209P
Authors: Singh Madhuri , Sasaki Takashi , Matsuo Miki , Morimoto Yuh , Aiba Yoshifumi , Hiramatsu Keiichi 
Published: November 2015

ABSTRACT

We report the complete genome sequence of the methicillin-sensitive
Staphylococcus aureus
(MSSA) strain FDA209P (ATCC 6538P and NCTC 7447).
Draft Genome Sequences of Four
Streptomyces
Isolates from the
Populus trichocarpa
Root Endosphere and Rhizosphere
Authors: Klingeman Dawn M. , Utturkar Sagar , Lu Tse-Yuan S. , Schadt Christopher W. , Pelletier Dale A. , Brown Steven D. 
Published: November 2015

ABSTRACT

Draft genome sequences for four
Actinobacteria
from the genus
Streptomyces
are presented.
Streptomyces
is a metabolically diverse genus that is abundant in soils and has been reported in association with plants. The strains described in this study were isolated from the
Populus trichocarpa
endosphere and rhizosphere.
Draft Genome Sequence of a Metronidazole-Resistant Derivative of Gardnerella vaginalis Strain ATCC 14019
Authors: Schuyler Jessica A. , Mordechai Eli , Adelson Martin E. , Gygax Scott E. , Hilbert David W. 
Published: November 2015

ABSTRACT

We report the genome sequence of a metronidazole-resistant derivative of
Gardnerella vaginalis
ATCC 14019. This strain was obtained after serial selection to increase the MIC from 4 to ≥500 µg/ml. Two coding changes, in genes encoding a response regulator and an NAD
+
synthetase, arose during selection.
Associations between chronic diseases and choking deaths among older adults in the USA: a cross-sectional study using multiple cause mortality data from 2009 to 2013
Authors: Wu Wen-Shiann , Sung Kuan-Chin , Cheng Tain-Junn , Lu Tsung-Hsueh 
Published: November 2015

ObjectivesTo examine whether the strengths of the associations between chronic diseases and overall choking differ from those of the associations between chronic diseases and only food-related choking.DesignThis cross-sectional study used nationwide multiple cause mortality files.SettingThe USA.ParticipantsOlder adults aged 65 years or more died between 2009 and 2013.Main outcome measuresMortality ratio (observed/expected) of number of deaths from both causes (chronic diseases and choking) and 95% CIs.ResultsWe identified 76543 deaths for which the death certificates report choking (International Statistical Classification of Diseases and Related Health Problems, Tenth Revision (ICD-10) codes W78, W79 and W80 combined) as a cause of death and only 4974 (6.5%) deaths were classified as food-related choking (ICD-10 code W79). Schizophrenia, Parkinson's disease, Alzheimer's disease and oral cancer are four chronic diseases that had significant associations with both overall and food-related choking. Stroke, larynx cancer and mood (affective) disorders had significant associations with overall choking, but not with food-related choking.ConclusionsWe suggest using overall choking instead of only food-related choking to better describe the associations between chronic diseases and choking.
The Capillary Index Score before thrombectomy: an angiographic correlate of favorable outcome
Authors: Labeyrie Paul-Emile , Redjem Hocine , Blanc Raphaël , Labeyrie Marc-Antoine , Bartolini Bruno , Ciccio Gabriele , Robert Thomas , Gilboa Boaz , Fahed Robert , Abrivard Marie , Piotin Michel 
Published: November 2015

Background and purposeThe angiography based Capillary Index Score (CIS) has recently emerged as a potential surrogate marker of cerebral perfusion before intra-arterial thrombolysis. We assessed the prevalence of a favorable CIS (f-CIS) and its relationship with clinical outcome in patients treated by mechanical thrombectomy (MT).MethodsData from consecutive patients treated by MT from acute middle cerebral artery (MCA) occlusion were retrospectively analyzed. CIS was calculated from a pre-intervention cerebral angiogram. Association with favorable clinical outcome (modified Rankin Scale score ≤2) at 3 months was assessed in multivariate analysis.Results146 patients were included in the study. f-CIS was observed in 106/146 (72%) patients with an acceptable inter-rater agreement (κ=0.73, p<0.001). It was associated with a lower pretreatment National Institutes of Health Stroke Scale (NIHSS) score (p=0.014), an isolated M1/M2 occlusion without internal carotid occlusion (p=0.042), and an Alberta Stroke Program Early CT Score (ASPECTS) >4 (p=0.004). In binary regression, a favorable outcome was independently associated with f-CIS (OR (−95% CI, +95% CI)=3.8 (1.3 to 10.9), p=0.013), as well as NIHSS (p=0.007), ASPECTS (p=0.005), isolated M1/M2 occlusion (p=0.013), and age (p=0.032). The positive predictive value of f-CIS for a favorable outcome was 67%.Conclusionsf-CIS was strongly associated with a favorable outcome after MT of acute MCA occlusion. As an easy surrogate marker of cerebral perfusion, it may be a useful—albeit not sufficient—diagnostic test to select patients just before an MT or to manage them after recanalization.
Low-temperature glassy systems: Present understanding, open problems and future developments
Authors: Parisi G. 
Published: November 2015

