An Instruction to Accelerate Software Caches

In this paper we propose an instruction to accelerate software caches. While DMAs are very efficient for predictable data sets that can be fetched before they are needed, they introduce a large latency overhead for computations with unpredictable access behavior. Software caches are advantageous when the data set is not predictable but exhibits locality. However, software caches also incur a large overhead. Because the main overhead is in the access function, we propose an instruction that replaces the look-up function of the software cache. This instruction is evaluated using the Multidimensional Software Cache and two multimedia kernels, GLCM and H.264 Motion Compensation. The results show that the proposed instruction accelerates the software cache access time by a factor of 2.6. This improvement translates to a 2.1 speedup for GLCM and 1.28 for MC, when compared with the IBM software cache

Suppression of electron-electron repulsion and superconductivity in Ultra Small Carbon Nanotubes

Recently, ultra-small-diameter Single Wall Nano Tubes with diameter of $\sim 0.4 nm$ have been produced and many unusual properties were observed, such as superconductivity, leading to a transition temperature $T_c\sim 15^oK$, much larger than that observed in the bundles of larger diameter tubes. By a comparison between two different approaches, we discuss the issue whether a superconducting behavior in these carbon nanotubes can arise by a purely electronic mechanism. The first approach is based on the Luttinger Model while the second one, which emphasizes the role of the lattice and short range interaction, is developed starting from the Hubbard Hamiltonian. By using the latter model we predict a transition temperature of the same order of magnitude as the measured one.Comment: 7 pages, 3 figures, to appear in J. Phys.-Cond. Ma

The detached dust shells of AQ And, U Ant, and TT Cyg

Detached circumstellar dust shells are detected around three carbon variables using Herschel-PACS. Two of them are already known on the basis of their thermal CO emission and two are visible as extensions in IRAS imaging data. By model fits to the new data sets, physical sizes, expansion timescales, dust temperatures, and more are deduced. A comparison with existing molecular CO material shows a high degree of correlation for TT Cyg and U Ant but a few distinct differences with other observables are also found.Comment: Letter accepted for publication on the A&A Herschel Special Issu

Stabilizing single atom contacts by molecular bridge formation

Gold-molecule-gold junctions can be formed by carefully breaking a gold wire in a solution containing dithiolated molecules. Surprisingly, there is little understanding on the mechanical details of the bridge formation process and specifically on the role that the dithiol molecules play themselves. We propose that alkanedithiol molecules have already formed bridges between the gold electrodes before the atomic gold-gold junction is broken. This leads to stabilization of the single atomic gold junction, as observed experimentally. Our data can be understood within a simple spring model.Comment: 14 pages, 3 figures, 1 tabl

MesonNet 2014 International Workshop. Mini-proceedings

The MesonNet International Workshop was held in the Laboratori Nazionali di Frascati from September the 29th to October the 1st, 2014, being the concluding meeting of the MesonNet research network within EU HadronPhysics3 project. MesonNet is a research network focused on light meson physics gathering experimentalist and theoreticians from Europe and abroad. An overview of the research projects related to the scope of the network is presented in these mini-proceedings

Amerindian Helicobacter pylori Strains Go Extinct, as European Strains Expand Their Host Range

We studied the diversity of bacteria and host in the H. pylori-human model. The human indigenous bacterium H. pylori diverged along with humans, into African, European, Asian and Amerindian groups. Of these, Amerindians have the least genetic diversity. Since niche diversity widens the sets of resources for colonizing species, we predicted that the Amerindian H. pylori strains would be the least diverse. We analyzed the multilocus sequence (7 housekeeping genes) of 131 strains: 19 cultured from Africans, 36 from Spanish, 11 from Koreans, 43 from Amerindians and 22 from South American Mestizos. We found that all strains that had been cultured from Africans were African strains (hpAfrica1), all from Spanish were European (hpEurope) and all from Koreans were hspEAsia but that Amerindians and Mestizos carried mixed strains: hspAmerind and hpEurope strains had been cultured from Amerindians and hpEurope and hpAfrica1 were cultured from Mestizos. The least genetically diverse H. pylori strains were hspAmerind. Strains hpEurope were the most diverse and showed remarkable multilocus sequence mosaicism (indicating recombination). The lower genetic structure in hpEurope strains is consistent with colonization of a diversity of hosts. If diversity is important for the success of H. pylori, then the low diversity of Amerindian strains might be linked to their apparent tendency to disappear. This suggests that Amerindian strains may lack the needed diversity to survive the diversity brought by non-Amerindian hosts

