julilili42/papers huggingface dataset:
Role of Pelvic and Para-aortic Lymph Node Metastases in Optimally Cytoreduced Advanced Ovarian Cancer.
2015-06-01

The goal is optimal cytoreduction in advanced ovarian cancer. More extensive pelvic and para-aortic lymphadenectomy seems to play an important role in providing accurate staging in optimally-cytoreduced advanced ovarian cancer and the node ratio might give prognostic information. Current prospective studies should investigate if these data have therapeutic implications and may be considered in future staging.
Synthesis and characterization of some new fluoroquinolone-barbiturate hybrid systems
2015-06-01

Abstract New hybrid molecules containing fluoroquinolone-barbiturate moieties were synthesized via simple routes, followed by characterization using various spectroscopic approaches. The THF solvent molecule was incorporated into compounds 2 and 3 through its oxygen atom based on its nucleophilicity. Facile displacement of the chloride ion in 4-oxoquinoline-3-carbonyl chloride by the nucleophilic methylene carbon of 1,3-dialkylbarbiturate/thiobarbiturate afforded the respective hybrids 5 and 6 .
DCTAM: Drift-corrected tracking and mapping for autonomous micro aerial vehicles
2015-06-01

Visual odometry, especially using a forward-looking camera only, can be challenging: It is doomed to fail from time to time and will inevitably drift in the long run. We accept this fact and present methods to cope with and correct the effects for an autonomous MAV using an RGBD camera as its main sensor. We propose correcting drift and failure in visual odometry by combining its pose estimates with information about efficiently detected ground planes in the short term and running a full SLAM back-end incorporating loop closures and ground plane measurements in pose graph optimization. We show that the system presented here achieves accurate results on several instances of the TUM RGB-D benchmark dataset while being computationally efficient enough to enable autonomous.
Challenges and Modifications for Creating a MoSGrid Science Gateway for US and European Infrastructures
2015-06-01

The established German MoSGrid science gateway serves the computational chemistry community in the areas of quantum chemistry, molecular dynamics and docking with intuitive user interfaces for jobs, workflows and data as well as metadata management. It is designed independent of the underlying infrastructure and developed on top of gUSE/WS-PGRADE, which is capable of connecting to diverse grid, cloud and batch infrastructures. However, quite a few of its user-friendly features and pre-configured workflows are dependent on the service-oriented grid middleware UNICORE and on installed computational chemistry tools on the target resources. Furthermore, the security mechanisms rely on SAML assertions to provide single sign-on to the different available resources. This paper gives an overview on the challenges and modifications, which have been necessary to provide an international MoSGrid science gateway exploiting XSEDE and PRACE infrastructures. This work was part of the XSEDE-PRACE interoperability project, which selected three use cases out of US- and European-wide applications.
Multi-layer Meta-metaworkflows for the Evaluation of Solvent and Dispersion Effects in Transition Metal Systems Using the MoSGrid Science Gateways
2015-06-01

Through the MoSGrid (Molecular Simulation Grid) Science Gateways, users have easy and highly efficient access to computational resources. Within the quantum chemical domain, we have developed meta-meta workflows for quantum chemical applications which contain re-usable meta workflows. Here, we present a new use case which demonstrates that the multi-layer idea can enhance the concept of meta workflows. Workflows are implemented by using the WS-PGRADE technology. This approach allows researchers to generate their jobs more easily. Moreover, every abstraction layer adds a factor of 2-3 in efficiency as a lot of manual job definition time can be saved.
PTH-097 Notch1 is a master regulator of the senescence secretome through repression of c/ebpΒ
2015-06-01

