Microarray-based ultra-high resolution discovery of genomic deletion mutations

BACKGROUND: Oligonucleotide microarray-based comparative genomic hybridization (CGH) offers an attractive possible route for the rapid and cost-effective genome-wide discovery of deletion mutations. CGH typically involves comparison of the hybridization intensities of genomic DNA samples with microarray chip representations of entire genomes, and has widespread potential application in experimental research and medical diagnostics. However, the power to detect small deletions is low. RESULTS: Here we use a graduated series of Arabidopsis thaliana genomic deletion mutations (of sizes ranging from 4 bp to ~5 kb) to optimize CGH-based genomic deletion detection. We show that the power to detect smaller deletions (4, 28 and 104 bp) depends upon oligonucleotide density (essentially the number of genome-representative oligonucleotides on the microarray chip), and determine the oligonucleotide spacings necessary to guarantee detection of deletions of specified size. CONCLUSIONS: Our findings will enhance a wide range of research and clinical applications, and in particular will aid in the discovery of genomic deletions in the absence of a priori knowledge of their existence

Microarray-based ultra-high resolution discovery of genomic deletion mutations

BACKGROUND: Oligonucleotide microarray-based comparative genomic hybridization (CGH) offers an attractive possible route for the rapid and cost-effective genome-wide discovery of deletion mutations. CGH typically involves comparison of the hybridization intensities of genomic DNA samples with microarray chip representations of entire genomes, and has widespread potential application in experimental research and medical diagnostics. However, the power to detect small deletions is low. RESULTS: Here we use a graduated series of Arabidopsis thaliana genomic deletion mutations (of sizes ranging from 4 bp to ~5 kb) to optimize CGH-based genomic deletion detection. We show that the power to detect smaller deletions (4, 28 and 104 bp) depends upon oligonucleotide density (essentially the number of genome-representative oligonucleotides on the microarray chip), and determine the oligonucleotide spacings necessary to guarantee detection of deletions of specified size. CONCLUSIONS: Our findings will enhance a wide range of research and clinical applications, and in particular will aid in the discovery of genomic deletions in the absence of a priori knowledge of their existence

Proton widths of the low-lying 16F states from the 15N(7Li, 6Li)16N reaction

All the 16F levels are unbound by proton emission. To date the four low-lying 16F levels below 1 MeV have been experimentally identified with well established spin-parity values and excitation energies with an accuracy of 4 - 6 keV. However, there are still considerable discrepancies for their level widths. The present work aims to explore these level widths through an independent method. The angular distributions of the 15N(7Li, 6Li)16N reaction leading to the first four states in 16N were measured using a high-precision Q3D magnetic spectrograph. The neutron spectroscopic factors and the asymptotic normalization coefficients for these states in 16N were then derived based on distorted wave Born approximation analysis. The proton widths of the four low-lying resonant states in 16F were obtained according to charge symmetry of strong interaction.Comment: 14 pages, 6 figures, 4 table

GJ 1252 b: A 1.2 R\u3csub\u3e⊕\u3c/sub\u3e Planet Transiting An M3 Dwarf At 20.4 pc

We report the discovery of GJ 1252 b, a planet with a radius of 1.193 ± 0.074 R⊕ and an orbital period of 0.52 days around an M3-type star (0.381 ± 0.019 M⊕, 0.391 ± 0.020 R⊕) located 20.385 ± 0.019 pc away. We use Transiting Exoplanet Survey Satellite (TESS) data, ground-based photometry and spectroscopy, Gaia astrometry, and high angular resolution imaging to show that the transit signal seen in the TESS data must originate from a transiting planet. We do so by ruling out all false-positive scenarios that attempt to explain the transit signal as originating from an eclipsing stellar binary. Precise Doppler monitoring also leads to a tentative mass measurement of 2.09 ± 0.56 M⊕. The host star proximity, brightness (V = 12.19 mag, K = 7.92 mag), low stellar activity, and the system\u27s short orbital period make this planet an attractive target for detailed characterization, including precise mass measurement, looking for other objects in the system, and planet atmosphere characterization

The Growth of Black Holes and Their Host Spheroids in (Sub)mm-loud QSOs at High Redshift

