bluuebunny/crossref_metadata_2025_split huggingface dataset:
Electrical brain stimulation induces dendritic stripping but improves survival of silent neurons after optic nerve damage
Authors: Henrich-Noack Petra , Sergeeva Elena G. , Eber Torben , You Qing , Voigt Nadine , Köhler Jürgen , Wagner Sebastian , Lazik Stefanie , Mawrin Christian , Xu Guihua , Biswas Sayantan , Sabel Bernhard A. , Leung Christopher Kai-Shun 
Published: March 2017

AbstractRepetitive transorbital alternating current stimulation (rtACS) improves vision in patients with chronic visual impairments and an acute treatment increased survival of retinal neurons after optic nerve crush (ONC) in rodent models of visual system injury. However, despite this protection no functional recovery could be detected in rats, which was interpreted as evidence of “silent survivor” cells. We now analysed the mechanisms underlying this “silent survival” effect. Usingin vivomicroscopy of the retina we investigated the survival and morphology of fluorescent neurons before and after ONC in animals receiving rtACS or sham treatment. One week after the crush, more neurons survived in the rtACS-treated group compared to sham-treated controls.In vivoimaging further revealed that in the initial post-ONC period, rtACS induced dendritic pruning in surviving neurons. In contrast, dendrites in untreated retinae degenerated slowly after the axonal trauma and neurons died. The complete loss of visual evoked potentials supports the hypothesis that cell signalling is abolished in the surviving neurons. Despite this evidence of “silencing”, intracellular free calcium imaging showed that the cells were still viable. We propose that early after trauma, complete dendritic stripping following rtACS protects neurons from excitotoxic cell death by silencing them.
Improving the Efficiency and Effectiveness of Community Detection via Prior-Induced Equivalent Super-Network
Authors: Yang Liang , Jin Di , He Dongxiao , Fu Huazhu , Cao Xiaochun , Fogelman-Soulie Francoise 
Published: March 2017

AbstractDue to the importance of community structure in understanding network and a surge of interest aroused on community detectability, how to improve the community identification performance with pairwise prior information becomes a hot topic. However, most existing semi-supervised community detection algorithms only focus on improving the accuracy but ignore the impacts of priors on speeding detection. Besides, they always require to tune additional parameters and cannot guarantee pairwise constraints. To address these drawbacks, we propose a general, high-speed, effective and parameter-free semi-supervised community detection framework. By constructing the indivisible super-nodes according to the connected subgraph of the must-link constraints and by forming the weighted super-edge based on network topology and cannot-link constraints, our new framework transforms the original network into an equivalent but much smaller Super-Network. Super-Network perfectly ensures the must-link constraints and effectively encodes cannot-link constraints. Furthermore, the time complexity of super-network construction process is linear in the original network size, which makes it efficient. Meanwhile, since the constructed super-network is much smaller than the original one, any existing community detection algorithm is much faster when using our framework. Besides, the overall process will not introduce any additional parameters, making it more practical.
Ultra-High Mass Resolution MALDI Imaging Mass Spectrometry of Proteins and Metabolites in a Mouse Model of Glioblastoma
Authors: Dilillo M. , Ait-Belkacem R. , Esteve C. , Pellegrini D. , Nicolardi S. , Costa M. , Vannini E. , Graaf E. L. de , Caleo M. , McDonnell L. A. 
Published: March 2017

AbstractMALDI mass spectrometry imaging is able to simultaneously determine the spatial distribution of hundreds of molecules directly from tissue sections, without labeling and without prior knowledge. Ultra-high mass resolution measurements based on Fourier-transform mass spectrometry have been utilized to resolve isobaric lipids, metabolites and tryptic peptides. Here we demonstrate the potential of 15T MALDI-FTICR MSI for molecular pathology in a mouse model of high-grade glioma. The high mass accuracy and resolving power of high field FTICR MSI enabled tumor specific proteoforms, and tumor-specific proteins with overlapping and isobaric isotopic distributions to be clearly resolved. The protein ions detected by MALDI MSI were assigned to proteins identified by region-specific microproteomics (0.8 mm2 regions isolated using laser capture microdissection) on the basis of exact mass and isotopic distribution. These label free quantitative experiments also confirmed the protein expression changes observed by MALDI MSI and revealed changes in key metabolic proteins, which were supported by in-situ metabolite MALDI MSI.
Preventing microbial biofilms on catheter tubes using ultrasonic guided waves
Authors: Wang Huanlei , Teng Fengmeng , Yang Xin , Guo Xiasheng , Tu Juan , Zhang Chunbing , Zhang Dong 
Published: March 2017