<h3>Introduction</h3> Oncogene-induced senescence (OIS) is an intrinsic tumour suppressor mechanism, but its impact on tumorigenesis is largely dependent on the nature of SASP, senescence-associated secretory phenotype. Major components of the SASP include TGFβ1 and pro-inflammatory cytokines, such as IL1A, IL6, and IL8 that have pleiotropic context-dependent effects. <h3>Method</h3> We utilised the well validated ER:Ras<sup>G12V</sup>IMR90 HDF <i>in vitro</i>model which undergo Ras-induced senescence (RIS) with 4OHT. <i>In vivo</i>hepatocyte RIS was achieved with hydrodynamic tail-vein injection of NRas<sup>G12V</sup>-containing transposons. <h3>Results</h3> Previously, we have shown that Notch1, a highly conserved receptor is up-regulated in RIS. In contrast to the up-regulation of Notch1, downstream signalling is dynamically regulated; Notch-target genes were transiently up-regulated at an early phase of RIS, but down-regulated at full senescence. The dynamic expression pattern of N1ICD and TGF-β1 expression were nearly identical, and inversely correlated with the cytokines, IL1A and IL8. Inhibition of Notch1 signalling, through expression of a dominant-negative form of the Notch1 binding partner MAML1, led to a reduction in TGF-β1, but increased IL1A and IL8 expression during RIS, suggesting Notch1 signalling plays a critical role in secretome switching. It has been shown that the SASP in RIS is regulated by two major transcription factors, NFkB and CEBPβ. Strikingly, over-expression of N1ICD strongly down-regulated CEBPβ, but not NFkB, in fully established RIS cells. Further, expression of ectopic CEBPβ in N1ICD-expressing cells partially restored levels of IL6/8. N1ICD was also able to suppress pro-inflammatory cytokine expression in TNF-α stimulated cells, through repression of CEBPβ. These data indicate that Notch1 represses pro-inflammatory cytokines by down-regulating CEBPβ. Finally, Notch1 up-regulation in OIS was confirmed in Nras-driven hepatocyte senescence; Notch1 inhibition through dnMAML1 promoted immune-mediated clearance of senescent hepatocytes. <h3>Conclusion</h3> We propose that the transition to OIS is correlated with a switch from Notch1-driven TGFβ-rich secretome to a CEBPβ-driven IL1/8 rich secretome, and that dynamic Notch1 signalling modulates senescence and its long-term fate strictly through a non-cell-autonomous fashion. <h3>Disclosure of interest</h3> None Declared.
Analysis of the Holocaust Cartoon Competition as a Global Communicative Event
2015-06-01

This paper examines the Holocaust cartoon competition as an instance of social and political controversy and concludes that freedom of speech as a conditional right incites various oppositional arguments. The paper also describes how the cartoon competition creates enemies through binary discourse—peaceful and oppressor, Palestine and Israel, Zionism and Nazism—then poses a challenge to the dominant Western understanding of freedom of speech. Using the theories of oppositional arguments (Olson &amp; Goodnight, 1994), the paper argues that the cartoon competition honours the Holocaust victims as a social/cultural norm in Jewish community and in the West, and that the contest as a rhetorical act challenges the Gayssot Act as a legal norm in several European countries. Examination of the Holocaust cartoon contest, through the theory of ‘clash of civilizations’, illuminates that the competition contributes to reproduce the notion of clash of civilizations as a belief in the incompatibility of the West and Islam. By using the theory of ‘global journalism’, the study also creates a discussion to explain how the Holocaust contest as a communicative event (based on two themes: freedom of speech and the Holocaust) relates various international issues and thereby fulfils one main functions of the global journalism concept: establishment of transnational connections.
Experimental Results Using a Low-Energy Focussed Ion Beam Column With Minimised Coulomb Interaction
2015-06-01

Journal Article Experimental Results Using a Low-Energy Focussed Ion Beam Column With Minimised Coulomb Interaction Get access Karin Marianowski, Karin Marianowski Institute of Applied Physics, University of Tübingen, Tübingen, Germany Search for other works by this author on: Oxford Academic Google Scholar Erich Plies Erich Plies Institute of Applied Physics, University of Tübingen, Tübingen, Germany Search for other works by this author on: Oxford Academic Google Scholar Microscopy and Microanalysis, Volume 21, Issue S4, 1 June 2015, Pages 100–105, https://doi.org/10.1017/S1431927615013215 Published: 28 September 2015
Excited-State Dynamics of Diindenoperylene in Liquid Solution and in Solid Films
2015-06-02

