Two-dimensional local density of states in two-dimensional photonic crystals

We calculate the two-dimensional local density of states (LDOS) for two-dimensional photonic crystals composed of a finite cluster of circular cylinders of infinite length. The LDOS determines the dynamics of radiation sources embedded in a photonic crystal. We show that the LDOS decreases exponentially inside the crystal for frequencies within a photonic band gap of the associated infinite array and demonstrate that there exist "hot" and "cold" spots inside the cluster even for wavelengths inside a gap, and also for wavelengths corresponding to pass bands. For long wavelengths the LDOS exhibits oscillatory behavior in which the local density of states can be more than 30 times higher than the vacuum level. © 2001 Optical Society of America

A verification protocol for the probe sequences of Affymetrix genome arrays reveals high probe accuracy for studies in mouse, human and rat

BACKGROUND: The Affymetrix GeneChip technology uses multiple probes per gene to measure its expression level. Individual probe signals can vary widely, which hampers proper interpretation. This variation can be caused by probes that do not properly match their target gene or that match multiple genes. To determine the accuracy of Affymetrix arrays, we developed an extensive verification protocol, for mouse arrays incorporating the NCBI RefSeq, NCBI UniGene Unique, NIA Mouse Gene Index, and UCSC mouse genome databases. RESULTS: Applying this protocol to Affymetrix Mouse Genome arrays (the earlier U74Av2 and the newer 430 2.0 array), the number of sequence-verified probes with perfect matches was no less than 85% and 95%, respectively; and for 74% and 85% of the probe sets all probes were sequence verified. The latter percentages increased to 80% and 94% after discarding one or two unverifiable probes per probe set, and even further to 84% and 97% when, in addition, allowing for one or two mismatches between probe and target gene. Similar results were obtained for other mouse arrays, as well as for human and rat arrays. Based on these data, refined chip definition files for all arrays are provided online. Researchers can choose the version appropriate for their study to (re)analyze expression data. CONCLUSION: The accuracy of Affymetrix probe sequences is higher than previously reported, particularly on newer arrays. Yet, refined probe set definitions have clear effects on the detection of differentially expressed genes. We demonstrate that the interpretation of the results of Affymetrix arrays is improved when the new chip definition files are used

Physico-Chemical Evaluation of Rationally Designed Melanins as Novel Nature-Inspired Radioprotectors

Melanin, a high-molecular weight pigment that is ubiquitous in nature, protects melanized microorganisms against high doses of ionizing radiation. However, the physics of melanin interaction with ionizing radiation is unknown.We rationally designed melanins from either 5-S-cysteinyl-DOPA, L-cysteine/L-DOPA, or L-DOPA with diverse structures as shown by elemental analysis and HPLC. Sulfur-containing melanins had higher predicted attenuation coefficients than non-sulfur-containing melanins. All synthetic melanins displayed strong electron paramagnetic resonance (2.14.10(18), 7.09.10(18), and 9.05.10(17) spins/g, respectively), with sulfur-containing melanins demonstrating more complex spectra and higher numbers of stable free radicals. There was no change in the quality or quantity of the stable free radicals after high-dose (30,000 cGy), high-energy ((137)Cs, 661.6 keV) irradiation, indicating a high degree of radical stability as well as a robust resistance to the ionizing effects of gamma irradiation. The rationally designed melanins protected mammalian cells against ionizing radiation of different energies.We propose that due to melanin's numerous aromatic oligomers containing multiple pi-electron system, a generated Compton recoil electron gradually loses energy while passing through the pigment, until its energy is sufficiently low that it can be trapped by stable free radicals present in the pigment. Controlled dissipation of high-energy recoil electrons by melanin prevents secondary ionizations and the generation of damaging free radical species

Tumor markers in breast cancer - European Group on Tumor Markers recommendations

Recommendations are presented for the routine clinical use of serum and tissue-based markers in the diagnosis and management of patients with breast cancer. Their low sensitivity and specificity preclude the use of serum markers such as the MUC-1 mucin glycoproteins ( CA 15.3, BR 27.29) and carcinoembryonic antigen in the diagnosis of early breast cancer. However, serial measurement of these markers can result in the early detection of recurrent disease as well as indicate the efficacy of therapy. Of the tissue-based markers, measurement of estrogen and progesterone receptors is mandatory in the selection of patients for treatment with hormone therapy, while HER-2 is essential in selecting patients with advanced breast cancer for treatment with Herceptin ( trastuzumab). Urokinase plasminogen activator and plasminogen activator inhibitor 1 are recently validated prognostic markers for lymph node-negative breast cancer patients and thus may be of value in selecting node-negative patients that do not require adjuvant chemotherapy. Copyright (C) 2005 S. Karger AG, Basel