AbstractBiofilms on indwelling tubes and medical prosthetic devices are among the leading causes of antibiotic-resistant bacterial infections. In this work, a new anti-biofilm catheter prototype was proposed. By combining an endotracheal tube (ET) with a group of ultrasonic guided wave (UGW) transducers, the general idea was to prevent bacteria aggregation with UGW vibrations. Based on quantitative analysis of UGW propagation, detailed approach was achieved through (a) selection of ultrasonic frequency, wave modes and vibration amplitude; and (b) adoption of wave coupling and 45° wave incidence technique. Performance of the proposed UGW-ET prototype was demonstrated viain vitroexperiments, during which it deterred deposition ofPseudomonas aeruginosa(P. aeruginosa) biofilms successfully. With current configuration, UGW amplitudes ranged from 0.05–5 nm could be optimal to achieve biofilm prevention. This work sheds a light in the underlying mechanism of ultrasound-mediated biofilm prevention, and will inspire the development of new catheters of better antibacterial capability.
RETRACTED ARTICLE: Birinapant sensitizes platinum-resistant carcinomas with high levels of cIAP to carboplatin therapy
Authors: La V. , Fujikawa R. , Janzen D. M. , Nunez M. , Bainvoll L. , Hwang L. , Faull K. , Lawson G. , Memarzadeh S. 
Published: March 2017

AbstractPlatinum drugs are the frontline therapy in many carcinomas, including high-grade serous ovarian cancers. Clinically, high-grade serous carcinomas have an apparent complete response to carboplatin, but tumors invariably recur and response to platinum drugs diminishes over time. Standard of care prohibits re-administration of platinum drugs to these patients who are labeled as having platinum-resistant disease. In this stage patients are treated with non-platinum agents and outcomes are often poor. In vivo and in vitro data presented here demonstrate that this clinical dogma should be challenged. Platinum drugs can be an effective therapy even for platinum-resistant carcinomas as long as they are combined with an agent that specifically targets mechanisms of platinum resistance exploited by the therapy-resistant tumor subpopulations. High levels of cellular inhibitor of apoptosis proteins cIAP1 and 2 (cIAP) were detected in up to 50% of high-grade serous and non-high-grade serous platinum-resistant carcinomas. cIAP proteins can induce platinum resistance and they are effectively degraded with the drug birinapant. In platinum-resistant tumors with ≥22.4 ng of cIAP per 20 µg of tumor lysate, the combination of birinapant with carboplatin was effective in eliminating the cancer. Our findings provide a new personalized therapeutic option for patients with platinum-resistant carcinomas. The efficacy of birinapant in combination with carboplatin should be tested in high-grade serous carcinoma patients in a clinical trial.
Range contraction enables harvesting to extinction
Authors: Burgess Matthew G. , Costello Christopher , Fredston-Hermann Alexa , Pinsky Malin L. , Gaines Steven D. , Tilman David , Polasky Stephen 
Published: March 2017

Significance
Many threatened species including elephants, sturgeons, and bluefin tunas are harvested for high-value products. Species can be driven extinct if incentives to harvest do not diminish as populations decline; this occurs if harvest prices rise faster than costs with declining stock. Whereas recent conservation attention for these species has largely focused on market demand, we show—using a theoretical model and an empirical review—that contractions in species’ geographic ranges, which stabilize costs and may be especially common among terrestrial species, might often play a larger role in maintaining harvest incentives. Forces impacting ranges—such as patchy and declining habitats, schooling/herding behavior, and climate change—therefore merit greater attention in assessing overharvesting threats.
Extremely low-frequency electromagnetic field promotes astrocytic differentiation of human bone marrow mesenchymal stem cells by modulating SIRT1 expression
Authors: Jeong Won-Yong , Kim Jun-Beom , Kim Hyun-Jung , Kim Chan-Wha 
Published: March 2017

