From the Bench to Bedside: Biological and Methodology Considerations for the Future of Companion Diagnostics in Nonsmall Cell Lung Cancer

Companion diagnostics are an emerging and exciting field in the care of oncology patients. These tests accompany standard diagnostic investigations in cancer patients and function as an aid in treatment decision making. A great number of new compounds are under clinical and laboratory testing in nonsmall cell lung cancer (NSCLC). As the variety of therapeutic options expands in the various settings of the disease, it becomes apparent that specific and sensitive molecular tests are necessary to define the subsets of patients who are going to derive clinical benefit. Testing for epidermal growth factor receptor (EGFR) somatic mutations for the appropriate administration of tyrosine kinase inhibitors is just the beginning. Anaplastic lymphoma kinase (ALK) fusion protein detection and molecular histology classification are promising candidate predictors for clinical benefit from crizotinib and pemetrexed, respectively. This paper summarizes such diagnostics and discusses unanswered questions concerning underlying biology and standardization issues

Neuroendocrine Tumors of the Pancreas: What's New

Surgical excision has been the mainstay of treatment for neuroendocrine tumors of the pancreas (PNET). Compounds like streptozocin and dacarbazin have been traditionally used in inoperable cases and somatostatin to treat syndromes deriving from functional tumors. However, a lot of progress has taken place in the area of molecular characterization of these tumors, revealing activation of mammalian target of rapamycin (mTOR) and VEGF pathways. Recent data from the 2010 ASCO Gastrointestinal Cancers Symposium demonstrate antitumor activity of everolimus, an mTOR inhibitor in combination with temozolomide in a phase I/II trial and of sunitinib versus placebo in a randomized double blinded phase III trial. The role of modern biologic compounds in the treatment of PNET is not clear yet. In addition, combination of resection and transarterial chemoembolization (TACE) has been proven effective over either modality alone in the treatment of PNET metastatic to the liver in a retrospective analysis. This comes to address the problem of selecting local intervention in a metastatic disease, which has been a reasonable choice for this group of tumors in the past. Last but not least the role of Ki-67 in decision-making in PNET is being discussed.Image: Yale University School of Medicine. New Haven, CT, USA

An artificial neural network predictor for tropospheric surface duct phenomena

International audienceIn this work, an artificial neural network (ANN) model is developed and used to predict the presence of ducting phenomena for a specific time, taking into account ground values of atmospheric pressure, relative humidity and temperature. A feed forward backpropagation ANN is implemented, which is trained, validated and tested using atmospheric radiosonde data from the Helliniko airport, for the period from 1991 to 2004. The network's quality and generality is assessed using the Area Under the Receiver Operating Characteristics (ROC) Curves (AUC), which resulted to a mean value of about 0.86 to 0.90, depending on the observation time. In order to validate the ANN results and to evaluate any further improvement options of the proposed method, the problem was additionally treated using Least Squares Support Vector Machine (LS-SVM) classifiers, trained and tested with identical data sets for direct performance comparison with the ANN. Furthermore, time series prediction and the effect of surface wind to the presence of tropospheric ducts appearance are discussed. The results show that the ANN model presented here performs efficiently and gives successful tropospheric ducts predictions

On the Influence of Pulse Shapes on Ionization Probability

We investigate analytical expressions for the upper and lower bounds for the ionization probability through ultra-intense shortly pulsed laser radiation. We take several different pulse shapes into account, including in particular those with a smooth adiabatic turn-on and turn-off. For all situations for which our bounds are applicable we do not find any evidence for bound-state stabilization.Comment: 21 pages LateX, 10 figure

On the absence of bound-state stabilization through short ultra-intense fields

We address the question of whether atomic bound states begin to stabilize in the short ultra-intense field limit. We provide a general theory of ionization probability and investigate its gauge invariance. For a wide range of potentials we find an upper and lower bound by non-perturbative methods, which clearly exclude the possibility that the ultra intense field might have a stabilizing effect on the atom. For short pulses we find almost complete ionization as the field strength increases.Comment: 34 pages Late

Lotus japonicus contains two distinct ENOD40 genes that are expressed in symbiotic, nonsymbiotic, and embryonic tissues