Jamming of hard spheres is a new critical phenomenon whose exponents are different from those of the other known transitions. These exponents have been recently computed in a mean field approximation whose limits of validity are not known. Even if their values are in very good agreement with the ones obtained by accurate numerical simulations, the deep reasons for this success are not understood. In this paper, after a brief presentation of the state of the art on the glass transition and jamming, I will discuss how this breakthrough can be the starting point of possible progresses in the following directions: the computation of the upper critical dimension for jamming, harmonic oscillations for soft spheres at low temperature, off-equilibrium behavior and quantum glassy effects.
EFFECTS OF B2O3ADDITION ON SINTERING BEHAVIOR AND MICROWAVE DIELECTRIC PROPERTIES OF Mg4Ta2O9CERAMICS PREPARED BY THE SOL–GEL METHOD
Authors: GUO J. D. , BI J. X. , WU H. T. 
Published: November 2015

Sintering characteristics and microwave dielectric properties of Mg4Ta2O9–5[Formula: see text]wt% B2O3ceramics were investigated. With the sintering temperature increasing in the range of 1100[Formula: see text]C–1350[Formula: see text]C, the apparent density, [Formula: see text] and [Formula: see text] values increased firstly and then saturated at 1250[Formula: see text]C with excellent microwave properties: [Formula: see text], [Formula: see text][Formula: see text]GHz and [Formula: see text][Formula: see text]ppm/[Formula: see text]C. Compared to the pure MT ceramics, the B2O3additives effectively decreased the sintering temperature of MT ceramics and had no detrimental effect on the properties of the MT ceramics due to the liquid phase effect.
Connectivity Results of Complete Cubic Networks as Associated with Linearly Many Faults
Authors: CHENG EDDIE , QIU KE , SHEN ZHIZHANG 
Published: November 2015

We propose the complete cubic network structure to extend the existing class of hierarchical cubic networks, and establish a general connectivity result which states that the surviving graph of a complete cubic network, when a linear number of vertices are removed, consists of a large (connected) component and a number of smaller components which altogether contain a limited number of vertices.As applications, we characterize several fault-tolerance properties for the complete cubic network, including its restricted connectivity, i.e., the size of a minimum vertex cut such that the degree of every vertex in the surviving graph has a guaranteed lower bound; its cyclic vertex-connectivity, i.e., the size of a minimum vertex cut such that at least two components in the surviving graph contain a cycle; its component connectivity, i.e., the size of a minimum vertex cut whose removal leads to a certain number of components in its surviving graph; and its conditional diagnosability, i.e., the maximum number of faulty vertices that can be detected via a self-diagnostic process, in terms of the common Comparison Diagnosis model.
Depositional characteristics of the northern South China Sea in response to the evolution of the Pearl River
Authors: Shao Lei , Qiao Peijun , Zhao Meng , Li Qianyu , Wu Mengshuang , Pang Xiong , Zhang Hao 
Published: November 2015

Abstract

Geochemical data from South China Sea sedimentary rocks show the effects of both source composition and depositional environments. This enables us to link tectonic trends with erosion in the Pearl River region since
c.
32 Ma. In particular, a shift in the geochemistry appears to signal a response to a well-recorded regional tectonic event at
c.
23–25 Ma, probably corresponding to a jump in the seafloor spreading axis from the west to the SW within the South China Sea. This may correlate with the uplift of the West Yunnan Plateau and possibly also the eastern Tibetan Plateau. Clay mineralogy, sand–mud ratio, and major and rare earth element concentrations, also varied in response to the environment in the drainage areas of the palaeo-Pearl River. By comparing data from the modern sources and the sedimentary record from the northern South China Sea, especially the erosion–transportation–deposition patterns, three groups of index minerals (Ati, GZi, ZTR), as well as rare earth elements can be recognized. These are used to characterize the Pearl River from the east to the west, representing three different parent rock sources. The evolution of the palaeo-Pearl River can be tracked by variations of heavy minerals and key elements that are indicative of provenance.