Abstract
It has been shown that extremely low-frequency electromagnetic fields (ELFMF) affect regulation of cell fate and differentiation. Thus, the aim of this study was to investigate the role of ELFMFs in the enhancement of astrocytic differentiation. ELFMF exposure reduced the rate of proliferation and enhanced astrocytic differentiation. The ELFMF-treated cells showed increased levels of the astrocyte marker (GFAP), while those of the early neuronal marker (Nestin) and stemness marker (OCT3/4) were downregulated. The reactive oxygen species (ROS) level was observed to be significantly elevated after ELFMF exposure, which strengthens the modulatory role of SIRT1 and SIRT1 downstream molecules (TLE1, HES1, and MASH1) during astrocytic differentiation. After nicotinamide (5 mM) mediated inhibition of SIRT1, levels of TLE1, HES1, and MASH1 were examined; TLE1 was significantly upregulated and MASH1 was downregulated. These results suggest that ELFMFs induce astrocytic differentiation through activation of SIRT1 and SIRT1 downstream molecules.
Mackinac: a bridge between ModelSEED and COBRApy to generate and analyze genome-scale metabolic models
Authors: Mundy Michael , Mendes-Soares Helena , Chia Nicholas 
Published: March 2017

Abstract

Summary
Reconstructing and analyzing a large number of genome-scale metabolic models is a fundamental part of the integrated study of microbial communities; however, two of the most widely used frameworks for building and analyzing models use different metabolic network representations. Here we describe Mackinac, a Python package that combines ModelSEED’s ability to automatically reconstruct metabolic models with COBRApy’s advanced analysis capabilities to bridge the differences between the two frameworks and facilitate the study of the metabolic potential of microorganisms.

Availability and Implementation
This package works with Python 2.7, 3.4, and 3.5 on MacOS, Linux and Windows. The source code is available from https://github.com/mmundy42/mackinac.
The Tomato Expression Atlas
Authors: Fernandez-Pozo Noe , Zheng Yi , Snyder Stephen I , Nicolas Philippe , Shinozaki Yoshihito , Fei Zhangjun , Catala Carmen , Giovannoni James J , Rose Jocelyn K.C , Mueller Lukas A 
Published: March 2017

Abstract

Summary
With the development of new high-throughput DNA sequencing technologies and decreasing costs, large gene expression datasets are being generated at an accelerating rate, but can be complex to visualize. New, more interactive and intuitive tools are needed to visualize the spatiotemporal context of expression data and help elucidate gene function. Using tomato fruit as a model, we have developed the Tomato Expression Atlas to facilitate effective data analysis, allowing the simultaneous visualization of groups of genes at a cell/tissue level of resolution within an organ, enhancing hypothesis development and testing in addition to candidate gene identification. This atlas can be adapted to different types of expression data from diverse multicellular species.

Availability and Implementation
The Tomato Expression Atlas is available at http://tea.solgenomics.net/. Source code is available at https://github.com/solgenomics/Tea.

Supplementary information
Supplementary data are available at Bioinformatics online.
Seeing is Believing? Preoperative Magnetic Resonance Imaging for Pressure Ulcers: Implications for Surgical Management
Authors: McCarthy James , Hartmann Emily , Bentz Michael L. , Rao Venkat K. , Jee Young , Rivedal David , Poore Samuel O. 
Published: March 2017

Background:
Pressure ulcers represent a particularly difficult disease process and remain a financially important entity. The underlying bone in advanced ulcers may harbor osteomyelitis. Radiologic diagnosis of osteomyelitis is confounded by chronic pressure and shear. We sought to determine the test characteristics of preoperative magnetic resonance imaging (MRI) in the diagnosis of osteomyelitis compared to intraoperative bone culture.

Methods:
A retrospective review of patients undergoing flap reconstruction who had preoperative MRI and intraoperative bone cultures between 1995 and 2015 was included. Recorded variables included age, sex, level of spinal cord injury and duration, preoperative MRI interpretation, microbiologic bone culture, smoking history, comorbidities, colostomy or urostomy, healing time, complications, length of stay, and discharge facility.

