Ordinal Multi-modal Feature Selection for Survival Analysis of Early-Stage Renal Cancer

Existing studies have demonstrated that combining genomic data and histopathological images can better stratify cancer patients with distinct prognosis than using single biomarker, for different biomarkers may provide complementary information. However, these multi-modal data, most high-dimensional, may contain redundant features that will deteriorate the performance of the prognosis model, and therefore it has become a challenging problem to select the informative features for survival analysis from the redundant and heterogeneous feature groups. Existing feature selection methods assume that the survival information of one patient is independent to another, and thus miss the ordinal relationship among the survival time of different patients. To solve this issue, we make use of the important ordinal survival information among different patients and propose an ordinal sparse canonical correlation analysis (i.e., OSCCA) framework to simultaneously identify important image features and eigengenes for survival analysis. Specifically, we formulate our framework basing on sparse canonical correlation analysis model, which aims at finding the best linear projections so that the highest correlation between the selected image features and eigengenes can be achieved. In addition, we also add constrains to ensure that the ordinal survival information of different patients is preserved after projection. We evaluate the effectiveness of our method on an early-stage renal cell carcinoma dataset. Experimental results demonstrate that the selected features correlated strongly with survival, by which we can achieve better patient stratification than the comparing methods

Self-consistent Coulomb picture of an electron-electron bilayer system

In this work we implement the self-consistent Thomas-Fermi approach and a local conductivity model to an electron-electron bilayer system. The presence of an incompressible strip, originating from screening calculations at the top (or bottom) layer is considered as a source of an external potential fluctuation to the bottom (or top) layer. This essentially yields modifications to both screening properties and the magneto-transport quantities. The effect of the temperature, inter-layer distance and density mismatch on the density and the potential fluctuations are investigated. It is observed that the existence of the incompressible strips plays an important role simply due to their poor screening properties on both screening and the magneto-resistance (MR) properties. Here we also report and interpret the observed MR Hysteresis within our model.Comment: 12 pages, 12 figures, submitted to PR

Realistic modelling of quantum point contacts subject to high magnetic fields and with current bias at out of linear response regime

The electron and current density distributions in the close proximity of quantum point contacts (QPCs) are investigated. A three dimensional Poisson equation is solved self-consistently to obtain the electron density and potential profile in the absence of an external magnetic field for gate and etching defined devices. We observe the surface charges and their apparent effect on the confinement potential, when considering the (deeply) etched QPCs. In the presence of an external magnetic field, we investigate the formation of the incompressible strips and their influence on the current distribution both in the linear response and out of linear response regime. A spatial asymmetry of the current carrying incompressible strips, induced by the large source drain voltages, is reported for such devices in the non-linear regime.Comment: 16 Pages, 9 Figures, submitted to PR

Lymphangitis carcinomatosa as an unusual presentation of renal cell carcinoma: a case report

<p>Abstract</p> <p>Introduction</p> <p>Renal cell carcinoma is a common adult malignancy that can present incidentally or with a multitude of clinical symptoms and signs. Metastatic spread is frequent, occurring via haematogenous and lymphatic routes, although it does not typically present with lymphangitis carcinomatosa.</p> <p>Case presentation</p> <p>We describe a patient who presented with cough and increasing dyspnoea. Initial chest x-ray and computed tomography were consistent with lymphangitis carcinomatosa that proved secondary to underlying renal cell carcinoma.</p> <p>Conclusion</p> <p>Lymphangitis carcinomatosa occurs with many different primary tumours and can rarely be the presenting feature of renal cell carcinoma. Underlying renal cell carcinoma should be considered in the differential diagnosis of lymphangitis carcinomatosa and excluded with subsequent investigations.</p

An associative memory of Hodgkin-Huxley neuron networks with Willshaw-type synaptic couplings

An associative memory has been discussed of neural networks consisting of spiking N (=100) Hodgkin-Huxley (HH) neurons with time-delayed couplings, which memorize P patterns in their synaptic weights. In addition to excitatory synapses whose strengths are modified after the Willshaw-type learning rule with the 0/1 code for quiescent/active states, the network includes uniform inhibitory synapses which are introduced to reduce cross-talk noises. Our simulations of the HH neuron network for the noise-free state have shown to yield a fairly good performance with the storage capacity of $\alpha_c = P_{\rm max}/N \sim 0.4 - 2.4$ for the low neuron activity of $f \sim 0.04-0.10$. This storage capacity of our temporal-code network is comparable to that of the rate-code model with the Willshaw-type synapses. Our HH neuron network is realized not to be vulnerable to the distribution of time delays in couplings. The variability of interspace interval (ISI) of output spike trains in the process of retrieving stored patterns is also discussed.Comment: 15 pages, 3 figures, changed Titl

