27 research outputs found

    Quantum ESPRESSO: a modular and open-source software project for quantum simulations of materials

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    Quantum ESPRESSO is an integrated suite of computer codes for electronic-structure calculations and materials modeling, based on density-functional theory, plane waves, and pseudopotentials (norm-conserving, ultrasoft, and projector-augmented wave). Quantum ESPRESSO stands for "opEn Source Package for Research in Electronic Structure, Simulation, and Optimization". It is freely available to researchers around the world under the terms of the GNU General Public License. Quantum ESPRESSO builds upon newly-restructured electronic-structure codes that have been developed and tested by some of the original authors of novel electronic-structure algorithms and applied in the last twenty years by some of the leading materials modeling groups worldwide. Innovation and efficiency are still its main focus, with special attention paid to massively-parallel architectures, and a great effort being devoted to user friendliness. Quantum ESPRESSO is evolving towards a distribution of independent and inter-operable codes in the spirit of an open-source project, where researchers active in the field of electronic-structure calculations are encouraged to participate in the project by contributing their own codes or by implementing their own ideas into existing codes.Comment: 36 pages, 5 figures, resubmitted to J.Phys.: Condens. Matte

    Survival of metastatic melanoma patients after dendritic cell vaccination correlates with expression of leukocyte phosphatidylethanolamine-binding protein 1 / Raf Kinase inhibitory protein

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    Item does not contain fulltextImmunotherapy for metastatic melanoma offers great promise but, to date, only a subset of patients have responded. There is an urgent need to identify ways of allocating patients to the most beneficial therapy, to increase survival and decrease therapy-associated morbidity and costs. Blood-based biomarkers are of particular interest because of their straightforward implementation in routine clinical care. We sought to identify markers for dendritic cell (DC) vaccine-based immunotherapy against metastatic melanoma through gene expression analysis of peripheral blood mononuclear cells. A large-scale microarray analysis of 74 samples from two treatment centers, taken directly after the first round of DC vaccination, was performed. We found that phosphatidylethanolamine binding protein 1 (PEBP1)/Raf Kinase inhibitory protein (RKIP) expression can be used to identify a significant proportion of patients who performed poorly after DC vaccination. This result was validated by q-PCR analysis on blood samples from a second cohort of 95 patients treated with DC vaccination in four different centers. We conclude that low PEBP1 expression correlates with poor overall survival after DC vaccination. Intriguingly, this was only the case for expression of PEBP1 after, but not prior to, DC vaccination. Moreover, the change in PEBP1 expression upon vaccination correlated well with survival. Further analyses revealed that PEBP1 expression positively correlated with genes involved in T cell responses but inversely correlated with genes associated with myeloid cells and aberrant inflammation including STAT3, NOTCH1, and MAPK1. Concordantly, PEBP1 inversely correlated with the myeloid/lymphoid-ratio and was suppressed in patients suffering from chronic inflammatory disease

    Outcomes After Distal Pancreatectomy with Celiac Axis Resection for Pancreatic Cancer: A Pan-European Retrospective Cohort Study

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    BACKGROUND: Western multicenter studies on distal pancreatectomy with celiac axis resection (DP-CAR), also known as the Appleby procedure, for locally advanced pancreatic cancer are lacking. We aimed to study overall survival, morbidity, mortality and the impact of preoperative hepatic artery embolization (PHAE). METHODS: Retrospective cohort study within the European-African Hepato-Pancreato-Biliary-Association, on DP-CAR between 1-1-2000 and 6-1-2016. Primary endpoint was overall survival. Secondary endpoints were radicality (R0-resection), 90-day mortality, major morbidity, and pancreatic fistulae (grade B/C). RESULTS: We included 68 patients from 20 hospitals in 12 countries. Postoperatively, 53% of patients had R0-resection, 25% major morbidity, 21% an ISGPS grade B/C pancreatic fistula, and 16% mortality. In total, 82% received (neo-)adjuvant chemotherapy and median overall survival in 62 patients with pancreatic ductal adenocarcinoma patients was 18 months (CI 10-37). We observed no impact of PHAE on ischemic complications. CONCLUSIONS: DP-CAR combined with chemotherapy for locally advanced pancreatic cancer is associated with acceptable overall survival. The 90-day mortality is too high and should be reduced. Future studies should investigate to what extent increasing surgical volume or better patient selection can improve outcomes

    Search for electroweak production of charginos in final states with two tau leptons in pp collisions at root s=8 TeV

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    Results are presented from a search for the electroweak production of supersymmetric particles in pp collisions in final states with two T leptons. The data sample corresponds to an integrated luminosity between 18.1 fb(-1) and 19.6 fb(-1) depending on the final state of T lepton decays, at root s = 8 TeV, collected by the CMS experiment at the LHC. The observed event yields in the signal regions are consistent with the expected standard model backgrounds. The results are interpreted using simplified models describing the pair production and decays of charginos or T sleptons. For models describing the pair production of the lightest chargino, exclusion regions are obtained in the plane of chargino mass vs. neutralino mass under the following assumptions: the chargino decays into third-generation sleptons, which are taken to be the lightest sleptons, and the sleptons masses lie midway between those of the chargino and the neutralino. Chargino masses below 420 GeV are excluded at a 95% confidence level in the limit of a massless neutralino, and for neutralino masses up to 100 GeV, chargino masses up to 325 GeV are excluded at 95% confidence level. Constraints are also placed on the cross section for pair production of T sleptons as a function of mass, assuming a massless neutralino.Peer reviewe

    Nonlinear processing in LGN neurons

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    According to a widely held view, neurons in lateral geniculate nucleus (LGN) operate on visual stimuli in a linear fashion. There is ample evidence, however, that LGN responses are not entirely linear. To account for nonlinearities we propose a model that synthesizes more than 30 years of research in the field. Model neurons have a linear receptive field, and a nonlinear, divisive suppressive field. The suppressive field computes local root-meansquare contrast. To test this model we recorded responses from LGN of anesthetized paralyzed cats. We estimate model parameters from a basic set of measurements and show that the model can accurately predict responses to novel stimuli. The model might serve as the new standard model of LGN responses. It specifies how visual processing in LGN involves both linear filtering and divisive gain control.
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