The excited-state dynamics of diindenoperylene (DIP) are investigated in dilute solution and in a solid film at room temperature using picosecond photoluminescence and femtosecond transient absorption measurements. In solution, DIP undergoes a rapid (0.89 ns) internal conversion back to its ground state, with no detectable formation of triplet or other long-lived states. In the solid state, multiple emissive species are formed. The time-resolved photoluminescence signal is dominated by an intrinsic exciton that decays on a time scale of 166 ps. Emission from lower energy excimer-like species then persists for >10 ns. Transient absorption experiments indicate that the majority of the excited-state population relaxes to the ground state on the 166 ps time scale, but a smaller fraction (<10%) survives in longer-lived trap or defect states. The rapid internal conversion leads to transient heating that results in a derivative line shape in the transient absorption signal at longer delays. DIP does not appear t...
End-to-Display Encryption
2015-06-02

Providing secure access to confidential information is extremely difficult, notably when regarding weak endpoints and users. With the increasing number of corporate espionage cases and data leaks, a usable approach enhancing the security of data on endpoints is needed. In this paper we present our implementation for providing a new level of security for confidential documents that are viewed on a display. We call this End-to-Display Encryption (E2DE). E2DE encrypts images in the pixel-domain before transmitting them to the user. These images can then be displayed by arbitrary image viewers and are sent to the display. On the way to the display, the data stream is analyzed and the encrypted pixels are decrypted depending on a private key stored on a chip card inserted in the receiver, creating a viewable representation of the confidential data on the display, without decrypting the information on the computer itself. We implemented a prototype on a Digilent Atlys FPGA Board supporting resolutions up to Full HD.
Immune aging, dysmetabolism, and inflammation in neurological diseases
2015-06-03

As we age, the immune system undergoes a process of senescence accompanied by the increased production of proinflammatory cytokines, a chronic subclinical condition named as "inflammaging". Emerging evidence from human and experimental models suggest that immune senescence also affects the central nervous system and promotes neuronal dysfunction, especially within susceptible neuronal populations. In this review we discuss the potential role of immune aging, inflammation and metabolic derangement in neurological diseases. The discovery of novel therapeutic strategies targeting age-linked inflammation may promote healthy brain aging and the treatment of neurodegenerative as well as neuropsychiatric disorders.
Quality of life, physical and mental status and contentment of patients with localized soft tissue or bone sarcoma: a questionnaire analysis
2015-06-03

Extremity soft tissue and bone sarcomas represent a rare group of bone and connective tissue cancers. In literature, there is little information about psycho-emotional status and impact on quality of life after the diagnosis and treatment of this kind of tumors. The aim of this survey was to define the profile of the patients at risk and their need for psychooncological care. Our self-created questionnaire consists of 71 items related to the individual emotional, mental and physical situation after the diagnosis of soft tissue and bone sarcoma. Sixty-six patients, surgically treated at our department, were included. Only 37.5% of the patients considered themselves to be completely emotional stable. Psychooncological treatment was accepted mostly by female patients, by patients with higher education level and by married patients. Emotional stability and confidence in future were associated with a strong familiar background, with numerous consultations of psychooncological service and also to gender and physical condition. Current quality of life was strongly correlated to physical condition. Thanks to our questionnaire, we disclosed few risk factors for negative emotional outcome after therapy, such as higher age, social isolation, female gender and poor physical status.
Properties and observability of glitches and anti-glitches in accreting pulsars
2015-06-03

\\n Several glitches have been observed in young, isolated radio pulsars, while a clear detection in accretion-powered X-ray pulsars is still lacking. We use the Pizzochero snowplow model for pulsar glitches as well as starquake models to determine for the first time the expected properties of glitches in accreting pulsars and their observability. Since some accreting pulsars show accretion-induced long-term spin-up, we also investigate the possibility that anti-glitches occur in these stars. We find that glitches caused by quakes in a slow accreting neutron star are very rare and their detection extremely unlikely. On the contrary, glitches and anti-glitches caused by a transfer of angular momentum between the superfluid neutron vortices and the non-superfluid component may take place in accreting pulsars more often. We calculate the maximum jump in angular velocity of an anti-glitch and we find that it is expected to be ΔΩa − gl ≈ 10-5 − 10-4 rad s-1. We also note that since accreting pulsars usually have rotational angular velocities lower than those of isolated glitching pulsars, both glitches and anti-glitches are expected to have long rise and recovery timescales compared to isolated glitching pulsars, with glitches and anti-glitches appearing as a simple step in angular velocity. Among accreting pulsars, we find that GX 1+4 is the best candidate for the detection of glitches with currently operating X-ray instruments and future missions such as the proposed Large Observatory for X-ray Timing (LOFT).\\n
Frontispiece: Distinct Spacing Between Anionic Groups: An Essential Chemical Determinant for Achieving Thiophene‐Based Ligands to Distinguish β‐Amyloid or Tau Polymorphic Aggregates
2015-06-03

