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Next-to-leading order Balitsky-Kovchegov equation with resummation
2016
We solve the Balitsky-Kovchegov evolution equation at next-to-leading order accuracy including a resummation of large single and double transverse momentum logarithms to all orders. We numerically determine an optimal value for the constant under the large transverse momentum logarithm that enables including a maximal amount of the full NLO result in the resummation. When this value is used the contribution from the $\alpha_s^2$ terms without large logarithms is found to be small at large saturation scales and at small dipoles. Close to initial conditions relevant for phenomenological applications these fixed order corrections are shown to be numerically important.
Theoretical predictions for the direct detection of neutralino dark matter in the NMSSM
2004
We analyse the direct detection of neutralino dark matter in the framework of the Next-to-Minimal Supersymmetric Standard Model. After performing a detailed analysis of the parameter space, taking into account all the available constraints from LEPII, we compute the neutralino-nucleon cross section, and compare the results with the sensitivity of detectors. We find that sizable values for the detection cross section, within the reach of dark matter detectors, are attainable in this framework. For example, neutralino-proton cross sections compatible with the sensitivity of present experiments can be obtained due to the exchange of very light Higgses with $m_{h_1^0}\lsim 70$ GeV. Such Higgses…
BLM scale for the pion transition form factor
2001
The NLO Brodsky-Lepage-Mackenzie (BLM) scale for the pion transition form factor has been determined. To achieve that, a consistent calculation up to nf-proportional NNLO contributions to both the hard-scattering amplitude and the perturbatively calculable part of the pion distribution amplitude has been performed. By combining and matching the results obtained for these two amplitudes, a proper cancellation of collinear singularities has been established and the gamma5 ambiguity problem (related to the use of the dimensional regularization method) has been resolved by using the naive-gamma5 as well as the 't Hooft-Veltman (HV) schemes. It has been demonstrated that the prediction for the p…
Identification of predictive biomarkers for the efficacy of nivolumab in patients with advanced non-small cell cancer.
2019
The recent introduction of immunotherapy has disrupted the management of non-small cell lung cancer (NSCLC). Nivolumab, an antibody targeting the immune checkpoint inhibitor PD-1, has shown remarkable results in seconde-line setting after failure of standard first-line chemotherapy. However, only a quarter of patients benefits from this therapy. To date, no predictive biomarker of the therapeutic efficacy of nivolumab has been identified in a clear and consensual manner. The research for predictive biomarkers of efficacy or resistance to this treatment is, therefore, a major challenge.The emergence of high-throughput sequencing over the past decade has had a significant impact on clinical a…
Prediction of a Missing Protein Expression Map in the Context of the Human Proteome Project
2015
Experimental evidence for the entire human proteome has been defined in the Human Proteome Project, and it is publicly available in the neXtProt database. However, there are still human proteins for which reliable experimental evidence does not exist, and the identification of such information has become one of the overriding objectives in the chromosome-centric study of the human proteome. With this aim and considering the complexity of protein detection using shotgun and targeted proteomics, the research community has addressed the integration of transcriptomics and proteomics landscapes. Here, we describe an analytical pipeline that predicts the probability of a missing protein being exp…
Toward the Standardization of Mitochondrial Proteomics: The Italian Mitochondrial Human Proteome Project Initiative
2017
The Mitochondrial Human Proteome Project aims at understanding the function of the mitochondrial proteome and its crosstalk with the proteome of other organelles. Being able to choose a suitable and validated enrichment protocol of functional mitochondria, based on the specific needs of the downstream proteomics analysis, would greatly help the researchers in the field. Mitochondrial fractions from ten model cell lines were prepared using three enrichment protocols and analyzed on seven different LC-MS/MS platforms. All data were processed using neXtProt as reference database. The data are available for the Human Proteome Project purposes through the ProteomeXchange Consortium with the iden…
THE “SALT-TASTING” NEWBORN
2021
Pseudohypoaldosteronism type 1 (PHA1) is a rare genetic disease due to the peripheral resistance to aldosterone. Clinical spectrum with neonatal onset includes salt loss, hyponatremia, hypochloraemia, hyperkalaemia, metabolic acidosis and increased plasmatic levels of aldosterone. Two forms of the disease - renal and systemic – have been described, which are genetically distinct and with wide clinical expressivity. The most severe generalized PHA1 is caused by mutations in the genes encoding for the subunits of the epithelial sodium channels (ENaC). The paper reports the case of a newborn of the first pregnancy of healthy and consanguineous Sicilian parents, with a clinical and hormonal pic…
Large-scale analysis of SARS-CoV-2 spike-glycoprotein mutants demonstrates the need for continuous screening of virus isolates
2021
Due to the widespread of the COVID-19 pandemic, the SARS-CoV-2 genome is evolving in diverse human populations. Several studies already reported different strains and an increase in the mutation rate. Particularly, mutations in SARS-CoV-2 spike-glycoprotein are of great interest as it mediates infection in human and recently approved mRNA vaccines are designed to induce immune responses against it. We analyzed 1,036,030 SARS-CoV-2 genome assemblies and 30,806 NGS datasets from GISAID and European Nucleotide Archive (ENA) focusing on non-synonymous mutations in the spike protein. Only around 2.5% of the samples contained the wild-type spike protein with no variation from the reference. Among…
Two distinct extracellular RNA signatures released by a single cell type identified by microarray and next-generation sequencing
2016
ABSTRACT Cells secrete extracellular RNA (exRNA) to their surrounding environment and exRNA has been found in many body fluids such as blood, breast milk and cerebrospinal fluid. However, there are conflicting results regarding the nature of exRNA. Here, we have separated 2 distinct exRNA profiles released by mast cells, here termed high-density (HD) and low-density (LD) exRNA. The exRNA in both fractions was characterized by microarray and next-generation sequencing. Both exRNA fractions contained mRNA and miRNA, and the mRNAs in the LD exRNA correlated closely with the cellular mRNA, whereas the HD mRNA did not. Furthermore, the HD exRNA was enriched in lincRNA, antisense RNA, vault RNA, …
AP5Z1/SPG4 8 frequency in autosomal recessive and sporadic spastic paraplegia
2014
Hereditary spastic paraplegias (HSP) constitute a rare and highly heterogeneous group of neurodegenerative disorders, defined clinically by progressive lower limb spasticity and pyramidal weakness. Autosomal recessive HSP as well as sporadic cases present a significant diagnostic challenge. Mutations in AP5Z1, a gene playing a role in intracellular membrane trafficking, have been recently reported to be associated with spastic paraplegia type 48 (SPG48). Our objective was to determine the relative frequency and clinical relevance of AP5Z1 mutations in a large cohort of 127 HSP patients. We applied a targeted next-generation sequencing approach to analyze all coding exons of the AP5Z1 gene. …