We study the growth of black holes and stellar population in spheroids at high redshift using several (sub)mm-loud QSO samples. Applying the same criteria established in an earlier work, we find that, similar to IR QSOs at low redshift, the far-infrared emission of these (sub)mm-loud QSOs mainly originates from dust heated by starbursts. By combining low-z IR QSOs and high-z (sub)mm-loud QSOs, we find a trend that the star formation rate (\Mstardot) increases with the accretion rate (\Mdot). We compare the values of \Mstardot/\Mdot for submm emitting galaxies (SMGs), far-infrared ultraluminous/hyperluminous QSOs and typical QSOs, and construct a likely evolution scenario for these objects. The (sub)mm-loud QSO transition phase has both high \Mdot and \Mstardot and hence is important for establishing the correlation between the masses of black holes and spheroids.Comment: 19 pages,3 figures,submitted to Chin. J. Astron. Astrophys. This paper was first prepared for publication on August 10th, 200

Generation of photovoltage in graphene on a femtosecond time scale through efficient carrier heating

Graphene is a promising material for ultrafast and broadband photodetection. Earlier studies addressed the general operation of graphene-based photo-thermoelectric devices, and the switching speed, which is limited by the charge carrier cooling time, on the order of picoseconds. However, the generation of the photovoltage could occur at a much faster time scale, as it is associated with the carrier heating time. Here, we measure the photovoltage generation time and find it to be faster than 50 femtoseconds. As a proof-of-principle application of this ultrafast photodetector, we use graphene to directly measure, electrically, the pulse duration of a sub-50 femtosecond laser pulse. The observation that carrier heating is ultrafast suggests that energy from absorbed photons can be efficiently transferred to carrier heat. To study this, we examine the spectral response and find a constant spectral responsivity between 500 and 1500 nm. This is consistent with efficient electron heating. These results are promising for ultrafast femtosecond and broadband photodetector applications.Comment: 6 pages, 4 figure

Facilitating the analysis of a UK national blood service supply chain using distributed simulation

In an attempt to investigate blood unit ordering policies, researchers have created a discrete-event model of the UK National Blood Service (NBS) supply chain in the Southampton area of the UK. The model has been created using Simul8, a commercial-off-the-shelf discrete-event simulation package (CSP). However, as more hospitals were added to the model, it was discovered that the length of time needed to perform a single simulation severely increased. It has been claimed that distributed simulation, a technique that uses the resources of many computers to execute a simulation model, can reduce simulation runtime. Further, an emerging standardized approach exists that supports distributed simulation with CSPs. These CSP Interoperability (CSPI) standards are compatible with the IEEE 1516 standard The High Level Architecture, the defacto interoperability standard for distributed simulation. To investigate if distributed simulation can reduce the execution time of NBS supply chain simulation, this paper presents experiences of creating a distributed version of the CSP Simul8 according to the CSPI/HLA standards. It shows that the distributed version of the simulation does indeed run faster when the model reaches a certain size. Further, we argue that understanding the relationship of model features is key to performance. This is illustrated by experimentation with two different protocols implementations (using Time Advance Request (TAR) and Next Event Request (NER)). Our contribution is therefore the demonstration that distributed simulation is a useful technique in the timely execution of supply chains of this type and that careful analysis of model features can further increase performance

A Catalog of Luminous Infrared Galaxies in the IRAS Survey and the Second Data Release of the SDSS

We select the Luminous Infrared Galaxies by cross-correlating the Faint Source Catalogue (FSC) and Point Source Catalogue (PSC) of the IRAS Survey with the Second Data Release of the SDSS for studying their infrared and optical properties. The total number of our sample is 1267 for FSC and 427 for PSC by using 2$\sigma$ significance level cross-section. The "likelihood ratio" method is used to estimate the sample's reliability and for a more reliable subsample (908 for FSC and 356 for PSC) selection. Then a Catalog with both the infrared, optical and radio informations is presented and will be used in further works. Some statistical results show that the Luminous Infrared Galaxies are quite different from the Ultra-Luminous Infrared Galaxies. The AGN fractions of galaxies with different infrared luminosities and the radio to infrared correlations are consist with previous studies.Comment: 15 pages, 11 figures. Accepted by ChJAA. Reference adde