Designing Software to Locate Differences in the Shrimp Genome

In order to determine where important differences in the genomic sequence of Pacific White Shrimp occur, many copies each of multiple regions of DNA sequence are needed. Then similar sequences can be aligned so that almost all of the bases are identical between the sequences and differences are easy to notice. One of the major issues with predicting single base position differences (SNPs) in this manner is that DNA sequencing techniques are not 100% consistent in most cases. Consequently, it needs to be determined whether a particular base is different because the true genetic sequence is variable at that position or because the sequencing process resulted in the base position being incorrectly called. SNPidentifier is a newly developed computer program that takes into account the unreliability of sequence data and tries to use only the more reliable sequences to predict where true SNPs are located. The goal of locating SNPs in Pacific White Shrimp is to identify base positions that can possibly be used in the future as molecular markers for traits of interest to shrimp breeders

N,N′-Diisopropyl-3,6-dimethoxy­naphthalene-2,7-disulfonamide

In the title compound, C18H26N2O6S2, all bond lengths and angles are normal. The crystal structure is stabilized by inter­molecular N—H⋯O hydrogen bonds

Experimental Test of Tracking the King Problem

In quantum theory, the retrodiction problem is not as clear as its classical counterpart because of the uncertainty principle of quantum mechanics. In classical physics, the measurement outcomes of the present state can be used directly for predicting the future events and inferring the past events which is known as retrodiction. However, as a probabilistic theory, quantum-mechanical retrodiction is a nontrivial problem that has been investigated for a long time, of which the Mean King Problem is one of the most extensively studied issues. Here, we present the first experimental test of a variant of the Mean King Problem, which has a more stringent regulation and is termed "Tracking the King". We demonstrate that Alice, by harnessing the shared entanglement and controlled-not gate, can successfully retrodict the choice of King's measurement without knowing any measurement outcome. Our results also provide a counterintuitive quantum communication to deliver information hidden in the choice of measurement.Comment: 16 pages, 5 figures, 2 table

Tetra-μ-acetato-κ4 O:O′;κ3 O,O′:O′;κ3 O:O,O′-bis­[(acetato-κ2 O,O′)(1,10-phenanthroline-κ2 N,N′)europium(III)]

In the title centrosymmetric dinuclear EuIII complex, [Eu2(CH3COO)6(C12H8N2)2], each EuIII cation is coordinated by seven O atoms from five acetate anions and two N atoms from one phenanthroline ligand in a distorted tricapped trigonal-prismatic geometry. Four acetate anions bridge two EuIII cations to form the dinuclear complex, with an Eu⋯Eu distance of 3.9409 (8) Å. Weak inter­molecular C—H⋯O hydrogen bonding is present in the crystal structure

Genome-wide analysis of microRNAs in relation to pupariation in oriental fruit fly

Insect metamorphosis is a complex process involving drastic morphological and physiological changes. microRNAs (miRNAs) are a class of endogenous small non-coding RNAs that play key roles in regulating various biological processes, including metamorphosis, by post-transcriptional repression of mRNAs. The oriental fruit fly, Bactrocera dorsalis, is one of the most destructive insect pests in many Asian countries and the Pacific Islands. The regulatory role of miRNAs in B. dorsalis metamorphosis is unclear. To better understand the molecular regulatory mechanisms of miRNAs in pupariation, Illumina sequencing of the wandering stage (WS), the late WS and the white puparium stage of B. dorsalis were performed. Two hundred forty-nine miRNAs, including 184 known miRNAs and 65 novel miRNAs, were obtained. Among these miRNAs, 19 miRNAs were differentially expressed in pupariation, and eight miRNAs showed relative high expression levels (>50 TPM), of which five differentially expressed miRNAs (DEMs) had target differentially expressed genes (DEGs) predicted by the expected miRNA-mRNA negative regulation pattern using the Illumina HiSeq data. Four sets of DEMs and their predicted target DEGs were confirmed by qPCR. Of the four miRNAs, two miRNAs were down-regulated: miR-981, which may target pdpc, and Bdo-novel-mir-55, which potentially regulates spsX1, psB/C, and chit3. The other two miRNAs were up-regulated: let-7a-3p, which possibly controls lap, and Bdo-novelmir-24, which may regulate ipc and sp1/2. This study provides a useful resource to elucidate the regulatory role of miRNAs and understand the molecular mechanisms of metamorphosis