Assigning Protein Aggregate Morphotypes The accumulation of protein aggregates is associated with many devastating neurodegenerative diseases and the existence of distinct aggregated morphotypes has been suggested to explain the heterogeneous phenotype reported for these diseases. In their Full Paper on page 9072 ff., K. P. R. Nilsson et al. report an anionic tetrameric oligothiophene that can be utilized for spectral assignment of different morphotypes of β-amyloid or tau aggregates present in transgenic mice at distinct ages.
Host–Pathogen Coevolution: The Selective Advantage of Bacillus thuringiensis Virulence and Its Cry Toxin Genes
2015-06-04

Reciprocal coevolution between host and pathogen is widely seen as a major driver of evolution and biological innovation. Yet, to date, the underlying genetic mechanisms and associated trait functions that are unique to rapid coevolutionary change are generally unknown. We here combined experimental evolution of the bacterial biocontrol agent Bacillus thuringiensis and its nematode host Caenorhabditis elegans with large-scale phenotyping, whole genome analysis, and functional genetics to demonstrate the selective benefit of pathogen virulence and the underlying toxin genes during the adaptation process. We show that: (i) high virulence was specifically favoured during pathogen-host coevolution rather than pathogen one-sided adaptation to a nonchanging host or to an environment without host; (ii) the pathogen genotype BT-679 with known nematocidal toxin genes and high virulence specifically swept to fixation in all of the independent replicate populations under coevolution but only some under one-sided adaptation; (iii) high virulence in the BT-679-dominated populations correlated with elevated copy numbers of the plasmid containing the nematocidal toxin genes; (iv) loss of virulence in a toxin-plasmid lacking BT-679 isolate was reconstituted by genetic reintroduction or external addition of the toxins. We conclude that sustained coevolution is distinct from unidirectional selection in shaping the pathogen's genome and life history characteristics. To our knowledge, this study is the first to characterize the pathogen genes involved in coevolutionary adaptation in an animal host-pathogen interaction system.
Trypanothione Reductase: A Target Protein for a Combined In Vitro and In Silico Screening Approach
2015-06-04

With the goal to identify novel trypanothione reductase (TR) inhibitors, we performed a combination of in vitro and in silico screening approaches. Starting from a highly diverse compound set of 2,816 compounds, 21 novel TR inhibiting compounds could be identified in the initial in vitro screening campaign against T. cruzi TR. All 21 in vitro hits were used in a subsequent similarity search-based in silico screening on a database containing 200,000 physically available compounds. The similarity search resulted in a data set containing 1,204 potential TR inhibitors, which was subjected to a second in vitro screening campaign leading to 61 additional active compounds. This corresponds to an approximately 10-fold enrichment compared to the initial pure in vitro screening. In total, 82 novel TR inhibitors with activities down to the nM range could be identified proving the validity of our combined in vitro/in silico approach. Moreover, the four most active compounds, showing IC50 values of <1 μM, were selected for determining the inhibitor constant. In first on parasites assays, three compounds inhibited the proliferation of bloodstream T. brucei cell line 449 with EC50 values down to 2 μM.
Ca2+-Activated IK K+ Channel Blockade Radiosensitizes Glioblastoma Cells
2015-06-04