ENOD40, an early nodulin gene, has been postulated to play a significant role in legume root nodule ontogenesis, We have isolated two distinct ENOD40 genes from Lotus japonicus, The transcribed regions of the two ENOD40 genes share 65% homology, while the two promoters showed no significant homology, Both transcripts encode a putative dodecapeptide similar to that identified in other legumes forming determinate nodules, Both ENOD40 genes are coordinately expressed following inoculation of roots with Mesorhizobium loti or treatment with purified Nod factors. In the former case, mRNA accumulation could be detected up to 10 days following inoculation while in the latter case the accumulation was transient. High levels of both ENOD40 gene transcripts were found in nonsymbiotic tissues such as stems, fully developed flowers, green seed pods, and hypocotyls, A relatively lower level of both transcripts was observed in leaves, roots, and cotyledons. In situ hybridization studies revealed that, in mature nodules, transcripts of both ENOD40 genes accumulate in the nodule vascular system; additionally, in young seed pods strong signal is observed in the ovule, particularly In the phloem and epithelium, as well as in globular stage embryos.Animal science

Ionization Probabilities through ultra-intense Fields in the extreme Limit

We continue our investigation concerning the question of whether atomic bound states begin to stabilize in the ultra-intense field limit. The pulses considered are essentially arbitrary, but we distinguish between three situations. First the total classical momentum transfer is non-vanishing, second not both the total classical momentum transfer and the total classical displacement are vanishing together with the requirement that the potential has a finite number of bound states and third both the total classical momentum transfer and the total classical displacement are vanishing. For the first two cases we rigorously prove, that the ionization probability tends to one when the amplitude of the pulse tends to infinity and the pulse shape remains fixed. In the third case the limit is strictly smaller than one. This case is also related to the high frequency limit considered by Gavrila et al.Comment: 16 pages LateX, 2 figure

An expression signature of the angiogenic response in gastrointestinal neuroendocrine tumours: correlation with tumour phenotype and survival outcomes.

BACKGROUND: Gastroenteropancreatic neuroendocrine tumours (GEP-NETs) are heterogeneous with respect to biological behaviour and prognosis. As angiogenesis is a renowned pathogenic hallmark as well as a therapeutic target, we aimed to investigate the prognostic and clinico-pathological role of tissue markers of hypoxia and angiogenesis in GEP-NETs. METHODS: Tissue microarray (TMA) blocks were constructed with 86 tumours diagnosed from 1988 to 2010. Tissue microarray sections were immunostained for hypoxia inducible factor 1α (Hif-1α), vascular endothelial growth factor-A (VEGF-A), carbonic anhydrase IX (Ca-IX) and somatostatin receptors (SSTR) 1–5, Ki-67 and CD31. Biomarker expression was correlated with clinico-pathological variables and tested for survival prediction using Kaplan–Meier and Cox regression methods. RESULTS: Eighty-six consecutive cases were included: 51% male, median age 51 (range 16–82), 68% presenting with a pancreatic primary, 95% well differentiated, 51% metastatic. Higher grading (P=0.03), advanced stage (P<0.001), high Hif-1α and low SSTR-2 expression (P=0.03) predicted for shorter overall survival (OS) on univariate analyses. Stage, SSTR-2 and Hif-1α expression were confirmed as multivariate predictors of OS. Median OS for patients with SSTR-2+/Hif-1α-tumours was not reached after median follow up of 8.8 years, whereas SSTR-2-/Hif-1α+ GEP-NETs had a median survival of only 4.2 years (P=0.006). CONCLUSION: We have identified a coherent expression signature by immunohistochemistry that can be used for patient stratification and to optimise treatment decisions in GEP-NETs independently from stage and grading. Tumours with preserved SSTR-2 and low Hif-1α expression have an indolent phenotype and may be offered less aggressive management and less stringent follow up

Multiphoton detachment of electrons from negative ions

A simple analytical solution for the problem of multiphoton detachment from negative ions by a linearly polarized laser field is found. It is valid in the wide range of intensities and frequencies of the field, from the perturbation theory to the tunneling regime, and is applicable to the excess-photon as well as near-threshold detachment. Practically, the formulae are valid when the number of photons is greater than two. They produce the total detachment rates, relative intensities of the excess-photon peaks, and photoelectron angular distributions for the hydrogen and halogen negative ions, in agreement with those obtained in other, more numerically involved calculations in both perturbative and non-perturbative regimes. Our approach explains the extreme sensitivity of the multiphoton detachment probability to the asymptotic behaviour of the bound-state wave function. Rapid oscillations in the angular dependence of the $n$-photon detachment probability are shown to arise due to interference of the two classical trajectories which lead to the same final state after the electron emerges at the opposite sides of the atom when the field is close to maximal.Comment: 27 pages, Latex, and PostScript figures fig1.ps, fig2.ps, fig3.ps, accepted for publication in Phys. Rev.