Results:
A total of 152 patients (175 flaps) were reconstructed, of which 41 patients (73 flaps) met inclusion criteria. Most patients were male (82.2%) with an average age of 50.4 years. Overall complication rate was 32.4% (n = 23) of which 34.7% (n = 8) were major. Positive and negative predictive MRI values were 84.6% and 16.7%, respectively. There were no significant differences in healing time or complication rate in those with or without osteomyelitis. Intraoperative growth was associated with decreased postoperative complications (hazard ratio = 0.361; P = 0.037).

Conclusion:
Test properties of MRI for diagnosis of osteomyelitis in patients with chronic pressure ulcers have limited ability to diagnose osteomyelitis and do not aid in surgical management, but do increase health-care expense. The diagnosis of osteomyelitis by intraoperative bone cultures does not predict inferior outcomes and paradoxically may be associated with fewer postoperative complications.
Identifying a Relationship Between Physical Frailty and Heart Failure Symptoms
Authors: Denfeld Quin E. , Winters-Stone Kerri , Mudd James O. , Hiatt Shirin O. , Lee Christopher S. 
Published: March 2017

Background:
Heart failure (HF) is a complex clinical syndrome associated with significant symptom burden; however, our understanding of the relationship between symptoms and physical frailty in HF is limited.

Objective:
The aim of this study was to quantify associations between symptoms and physical frailty in adults with HF.

Methods:
A sample of adults with symptomatic HF were enrolled in a cross-sectional study. Physical symptoms were measured with the HF Somatic Perception Scale–Dyspnea subscale, the Epworth Sleepiness Scale, and the Brief Pain Inventory short form. Affective symptoms were measured with the Patient Health Questionnaire-9 and the Brief Symptom Inventory–Anxiety scale. Physical frailty was assessed according to the Frailty Phenotype Criteria: shrinking, weakness, slowness, physical exhaustion, and low physical activity. Comparative statistics and generalized linear modeling were used to quantify associations between symptoms and physical frailty, controlling for Seattle HF Model projected 1-year survival.

Results:
The mean age of the sample (n = 49) was 57.4 ± 9.7 years, 67% were male, 92% had New York Heart Association class III/IV HF, and 67% had nonischemic HF. Physically frail participants had more than twice the level of dyspnea (P < .001), 75% worse wake disturbances (P < .001), and 76% worse depressive symptoms (P = .003) compared with those who were not physically frail. There were no differences in pain or anxiety.

Conclusions:
Physically frail adults with HF have considerably worse dyspnea, wake disturbances, and depression. Targeting physical frailty may help identify and improve physical and affective symptoms in HF.
Understanding the Health Burden of Macromastia: Normative Data for the BREAST-Q Reduction Module
Authors: Mundy Lily R. , Homa Karen , Klassen Anne F. , Pusic Andrea L. , Kerrigan Carolyn L. 
Published: March 2017

Background:
The BREAST-Q Reduction module evaluates outcomes in reduction mammaplasty. However, there are currently no published normative scores, limiting the interpretation of BREAST-Q data.

Methods:
The BREAST-Q Reduction module was administered via the Army of Women, an online community of women (with and without breast cancer) engaged in breast-cancer related research. Normative data were generated from women aged 18 years and older, without a history of breast cancer or breast surgery. Data analysis was performed using descriptive statistics and a linear multivariate regression. Generated normative data were compared to published BREAST-Q Reduction findings.

Results:
The preoperative version of the BREAST-Q Reduction module was completed by 1206 women. Participant mean age was 55 ± 13 years, mean body mass index was 27 ± 6 kg/m2, and 40 percent (n = 481) had a bra cup size ≥ D. Mean normative scores were as follows: Satisfaction with Breasts, 57 ± 16; Psychosocial Well-being, 68 ± 19; Sexual Well-being, 55 ± 19; and Physical Well-being, 76 ± 11. Normative scores were lower in women with body mass index ≥ 30 and bra cup size ≥ D. In comparison to normative Army of Women scores, published BREAST-Q scores for women undergoing reduction mammaplasty were lower (worse) for preoperative patients and higher (better) for postoperative patients.

Conclusion:
These new Army of Women normative data provide insights into breast-related satisfaction and well-being in women not pursuing breast reduction, giving new clinical context to better understand the health burden of macromastia, and to demonstrate the value of reduction mammaplasty in certain patients.
Normative Data for Interpreting the BREAST-Q: Augmentation
Authors: Mundy Lily R. , Homa Karen , Klassen Anne F. , Pusic Andrea L. , Kerrigan Carolyn L. 
Published: March 2017

Background:
The BREAST-Q is a rigorously developed, well-validated, patient-reported outcome instrument with a module designed for evaluating breast augmentation outcomes. However, there are no published normative BREAST-Q scores, limiting interpretation.