MesonNet 2014 International Workshop. Mini-proceedings

The MesonNet International Workshop was held in the Laboratori Nazionali di Frascati from September the 29th to October the 1st, 2014, being the concluding meeting of the MesonNet research network within EU HadronPhysics3 project. MesonNet is a research network focused on light meson physics gathering experimentalist and theoreticians from Europe and abroad. An overview of the research projects related to the scope of the network is presented in these mini-proceedings.Comment: 93 pages, 12 figures, MesonNet 2014 International Workshop, 29/9 - 1/10 Frascati LNF INF

Chronostratigraphic Framework for the IODP Expedition 318 Cores from the Wilkes Land Margin: Constraints for Paleoceanographic Reconstruction

[1] The Integrated Ocean Drilling Program Expedition 318 to the Wilkes Land margin of Antarctica recovered a sedimentary succession ranging in age from lower Eocene to the Holocene. Excellent stratigraphic control is key to understanding the timing of paleoceanographic events through critical climate intervals. Drill sites recovered the lower and middle Eocene, nearly the entire Oligocene, the Miocene from about 17 Ma, the entire Pliocene and much of the Pleistocene. The paleomagnetic properties are generally suitable for magnetostratigraphic interpretation, with well‐behaved demagnetization diagrams, uniform distribution of declinations, and a clear separation into two inclination modes. Although the sequences were discontinuously recovered with many gaps due to coring, and there are hiatuses from sedimentary and tectonic processes, the magnetostratigraphic patterns are in general readily interpretable. Our interpretations are integrated with the diatom, radiolarian, calcareous nannofossils and dinoflagellate cyst (dinocyst) biostratigraphy. The magnetostratigraphy significantly improves the resolution of the chronostratigraphy, particularly in intervals with poor biostratigraphic control. However, Southern Ocean records with reliable magnetostratigraphies are notably scarce, and the data reported here provide an opportunity for improved calibration of the biostratigraphic records. In particular, we provide a rare magnetostratigraphic calibration for dinocyst biostratigraphy in the Paleogene and a substantially improved diatom calibration for the Pliocene. This paper presents the stratigraphic framework for future paleoceanographic proxy records which are being developed for the Wilkes Land margin cores. It further provides tight constraints on the duration of regional hiatuses inferred from seismic surveys of the region

Relative Abundance of Transcripts (RATs):Identifying differential isoform abundance from RNA-seq [version 1; referees: 1 approved, 2 approved with reservations]

The biological importance of changes in RNA expression is reflected by the wide variety of tools available to characterise these changes from RNA-seq data. Several tools exist for detecting differential transcript isoform usage (DTU) from aligned or assembled RNA-seq data, but few exist for DTU detection from alignment-free RNA-seq quantifications. We present the RATs, an R package that identifies DTU transcriptome-wide directly from transcript abundance estimates. RATs is unique in applying bootstrapping to estimate the reliability of detected DTU events and shows good performance at all replication levels (median false positive fraction < 0.05). We compare RATs to two existing DTU tools, DRIM-Seq & SUPPA2, using two publicly available simulated RNA-seq datasets and a published human RNA-seq dataset, in which 248 genes have been previously identified as displaying significant DTU. RATs with default threshold values on the simulated Human data has a sensitivity of 0.55, a Matthews correlation coefficient of 0.71 and a false discovery rate (FDR) of 0.04, outperforming both other tools. Applying the same thresholds for SUPPA2 results in a higher sensitivity (0.61) but poorer FDR performance (0.33). RATs and DRIM-seq use different methods for measuring DTU effect-sizes complicating the comparison of results between these tools, however, for a likelihood-ratio threshold of 30, DRIM-Seq has similar FDR performance to RATs (0.06), but worse sensitivity (0.47). These differences persist for the simulated drosophila dataset. On the published human RNA-seq dataset the greatest agreement between the tools tested is 53%, observed between RATs and SUPPA2. The bootstrapping quality filter in RATs is responsible for removing the majority of DTU events called by SUPPA2 that are not reported by RATs. All methods, including the previously published qRT-PCR of three of the 248 detected DTU events, were found to be sensitive to annotation differences between Ensembl v60 and v87