Supplementary material:

Supplementary material, including Tables S-1 and S-2 listing the sampling and analytical data, is available at
http://www.geolsoc.org.uk/SUP18855
CCR 20th Anniversary Commentary: Circulating Tumor Cells in Prostate Cancer
Authors: Mehra Niven , Zafeiriou Zafeiris , Lorente David , Terstappen Leon W.M.M. , de Bono Johann S. 
Published: November 2015

Abstract
Circulating tumor cells (CTC) have substantial promise for multipurpose biomarker studies in prostate cancer. The IMMC-38 trial conducted by de Bono and colleagues, which was published in the October 1, 2008, issue of Clinical Cancer Research, demonstrated for the first time that CTCs are the most accurate and independent predictor of overall survival in metastatic prostate cancer. Since the publication of prospective trials demonstrating prognostic utility, CTCs have been utilized for nucleic acid analyses, for protein analyses, and in intermediate endpoint studies. CTC studies are also now facilitating the analysis of intrapatient heterogeneity. Clin Cancer Res; 21(22); 4992–5. ©2015 AACR.
See related article by de Bono et al., Clin Cancer Res 2008;14(19) October 1, 2008;6302–9
BCL-2 Antagonism to Target the Intrinsic Mitochondrial Pathway of Apoptosis
Authors: Gibson Christopher J. , Davids Matthew S. 
Published: November 2015

Abstract
Despite significant improvements in treatment, cure rates for many cancers remain suboptimal. The rise of cytotoxic chemotherapy has led to curative therapy for a subset of cancers, though intrinsic treatment resistance is difficult to predict for individual patients. The recent wave of molecularly targeted therapies has focused on druggable-activating mutations, and is thus limited to specific subsets of patients. The lessons learned from these two disparate approaches suggest the need for therapies that borrow aspects of both, targeting biologic properties of cancer that are at once distinct from normal cells and yet common enough to make the drugs widely applicable across a range of cancer subtypes. The intrinsic mitochondrial pathway of apoptosis represents one such promising target for new therapies, and successfully targeting this pathway has the potential to alter the therapeutic landscape of therapy for a variety of cancers. Here, we discuss the biology of the intrinsic pathway of apoptosis, an assay known as BH3 profiling that can interrogate this pathway, early attempts to target BCL-2 clinically, and the recent promising results with the BCL-2 antagonist venetoclax (ABT-199) in clinical trials in hematologic malignancies. Clin Cancer Res; 21(22); 5021–9. ©2015 AACR.
See all articles in this CCR Focus section, “Cell Death and Cancer Therapy.”
How Do Cytotoxic Lymphocytes Kill Cancer Cells?
Authors: Martínez-Lostao Luis , Anel Alberto , Pardo Julián 
Published: November 2015

AbstractIn the past few years, cancer immunotherapy has emerged as a safe and effective alternative for treatment of cancers that do not respond to classical treatments, including those types with high aggressiveness. New immune modulators, such as cytokines, blockers of CTLA-4 (cytotoxic T-lymphocyte-associated protein 4) and PD-1(programmed cell death protein 1)/PD-L1 (programmed death-ligand 1), and interaction or adoptive cell therapy, have been developed and approved to treat solid and hematologic carcinomas. In these scenarios, cytotoxic lymphocytes (CL), mainly cytotoxic T cells (Tc) and natural killer (NK) cells, are ultimately responsible for killing the cancer cells and eradicating the tumor. Extensive studies have been conducted to assess how Tc and NK cells get activated and recognize the cancer cell. In contrast, few studies have focused on the effector molecules used by CLs to kill cancer cells during cancer immunosurveillance and immunotherapy. In this article, the two main pathways involved in CL-mediated tumor cell death, granule exocytosis (perforin and granzymes) and death ligands, are briefly introduced, followed by a critical discussion of the molecules involved in cell death during cancer immunosurveillance and immunotherapy. This discussion also covers unexpected consequences of proinflammatory and survival effects of granzymes and death ligands and recent experimental evidence indicating that perforin and granzymes of CLs can activate nonapoptotic pathways of cell death, overcoming apoptosis defects and chemoresistance. The consequences of apoptosis versus other modalities of cell death for an effective treatment of cancer by modulating the patient immune system are also briefly discussed. Clin Cancer Res; 21(22); 5047–56. ©2015 AACR.See all articles in this CCR Focus section, “Cell Death and Cancer Therapy.”
A Phase I Trial of BKM120 (Buparlisib) in Combination with Fulvestrant in Postmenopausal Women with Estrogen Receptor–Positive Metastatic Breast Cancer
Authors: Ma Cynthia X. , Luo Jingqin , Naughton Michael , Ademuyiwa Foluso , Suresh Rama , Griffith Malachi , Griffith Obi L. , Skidmore Zachary L. , Spies Nicholas C. , Ramu Avinash , Trani Lee , Pluard Timothy , Nagaraj Gayathri , Thomas Shana , Guo Zhanfang , Hoog Jeremy , Han Jing , Mardis Elaine , Lockhart Craig , Ellis Matthew J. 
Published: November 2015

