Hierarchical ResNeXt Models for Breast Cancer Histology Image Classification

Microscopic histology image analysis is a cornerstone in early detection of breast cancer. However these images are very large and manual analysis is error prone and very time consuming. Thus automating this process is in high demand. We proposed a hierarchical system of convolutional neural networks (CNN) that classifies automatically patches of these images into four pathologies: normal, benign, in situ carcinoma and invasive carcinoma. We evaluated our system on the BACH challenge dataset of image-wise classification and a small dataset that we used to extend it. Using a train/test split of 75%/25%, we achieved an accuracy rate of 0.99 on the test split for the BACH dataset and 0.96 on that of the extension. On the test of the BACH challenge, we've reached an accuracy of 0.81 which rank us to the 8th out of 51 teams

Coherent dynamics of photoinduced nucleation processes

We study the dynamics of initial nucleation processes of photoinduced structural change of molecular crystals. In order to describe the nonadiabatic transition in each molecule, we employ a model of localized electrons coupled with a fully quantized phonon mode, and the time-dependent Schr\"odinger equation for the model is numerically solved. We found a minimal model to describe the nucleation induced by injection of an excited state of a single molecule in which multiple types of intermolecular interactions are required. In this model coherently driven molecular distortion plays an important role in the successive conversion of electronic states which leads to photoinduced cooperative phenomena.Comment: 14 pages, 5 figure

Quantum pattern formation dynamics of photoinduced nucleation process

We study the dynamics of quantum pattern formation processes in molecular crystals which is a concomitant with photoinduced nucleation. Since the nucleation process in coherent regime is driven by the nonadiabatic transition in each molecule followed by the propagation of phonons, it is necessary to take into account the quantum nature of both electrons and phonons in order to pursue the dynamics of the system. Therefore, we employ a model of localized electrons coupled with a quantized phonon mode and solved the time-dependent Schr\"odinger equation numerically. We found that there is a minimal size of clusters of excited molecules which triggers the photoinduced nucleation process, i.e., nucleation does not take place unless sufficient photoexcitation energy is concentrated within a narrow area of the system. We show that this result means that the spatial distribution of photoexcited molecules plays an important role in the nonlinearity of the dynamics and also of the optical properties observed in experiments. We calculated the conversion ratio, the nucleation rate, and correlation functions to reveal the dynamical properties of the pattern formation process, and the initial dynamics of the photoinduced structural change is discussed from the viewpoint of pattern formation.Comment: 28 pages, 14 figure

Spin Degree of Freedom in a Two-Dimensional Electron Liquid

We have investigated correlation between spin polarization and magnetotransport in a high mobility silicon inversion layer which shows the metal-insulator transition. Increase in the resistivity in a parallel magnetic field reaches saturation at the critical field for the full polarization evaluated from an analysis of low-field Shubnikov-de Haas oscillations. By rotating the sample at various total strength of the magnetic field, we found that the normal component of the magnetic field at minima in the diagonal resistivity increases linearly with the concentration of ``spin-up'' electrons.Comment: 4 pages, RevTeX, 6 eps-figures, to appear in PR

Real-Time Visualization of HIV-1 GAG Trafficking in Infected Macrophages

HIV-1 particle production is driven by the Gag precursor protein Pr55Gag. Despite significant progress in defining both the viral and cellular determinants of HIV-1 assembly and release, the trafficking pathway used by Gag to reach its site of assembly in the infected cell remains to be elucidated. The Gag trafficking itinerary in primary monocyte-derived macrophages is especially poorly understood. To define the site of assembly and characterize the Gag trafficking pathway in this physiologically relevant cell type, we have made use of the biarsenical-tetracysteine system. A small tetracysteine tag was introduced near the C-terminus of the matrix domain of Gag. The insertion of the tag at this position did not interfere with Gag trafficking, virus assembly or release, particle infectivity, or the kinetics of virus replication. By using this in vivo detection system to visualize Gag trafficking in living macrophages, Gag was observed to accumulate both at the plasma membrane and in an apparently internal compartment that bears markers characteristic of late endosomes or multivesicular bodies. Significantly, the internal Gag rapidly translocated to the junction between the infected macrophages and uninfected T cells following macrophage/T-cell synapse formation. These data indicate that a population of Gag in infected macrophages remains sequestered internally and is presented to uninfected target cells at a virological synapse