Developments of a 2D Position Sensitive Neutron Detector

Chinese Spallation Neutron Source (CSNS), one project of the 12th five-year-plan scheme of China, is under construction in Guangdong province. Three neutron spectrometers will be installed at the first phase of the project, where two-dimensional position sensitive thermal neutron detectors are required. Before the construction of the neutron detector, a prototype of two-dimensional 200 mmx200 mm Multi-wire Proportional Chamber (MWPC) with the flowing gas of Ar/CO2 (90/10) has been constructed and tested with the 55Fe X-Ray using part of the electronics in 2009, which showed a good performance. Following the test in 2009, the neutron detector has been constructed with the complete electronics and filled with the 6atm.3He + 2.5atm.C3H8 gas mixture in 2010. The neutron detector has been primarily tested with an Am/Be source. In this paper, some new developments of the neutron detector including the design of the high pressure chamber, the optimization of the gas purifying system and the gas filling process will be reported. The results and discussion are also presented in this paper.Comment: 5 page

Impact of residual and intrafractional errors on strategy of correction for image-guided accelerated partial breast irradiation

<p>Abstract</p> <p>Background</p> <p>The cone beam CT (CBCT) guided radiation can reduce the systematic and random setup errors as compared to the skin-mark setup. However, the residual and intrafractional (RAIF) errors are still unknown. The purpose of this paper is to investigate the magnitude of RAIF errors and correction action levels needed in cone beam computed tomography (CBCT) guided accelerated partial breast irradiation (APBI).</p> <p>Methods</p> <p>Ten patients were enrolled in the prospective study of CBCT guided APBI. The postoperative tumor bed was irradiated with 38.5 Gy in 10 fractions over 5 days. Two cone-beam CT data sets were obtained with one before and one after the treatment delivery. The CBCT images were registered online to the planning CT images using the automatic algorithm followed by a fine manual adjustment. An action level of 3 mm, meaning that corrections were performed for translations exceeding 3 mm, was implemented in clinical treatments. Based on the acquired data, different correction action levels were simulated, and random RAIF errors, systematic RAIF errors and related margins before and after the treatments were determined for varying correction action levels.</p> <p>Results</p> <p>A total of 75 pairs of CBCT data sets were analyzed. The systematic and random setup errors based on skin-mark setup prior to treatment delivery were 2.1 mm and 1.8 mm in the lateral (LR), 3.1 mm and 2.3 mm in the superior-inferior (SI), and 2.3 mm and 2.0 mm in the anterior-posterior (AP) directions. With the 3 mm correction action level, the systematic and random RAIF errors were 2.5 mm and 2.3 mm in the LR direction, 2.3 mm and 2.3 mm in the SI direction, and 2.3 mm and 2.2 mm in the AP direction after treatments delivery. Accordingly, the margins for correction action levels of 3 mm, 4 mm, 5 mm, 6 mm and no correction were 7.9 mm, 8.0 mm, 8.0 mm, 7.9 mm and 8.0 mm in the LR direction; 6.4 mm, 7.1 mm, 7.9 mm, 9.2 mm and 10.5 mm in the SI direction; 7.6 mm, 7.9 mm, 9.4 mm, 10.1 mm and 12.7 mm in the AP direction, respectively.</p> <p>Conclusions</p> <p>Residual and intrafractional errors can significantly affect the accuracy of image-guided APBI with nonplanar 3DCRT techniques. If a 10-mm CTV-PTV margin is applied, a correction action level of 5 mm or less is necessary so as to maintain the RAIF errors within 10 mm for more than 95% of fractions. Pre-treatment CBCT guidance is not a guarantee for safe delivery of the treatment despite its known benefits of reducing the initial setup errors. A patient position verification and correction during the treatment may be a method for the safe delivery.</p