Abstract Ca2+-activated K+ channels, such as BK and IK channels, have been proposed to fulfill pivotal functions in neoplastic transformation, malignant progression, and brain infiltration of glioblastoma cells. Here, the ionizing radiation (IR) effect of IK K+ channel targeting was tested in human glioblastoma cells. IK channels were inhibited pharmacologically by TRAM-34 or genetically by knockdown, cells were irradiated with 6 MV photons and IK channel activity, Ca2+ signaling, cell cycling, residual double-strand breaks, and clonogenic survival were determined. In addition, the radiosensitizing effect of TRAM-34 was analyzed in vivo in ectopic tumors. Moreover, The Cancer Genome Atlas (TCGA) was queried to expose the dependence of IK mRNA abundance on overall survival (OS) of patients with glioma. Results indicate that radiation increased the activity of IK channels, modified Ca2+ signaling, and induced a G2–M cell-cycle arrest. TRAM-34 decreased the IR-induced accumulation in G2–M arrest and increased the number of γH2AX foci post-IR, suggesting that TRAM-34 mediated an increase of residual DNA double-strand breaks. Mechanistically, IK knockdown abolished the TRAM-34 effects indicating the IK specificity of TRAM-34. Finally, TRAM-34 radiosensitized ectopic glioblastoma in vivo and high IK mRNA abundance associated with shorter patient OS in low-grade glioma and glioblastoma. Implications: Together, these data support a cell-cycle regulatory function for IK K+ channels, and combined therapy using IK channel targeting and radiation is a new strategy for anti-glioblastoma therapy. Mol Cancer Res; 13(9); 1283–95. ©2015 AACR.
Development of a tomato plant resistant to Clavibacter michiganensis using the endolysin gene of bacteriophage CMP1 as a transgene
2015-06-04

The bacteriophage CMP1 endolysin gene ( lys ), encoding, a peptidase that was shown to effectively reduce Clavibacter michiganensis by specifically hydrolysing its murein, was transferred into tomato plants by Agrobacterium ‐mediated transformation. The presence of the gene was verified by PCR and the gene product was confirmed in immunoblots and stably expressed over three generations. Transgenic tomato plants did not show disease symptoms after infection with C. michiganensis subsp. michiganensis , despite the fact that small amounts of bacteria could still be identified in xylem sap and leaf extracts, although in significantly reduced amounts.
Assessing the need for psychooncological support: screening instruments in combination with patients' subjective evaluation may define psychooncological pathways
2015-06-04

Abstract Background Cancer patients suffer from severe distress. About one third show mental comorbidities. Nevertheless, there is no common agreement on how to measure distress or identify patients in need for psychooncological services using screening questionnaires. Patients and methods A sample of N = 206 patients with confirmed breast cancer, being inpatient for surgical treatment, filled in distress assessment instruments: Distress Thermometer, Hospital Anxiety and Depression Scale, Patient Health Questionnaire 2, Hornheider Screening Instrument and parts of the EORTC‐QLQ‐C30. Additionally, they were asked for their subjective need for psychooncological counselling. Results The correlation between the assessment instruments is low to medium. The number of patients above the cut‐off criteria varies quite a lot according to the instrument (10% to 66%). Therefore, the congruence between the instruments' indications is quite low. Patients with and without subjective need do not differ in personal data but in distress scores. Conclusions Recommended instruments for distress assessment in psychooncology measure different areas of distress. They do not sufficiently agree in indicating a patient's need for psychooncological treatment. Hence, one should neither compare results of studies using different assessment instruments nor implement a screening without reflecting the used instrument's characteristics compared to the others. The subjective need seems to provide additional information to the assessment. At present, the combination of an assessment instrument and patients' subjective need is seen as a best practice for identifying patients in need of psychooncological treatment. Copyright © 2015 John Wiley &amp; Sons, Ltd.
Iohexol plasma clearance measurement in older adults with chronic kidney disease—sampling time matters
2015-06-04

In elderly CKD patients, measurement of iohexol clearance up to 5 h leads to a clinically relevant overestimation of GFR compared with 24-h measurement. In clinical care, this effect should be bore in mind especially for patients with considerably reduced GFR levels. A new correction formula has been developed to predict mGFR1440 from mGFR300. For accurate GFR estimates in elderly CKD patients, we recommend the Revised Lund Malmö equation.
Patient Comfort During Positron Emission Tomography/Magnetic Resonance and Positron Emission Tomography/Computed Tomography Examinations
2015-06-04

Patient comfort should drive the design and development of optimized scanner types, workflow processes, and scan protocols. For PET/MR, the most important aim should be to shorten the scan time. However, patient-centered management may be the best instrument to improve patient compliance.