Bistable Gradient Networks II: Storage Capacity and Behaviour Near Saturation

We examine numerically the storage capacity and the behaviour near saturation of an attractor neural network consisting of bistable elements with an adjustable coupling strength, the Bistable Gradient Network (BGN). For strong coupling, we find evidence of a first-order "memory blackout" phase transition as in the Hopfield network. For weak coupling, on the other hand, there is no evidence of such a transition and memorized patterns can be stable even at high levels of loading. The enhanced storage capacity comes, however, at the cost of imperfect retrieval of the patterns from corrupted versions.Comment: 15 pages, 12 eps figures. Submitted to Phys. Rev. E. Sequel to cond-mat/020356

Topology and Computational Performance of Attractor Neural Networks

To explore the relation between network structure and function, we studied the computational performance of Hopfield-type attractor neural nets with regular lattice, random, small-world and scale-free topologies. The random net is the most efficient for storage and retrieval of patterns by the entire network. However, in the scale-free case retrieval errors are not distributed uniformly: the portion of a pattern encoded by the subset of highly connected nodes is more robust and efficiently recognized than the rest of the pattern. The scale-free network thus achieves a very strong partial recognition. Implications for brain function and social dynamics are suggestive.Comment: 2 figures included. Submitted to Phys. Rev. Letter

Good methods for coping with missing data in decision trees

We propose a simple and effective method for dealing with missing data in decision trees used for classification. We call this approach 'missingness incorporated in attributes' (MIA). It is very closely related to the technique of treating 'missing' as a category in its own right, generalizing it for use with continuous as well as categorical variables. We show through a substantial data-based study of classification accuracy that MIA exhibits consistently good performance across a broad range of data types and of sources and amounts of missingness. It is competitive with the best of the rest (particularly, a multiple imputation EM algorithm method; EMMI) while being conceptually and computationally simpler. A simple combination of MIA and EMMI is slower but even more accurate

Integrated Generation of High-dimensional Entangled Photon States and Their Coherent Control

We demonstrate the generation of high-dimensional entangled photon pairs with a Hilbert-space dimensionality larger than 100 from an on-chip nonlinear microcavity, and introduce a coherent control scheme using standard telecommunications components

MGMT-independent temozolomide resistance in pediatric glioblastoma cells associated with a PI3-kinase-mediated HOX/stem cell gene signature

Sensitivity to temozolomide is restricted to a subset of glioblastoma patients, with the major determinant of resistance being a lack of promoter methylation of the gene encoding the repair protein DNA methyltransferase MGMT, although other mechanisms are thought to be active. There are, however, limited preclinical data in model systems derived from pediatric glioma patients. We screened a series of cell lines for temozolomide efficacy in vitro, and investigated the differential mechanisms of resistance involved. In the majority of cell lines, a lack of MGMT promoter methylation and subsequent protein overexpression were linked to temozolomide resistance. An exception was the pediatric glioblastoma line KNS42. Expression profiling data revealed a coordinated upregulation of HOX gene expression in resistant lines, especially KNS42, which was reversed by phosphoinositide 3-kinase pathway inhibition. High levels of HOXA9/HOXA10 gene expression were associated with a shorter survival in pediatric high-grade glioma patient samples. Combination treatment in vitro of pathway inhibition and temozolomide resulted in a highly synergistic interaction in KNS42 cells. The resistance gene signature further included contiguous genes within the 12q13-q14 amplicon, including the Akt enhancer PIKE, significantly overexpressed in the KNS42 line. These cells were also highly enriched for CD133 and other stem cell markers. We have thus shown an in vitro link between phosphoinositide 3-kinase-mediated HOXA9/HOXA10 expression, and a drug-resistant, progenitor cell phenotype in MGMT-independent pediatric glioblastoma.Cancer Research UK (C1178/A10294, C309/A2187, C309/A8274), the Oak Foundation (L. Marshall), and La Fondation de France (N. Gaspar). We acknowledge NHS funding to the NIHR Biomedical Research Centre. P. Workman is a Cancer Research UK Life Fello

Surface superconducting states and paramagnetism in mesoscopic superconductors

In the framework of the Ginzburg-Landau equation, the temperature dependence of the upper critical field of small ring-like superconductors is studied. At equilibrium small parts of the phase diagram show paramagnetism for width / radius ratios below 0.85. Their number and extension increase with the size of the hole. In these regions, only the inner part of the ring shows a positive magnetic moment. The order parameter density profile appears to change, when crossing a first order transition line, which separates different angular momentum values, and we clarify the relationship between the localization of superconductivity nucleation and paramagnetism of those samples.Comment: 11 pages, 9 figure

Electron-Hole Correlations and Optical Excitonic Gaps in Quantum-Dot Quantum Wells: Tight-Binding Approach

Electron-hole correlation in quantum-dot quantum wells (QDQW's) is investigated by incorporating Coulomb and exchange interactions into an empirical tight-binding model. Sufficient electron and hole single-particle states close to the band edge are included in the configuration to achieve convergence of the first spin-singlet and triplet excitonic energies within a few meV. Coulomb shifts of about 100 meV and exchange splittings of about 1 meV are found for CdS/HgS/CdS QDQW's (4.7 nm CdS core diameter, 0.3 nm HgS well width and 0.3 nm to 1.5 nm CdS clad thickness) which have been characterized experimentally by Weller and co-workers [ D. Schooss, A. Mews, A. Eychmuller, H. Weller, Phys. Rev. B, 49, 17072 (1994)]. The optical excitonic gaps calculated for those QDQW's are in good agreement with the experiment.Comment: 3 figures, to appear in Phys.Rev.