Abstract
Purpose: This trial was conducted to determine the maximum tolerated dose (MTD) and preliminary efficacy of buparlisib, an oral pan-class I PI3K inhibitor, plus fulvestrant in postmenopausal women with metastatic estrogen receptor positive (ER+) breast cancer.
Experimental Design: Phase IA employed a 3+3 design to determine the MTD of buparlisib daily plus fulvestrant. Subsequent cohorts (phase IB and cohort C) evaluated intermittent (5/7-day) and continuous dosing of buparlisib (100 mg daily). No more than 3 prior systemic treatments in the metastatic setting were allowed in these subsequent cohorts.
Results: Thirty-one patients were enrolled. MTD was defined as buparlisib 100 mg daily plus fulvestrant. Common adverse events (AE) included fatigue (38.7%), transaminases elevation (35.5%), rash (29%), and diarrhea (19.4%). C-peptide was significantly increased during treatment, consistent with on-target effect of buparlisib. Compared with intermittent dosing, daily buparlisib was associated with more frequent early onset AEs and higher buparlisib plasma concentrations. Among the 29 evaluable patients, the clinical benefit rate was 58.6% (95% CI, 40.7%–74.5%). Response was not associated with PIK3CA mutation or treatment cohort; however, loss of PTEN, progesterone receptor (PgR) expression, or mutation in TP53 was most common in resistant cases, and mutations in AKT1 and ESR1 did not exclude treatment response.
Conclusions: Buparlisib plus fulvestrant is clinically active with manageable AEs in patients with metastatic ER+ breast cancer. Weekend breaks in buparlisib dosing reduced toxicity. Patients with PgR negative and TP53 mutation did poorly, suggesting buparlisib plus fulvestrant may not be adequately effective against tumors with these poor prognostic molecular features. Clin Cancer Res; 22(7); 1583–91. ©2015 AACR.
Interleukin-1 cluster combined genotype and restenosis after balloon angioplasty
Authors: Marculescu Rodrig , Mlekusch Wolfgang , Exner Markus , Sabeti Schila , Michor Stefanie , Rumpold Helmut , Mannhalter Christine , Minar Erich , Wagner Oswald , Schillinger Martin 
Published: November 2015

SummaryThe interleukin-1 system is fundamentally involved in the pathogenesis of restenosis after percutaneous transluminal angioplasty (PTA). In order to further define the clinical impact of genetic variation in this potent proinflammatory pathway we investigated the joint effects of two single nucleotide polymorphisms in the interleukin-1 beta gene [IL-1B(–511) and IL-1B(+3954)] and a variable number tandem repeat polymorphism in intron 2 of the interleukin 1 receptor antagonist gene (IL-1RN VNTR) on postintervention inflammation and occurrence of restenosis in 183 consecutive patients who underwent successful femoropopliteal PTA. C-reactive protein (CRP) and serum amyloid A (SAA) were determined pre- and 48 hours postintervention. Patients were followed up to 12 months for the occurrence of postangioplasty restenosis (≥50 %). When analyzed separately, none of the polymorphisms was associated either with inflammation or restenosis. However, when the IL-1B (–511) and the IL-1RN VNTR genotypes were combined, a highly significant relationship was observed: Non-carriers of the two repeat allele of the IL-1RN VNTR (IL-1RN*2) who were heterozygous and homozygous for the IL-1B (–511)T allele exhibited a gradually increased inflammatory response and a higher restenosis risk. In contrast, carriers of the IL-1RN*2 and the IL-1B (–511)T allele showed a significantly better outcome.This remarkable gene dose-dependent association emphasizes the advantage of considering combinations of genetic markers rather that isolated polymorphisms in the analysis of multifactorial vascular disease.
Investigating a Liver Fat
Authors: Rider Oliver J. , Banerjee Rajarshi , Rayner Jennifer J. , Shah Ravi , Murthy Venkatesh L. , Robson Matthew D. , Neubauer Stefan 
Published: November 2015

Objective—
To investigate the relationship between hepatic fat content, circulating triglyceride levels and aortic stiffness in adult and childhood obesity.