Methods:
Normative data were generated for the BREAST-Q Augmentation module by means of the Army of Women, an online community of women (with and without breast cancer) engaged in breast-cancer related research. Members were recruited by means of e-mail; women aged 18 years or older without a history of breast cancer or breast surgery were invited to participate. Descriptive statistics and a linear multivariate regression were performed. A separate analysis compared normative scores to findings from previously published BREAST-Q augmentation studies.

Results:
The preoperative BREAST-Q Augmentation module was completed by 1211 women. Mean age was 54 ± 24 years, the mean body mass index was 27 ± 6 kg/m2, and 39 percent (n = 467) had a bra cup size of D or greater. Mean scores were as follows: Satisfaction with Breasts, 54 ± 19; Psychosocial Well-being, 66 ± 20; Sexual Well-being, 49 ± 20; and Physical Well-being, 86 ± 15. Women with a body mass index of 30 kg/m2 or greater and bra cup size of D or greater had lower scores. In comparison with Army of Women scores, published BREAST-Q augmentation scores were lower before and higher after surgery for all scales except Physical Well-being.

Conclusions:
The Army of Women normative data represent breast-related satisfaction and well-being in women not actively seeking breast augmentation. These data may be used as normative comparison values for those seeking and undergoing surgery as we did, demonstrating the value of breast augmentation in this patient population.
Long-Term Comparison between Human Normal Conchal and Microtia Chondrocytes Regenerated by Tissue Engineering on Nanofiber Polyglycolic Acid Scaffolds
Authors: Nakao Hitomi , Jacquet Robin D. , Shasti Mark , Isogai Noritaka , Murthy Ananth S. , Landis William J. 
Published: March 2017

Background:
Previous regeneration studies of auricle-shaped cartilage by tissue engineering leave unresolved whether the chondrocyte phenotype from human auricular chondrocytes seeded onto polymeric scaffolds is retained over the long term and whether microtia remnants may be a viable cell source for auricular reconstruction.

Methods:
Chondrocytes were isolated from human ears, either normal conchal ear or microtia cartilage remnants, expanded in vitro, and seeded onto nanoscale-diameter polyglycolic acid sheets. These tissue-engineered constructs were implanted into athymic mice for up to 40 weeks. At harvest times of 5, 10, 20, and 40 weeks, samples were documented by gross morphology, histology, and reverse transcription-quantitative polymerase chain reaction analysis.

Results:
Neocartilages generated from the two types of surgical tissues were similar in appearance of their extracellular matrices and positive staining for elastin and proteoglycans. In the 5- to 40-week time interval, there was an increasing trend in gene expression for type II collagen, elastin, and sex determining region Y box 5, important to normal cartilage phenotype, and a decreasing trend in gene expression for type III collagen, a fibroblast and dedifferentiation marker. Over 40 weeks of implantation, the original nanoscale-diameter polyglycolic acid scaffold dimensions (1 cm × 1 cm × 80 µm) were generally maintained in tissue-engineered cartilage length and width, and thickness was statistically significantly increased.

Conclusions:
Auricular cartilage can be regenerated over the long term (40 weeks) from surgical remnants by tissue-engineering techniques incorporating nanoscale-diameter polyglycolic acid scaffolds. Based on the present assays, microtia neocartilage very closely resembles tissue-engineered cartilage regenerated from chondrocytes isolated from normal conchal cartilage.
Neck Rejuvenation through the Lateral Platysma Window: A Key Component of Face-Lift Surgery
Authors: Pezeshk Ronnie A. , Sieber David A. , Rohrich Rod J. 
Published: March 2017

Summary:
Rejuvenating an aged face relies on maintaining facial harmony to provide optimal aesthetic results. Restoration of more youthful facial contours is dependent on blending the aesthetic facial topographic units. Many authors continue to debate the best approach for neck rejuvenation through a medial approach, a lateral approach, or a combination of the two. The authors present their approach to neck rejuvenation through medial platysma plication, inferior release, and lateral platysma window.