Local coexpression domains in the genome of rice show no microsynteny with Arabidopsis domains

Chromosomal coexpression domains are found in a number of different genomes under various developmental conditions. The size of these domains and the number of genes they contain vary. Here, we define local coexpression domains as adjacent genes where all possible pair-wise correlations of expression data are higher than 0.7. In rice, such local coexpression domains range from predominantly two genes, up to 4, and make up ∼5% of the genomic neighboring genes, when examining different expression platforms from the public domain. The genes in local coexpression domains do not fall in the same ontology category significantly more than neighboring genes that are not coexpressed. Duplication, orientation or the distance between the genes does not solely explain coexpression. The regulation of coexpression is therefore thought to be regulated at the level of chromatin structure. The characteristics of the local coexpression domains in rice are strikingly similar to such domains in the Arabidopsis genome. Yet, no microsynteny between local coexpression domains in Arabidopsis and rice could be identified. Although the rice genome is not yet as extensively annotated as the Arabidopsis genome, the lack of conservation of local coexpression domains may indicate that such domains have not played a major role in the evolution of genome structure or in genome conservation

A comprehensive overview of radioguided surgery using gamma detection probe technology

The concept of radioguided surgery, which was first developed some 60 years ago, involves the use of a radiation detection probe system for the intraoperative detection of radionuclides. The use of gamma detection probe technology in radioguided surgery has tremendously expanded and has evolved into what is now considered an established discipline within the practice of surgery, revolutionizing the surgical management of many malignancies, including breast cancer, melanoma, and colorectal cancer, as well as the surgical management of parathyroid disease. The impact of radioguided surgery on the surgical management of cancer patients includes providing vital and real-time information to the surgeon regarding the location and extent of disease, as well as regarding the assessment of surgical resection margins. Additionally, it has allowed the surgeon to minimize the surgical invasiveness of many diagnostic and therapeutic procedures, while still maintaining maximum benefit to the cancer patient. In the current review, we have attempted to comprehensively evaluate the history, technical aspects, and clinical applications of radioguided surgery using gamma detection probe technology

Relative local density of states and cloaking in finite clusters of coated cylinders

We describe a method for accurate calculation of the Relative Local Density of States (RLDOS) as a function of frequency and position in finite sets of coated cylinders. The RLDOS is important, since it describes the interaction between sources and their environment, which controls their ability to radiate electromagnetic waves. We give numerical examples of distributions of RLDOS for clusters of cylinders with lossy coatings whose optical properties are in the range typical of metamaterials, and use these to show the tendency of RLDOS to concentrate on the coating boundaries when plasmonic cloaking is occurring. © 2011 Taylor & Francis

Null trajectories for the symmetrized Hurwitz zeta function

We consider the Hurwitz zeta function ζ(s, a) and develop asymptotic results for a=p/q, with q large, and, in particular, for p/q tending to 1/2. We also study the properties of lines along which the symmetrized parts of ζ(s, a), ζ+(s, a) and ζ-(s, a) are zero. We find that these lines may be grouped into four families, with the start and end points for each family being simply characterized. At values of a=1/2, 2/3 and 3/4, the curves pass through points which may also be characterized, in terms of zeros of the Riemann zeta function, or the Dirichlet functions L -3(s) and L-4(s), or of simple trigonometric functions. Consideration of these trajectories enables us to relate the densities of zeros of L-3(s) and L-4(s) to that of ζ(s) on the critical line. © 2006 The Royal Society

Quasistatic cloaking of two-dimensional polarizable discrete systems by anomalous resonance

Discrete systems of infinitely long polarizable line dipoles are considered in the quasistatic limit, interacting with a two-dimensional cloaking system consisting of a hollow plasmonic cylindrical shell. A numerical procedure is described for accurately calculating electromagnetic fields arising in the quasistatic limit, for the case when the relative permittivity of the cloaking shell has a very small imaginary part. Animations are given which illustrate cloaking of discrete systems, both for the case of induced dipoles and induced quadrupoles on the interacting particles. The simulations clarify the physical mechanism for the cloaking. © 2007 Optical Society of America