Spike-Train Responses of a Pair of Hodgkin-Huxley Neurons with Time-Delayed Couplings

Model calculations have been performed on the spike-train response of a pair of Hodgkin-Huxley (HH) neurons coupled by recurrent excitatory-excitatory couplings with time delay. The coupled, excitable HH neurons are assumed to receive the two kinds of spike-train inputs: the transient input consisting of $M$ impulses for the finite duration ($M$: integer) and the sequential input with the constant interspike interval (ISI). The distribution of the output ISI $T_{\rm o}$ shows a rich of variety depending on the coupling strength and the time delay. The comparison is made between the dependence of the output ISI for the transient inputs and that for the sequential inputs.Comment: 19 pages, 4 figure

A Novel Therapeutic and Prophylactic Vaccine (HVJ-Envelope / Hsp65 DNA + IL-12 DNA) against Tuberculosis Using the Cynomolgus Monkey Model

AbstractWe have developed a novel tuberculosis (TB) vaccine; a combination of the DNA vaccines expressing mycobacterial heat shock protein 65 (HSP65) and interleukin 12 (IL-12) delivered by the hemagglutinating virus of Japan (HVJ)-envelope and –liposome (HSP65 + IL-12/HVJ). An IL-12 expression vector (IL-12DNA) encoding single-chain IL-12 proteins comprised of p40 and p35 subunits were constructed. This vaccine provided remarkable protective efficacy in mouse and guinea pig models compared to the BCG vaccine on the basis of C.F.U of number of TB, survival, an induction of the CD8 positive CTL activity and improvement of the histopathological tuberculosis lesions. This vaccine also provided therapeutic efficacy against multi-drug resistant TB (MDR-TB) and extremely drug resistant TB (XDR-TB) (prolongation of survival time and the decrease in the number of TB in the lung) in murine models. Furthermore, we extended our studies to a cynomolgus monkey model, which is currently the best animal model of human tuberculosis. This novel vaccine provided a higher level of the protective efficacy than BCG based upon the assessment of mortality, the ESR, body weight, chest X-ray findings and immune responses. All monkeys in the control group (saline) died within 8 months, while 50% of monkeys in the HSP65+hIL-12/HVJ group survived more than 14 months post-infection (the termination period of the experiment). Furthermore, the BCG priming and HSP65 + IL-12/HVJ vaccine (booster) by the priming-booster method showed a synergistic effect in the TB-infected cynomolgus monkey (100% survival). In contrast, 33% of monkeys from BCG Tokyo alone group were alive (33% survival). Furthermore, this vaccine exerted therapeutic efficacy (100% survival) and augmentation of immune responses in the TB-infected monkeys. These data indicate that our novel DNA vaccine might be useful against Mycobacterium tuberculosis including XDR-TB and MDR-TB for human therapeutic clinical trials

Dynamical mean-field theory of spiking neuron ensembles: response to a single spike with independent noises

Dynamics of an ensemble of $N$-unit FitzHugh-Nagumo (FN) neurons subject to white noises has been studied by using a semi-analytical dynamical mean-field (DMF) theory in which the original $2 N$-dimensional {\it stochastic} differential equations are replaced by 8-dimensional {\it deterministic} differential equations expressed in terms of moments of local and global variables. Our DMF theory, which assumes weak noises and the Gaussian distribution of state variables, goes beyond weak couplings among constituent neurons. By using the expression for the firing probability due to an applied single spike, we have discussed effects of noises, synaptic couplings and the size of the ensemble on the spike timing precision, which is shown to be improved by increasing the size of the neuron ensemble, even when there are no couplings among neurons. When the coupling is introduced, neurons in ensembles respond to an input spike with a partial synchronization. DMF theory is extended to a large cluster which can be divided into multiple sub-clusters according to their functions. A model calculation has shown that when the noise intensity is moderate, the spike propagation with a fairly precise timing is possible among noisy sub-clusters with feed-forward couplings, as in the synfire chain. Results calculated by our DMF theory are nicely compared to those obtained by direct simulations. A comparison of DMF theory with the conventional moment method is also discussed.Comment: 29 pages, 2 figures; augmented the text and added Appendice