Approach and Results—

Seventy-seven adults and 18 children across a wide range of body mass index (18.5–52.6 kg/m
2
; percentile 8–100) with no identifiable cardiac risk factors underwent; 1H- magnetic resonance spectroscopy to quantify hepatic fat content and magnetic resonance imaging to assess aortic pulse wave velocity (PWV) and regional distensibility. In adults, multivariable regression showed age (β=0.09;
P
=0.02), liver fat (β=2.5;
P
=0.04), and serum triglyceride (β=0.47;
P
=0.01) to be independent predictors of PWV. Age and blood pressure–adjusted, moderated regression showed that 43% of the total negative effect of hepatic fat on PWV is attributable to indirect effects via increased triglyceride (
P
=0.005). In addition, regional distensibility was positively correlated with hepatic fat (ascending;
r
=−0.35; descending,
r
=−0.23; abdominal,
r
=−0.41; all
P
<0.001). Similar to that seen in adults, PWV (
r
=0.72;
P
<0.001) and abdominal regional distensibility (
r
=−0.52;
P
<0.001) were correlated with liver fat in children.

Conclusions—
Increasing age, liver fat, and triglyceride are all related to increased aortic stiffness in adults. Even when controlling for the effects of age and blood pressure, hepatic fat has a negative effect on PWV, with substantial indirect effect occurring via increased circulating triglyceride level. This relationship between hepatic fat and aortic stiffness occurs early in the obesity process and is also seen in children. As such, hepatic fat content is a potential therapeutic target to treat the elevated vascular risk in obesity.
MFAP4 Promotes Vascular Smooth Muscle Migration, Proliferation and Accelerates Neointima Formation
Authors: Schlosser Anders , Pilecki Bartosz , Hemstra Line E. , Kejling Karin , Kristmannsdottir Gudlaug B. , Wulf-Johansson Helle , Moeller Jesper B. , Füchtbauer Ernst-Martin , Nielsen Ole , Kirketerp-Møller Katrine , Dubey Lalit K. , Hansen Pernille B.L. , Stubbe Jane , Wrede Christoph , Hegermann Jan , Ochs Matthias , Rathkolb Birgit , Schrewe Anja , Bekeredjian Raffi , Wolf Eckhard , Gailus-Durner Valérie , Fuchs Helmut , Hrabě de Angelis Martin , Lindholt Jes S. , Holmskov Uffe , Sorensen Grith L. 
Published: November 2015

Objective—
Arterial injury stimulates remodeling responses that, when excessive, lead to stenosis. These responses are influenced by integrin signaling in vascular smooth muscle cells (VSMCs). Microfibrillar-associated protein 4 (MFAP4) is an integrin ligand localized to extracellular matrix fibers in the vascular wall. The role of MFAP4 in vascular biology is unknown. We aimed to test the hypothesis that MFAP4 would enhance integrin-dependent VSMC activation.

Approach and Results—

We produced
Mfap4
-deficient (
Mfap4

−/−

) mice and performed carotid artery ligation to explore the role of MFAP4 in vascular biology in vivo. Furthermore, we investigated the effects of MFAP4 in neointimal formation ex vivo and in primary VSMC and monocyte cultures in vitro. When challenged with carotid artery ligation,
Mfap4

−/−

mice exhibited delayed neointimal formation, accompanied by early reduction in the number of proliferating medial and neointimal cells, as well as infiltrating leukocytes. Delayed neointimal formation was associated with decreased cross-sectional area of ligated
Mfap4

−/−

carotid arteries resulting in lumen narrowing 28 days after ligation. MFAP4 blockade prohibited the formation of neointimal hyperplasia ex vivo. Moreover, we demonstrated that MFAP4 is a ligand for integrin α
V
β
3
and mediates VSMC phosphorylation of focal adhesion kinase, migration, and proliferation in vitro. MFAP4-dependent VSMC activation was reversible by treatment with MFAP4-blocking antibodies and inhibitors of focal adhesion kinase and downstream kinases. In addition, we showed that MFAP4 promotes monocyte chemotaxis in integrin α
V
β
3
–dependent manner.

Conclusions—

MFAP4 regulates integrin α
V
β
3
–induced VSMC proliferation and migration, as well as monocyte chemotaxis, and accelerates neointimal hyperplasia after vascular injury.