EGFRvIII deletion mutations in pediatric high-grade glioma and response to targeted therapy in pediatric glioma cell lines

Purpose: The epidermal growth factor receptor (EGFR) is amplified and overexpressed in adult glioblastoma, with response to targeted inhibition dependent on the underlying biology of the disease. EGFR has thus far been considered to play a less important role in pediatric glioma, although extensive data are lacking. We have sought to clarify the role of EGFR in pediatric high-grade glioma (HGG). Experimental Design: We retrospectively studied a total of 90 archival pediatric HGG specimens for EGFR protein overexpression, gene amplification, and mutation and assessed the in vitro sensitivity of pediatric glioma cell line models to the small-molecule EGFR inhibitor erlotinib. Results: Amplification was detected in 11% of cases, with corresponding overexpression of the receptor. No kinase or extracellular domain mutations were observed; however, 6 of 35 (17%) cases harbored the EGFRvIII deletion, including two anaplastic oligodendrogliomas and a gliosarcoma overexpressing EGFRvIII in the absence of gene amplification and coexpressing platelet-derived growth factor receptor α. Pediatric glioblastoma cells transduced with wild-type or deletion mutant EGFRvIII were not rendered more sensitive to erlotinib despite expressing wild-type PTEN. Phosphorylated receptor tyrosine kinase profiling showed a specific activation of platelet-derived growth factor receptor α/β in EGFRvIII-transduced pediatric glioblastoma cells, and targeted coinhibition with erlotinib and imatinib leads to enhanced efficacy in this model. Conclusions: These data identify an elevated frequency of EGFR gene amplification and EGFRvIII mutation in pediatric HGG than previously recognized and show the likely necessity of targeting multiple genetic alterations in the tumors of these children.Cancer Research UK grants C1178/A10294, C309/A2187, and C309/A8274; Oak Foundation (L. Marshall); La Fondation de France (N. Gaspar); and Breakthrough Breast Cancer (J.S. Reis-Filho). We acknowledge NHS funding to the National Institute for Health Research Biomedical Research Centre

Keeping It Real: Revisiting a Real-Space Approach to Running Ensembles of Cosmological N-body Simulations

In setting up initial conditions for ensembles of cosmological N-body simulations there are, fundamentally, two choices: either maximizing the correspondence of the initial density field to the assumed fourier-space clustering or, instead, matching to real-space statistics and allowing the DC mode (i.e. overdensity) to vary from box to box as it would in the real universe. As a stringent test of both approaches, I perform ensembles of simulations using power law and a "powerlaw times a bump" model inspired by baryon acoustic oscillations (BAO), exploiting the self-similarity of these initial conditions to quantify the accuracy of the matter-matter two-point correlation results. The real-space method, which was originally proposed by Pen 1997 and implemented by Sirko 2005, performed well in producing the expected self-similar behavior and corroborated the non-linear evolution of the BAO feature observed in conventional simulations, even in the strongly-clustered regime (sigma8 >= 1). In revisiting the real-space method championed by Sirko 2005, it was also noticed that this earlier study overlooked an important integral constraint correction to the correlation function in results from the conventional approach that can be important in LambdaCDM simulations with Lbox == Lbox / 10. Rectifying this shows that the fourier space and real space methods are about equally accurate and efficient for modeling the evolution and growth of the correlation function, contrary to previous claims. An appendix provides a useful independent-of-epoch analytic formula for estimating the importance of the integral constraint bias on correlation function measurements in LambdaCDM simulations.Comment: 28 pages, 7 figures, substantial improvements throughou

Loss of Grem1-lineage chondrogenic progenitor cells causes osteoarthritis

Published online: 31 October 2023Osteoarthritis (OA) is characterised by an irreversible degeneration of articular cartilage. Here we show that the BMP-antagonist Gremlin 1 (Grem1) marks a bipotent chondrogenic and osteogenic progenitor cell population within the articular surface. Notably, these progenitors are depleted by injury-induced OA and increasing age. OA is also caused by ablation of Grem1 cells in mice. Transcriptomic and functional analysis in mice found that articular surface Grem1-lineage cells are dependent on Foxo1 and ablation of Foxo1 in Grem1-lineage cells caused OA. FGFR3 signalling was confirmed as a promising therapeutic pathway by administration of pathway activator, FGF18, resulting in Grem1-lineage chondrocyte progenitor cell proliferation, increased cartilage thickness and reduced OA. These findings suggest that OA, in part, is caused by mechanical, developmental or age-related attrition of Grem1 expressing articular cartilage progenitor cells. These cells, and the FGFR3 signalling pathway that sustains them, may be effective future targets for biological management of OA.Jia Q. Ng, Toghrul H. Jafarov, Christopher B. Little, Tongtong Wang, Abdullah M. Ali, YanMa, Georgette A. Radford, Laura Vrbanac, Mari Ichinose, Samuel Whittle, David J. Hunter, Tamsin R. M. Lannagan, Nobumi Suzuki, JarradM. Goyne, Hiroki Kobayashi, Timothy C. Wang, David R. Haynes, Danijela Menicanin, Stan Gronthos, Daniel L. Worthley, Susan L. Woods and Siddhartha Mukherje