Design of nanophotonic circuits for autonomous subsystem quantum error correction

We reapply our approach to designing nanophotonic quantum memories to formulate an optical network that autonomously protects a single logical qubit against arbitrary single-qubit errors. Emulating the 9 qubit Bacon-Shor subsystem code, the network replaces the traditionally discrete syndrome measurement and correction steps by continuous, time-independent optical interactions and coherent feedback of unitarily processed optical fields.Comment: 12 pages, 4 figure

The effect on the Nusselt number of the non-linear axial temperature distribution of gas flows through commercial microtubes

This paper was presented at the 3rd Micro and Nano Flows Conference (MNF2011), which was held at the Makedonia Palace Hotel, Thessaloniki in Greece. The conference was organised by Brunel University and supported by the Italian Union of Thermofluiddynamics, Aristotle University of Thessaloniki, University of Thessaly, IPEM, the Process Intensification Network, the Institution of Mechanical Engineers, the Heat Transfer Society, HEXAG - the Heat Exchange Action Group, and the Energy Institute.The characteristics of nitrogen convective heat transfer through commercial stainless steel microtubes with inner diameter of 172 μm and 750 μm are investigated both experimentally and numerically. In this work is highlighted that the axial local gas bulk temperature distribution can present a strong nonlinearity along the flow direction especially for microtubes having a small inner diameter and a thick solid wall. It is also demonstrated that the trend of the experimental Nusselt numbers as a function of the Reynolds number can be considered in good agreement with the conventional correlations if the average bulk temperature is calculated by taking into account the axial non-linearity of the gas bulk temperature. This fact explains the low values of the Nusselt numbers obtained in the previous experimental works appeared in literature where the convective heat transfer for gas flows through microtubes has been investigated assuming the gas bulk temperature distribution between the inlet and the outlet of the microtube as linear without verifying this hypothesis.European Community's Seventh Framework Programme (ITN - FP7/2007-2013) under grant agreement no 215504

Assessing the performance of Internal Wall Insulation considering transient conditions

Recent research suggests that every insulation material undergoes failure in varying degrees of severity. Based on data derived from specified mould risk failure criteria, this study developed a novel equation to quantify the performance of insulation materials/systems following such transient conditions. Transient conditions performance (TCP) was quantified using the period after exceeding the risk criteria, the duration of exceedance and recovery time. The current formulation does not readily distinguish between materials based on their ability to cope with transient conditions. Further research was initiated to incorporate more diverse variables with which to expand the specificity of the TCP quantification

Assessing fungal risk criteria via simulated scenarios to address disparity between method and outcomes

Internal wall insulation is one of the most promising methods of improving the energy efficiency of buildings while maintaining their original facades and construction. However, porous materials or poor construction quality can allow moisture ingress, creating favourable conditions for mould development within building fabric. Currently, there is no established guidance on moisture criteria in the construction industry for the assessment of interstitial mould growth. Some studies have considered relative humidity (RH) criteria that account for the duration of exposure but potentially overestimate risk at interfaces. This study implemented more specific RH criteria, based not only on the duration of exposure but also on temperature and substrate material. Results demonstrated a dramatic decrease in predicted mould risk, with minimal risk to health or structural integrity, in comparison to the present more stringent standards

DNAscan2: a versatile, scalable, and user-friendly analysis pipeline for human next-generation sequencing data

SUMMARY: The current widespread adoption of next-generation sequencing (NGS) in all branches of basic research and clinical genetics fields means that users with highly variable informatics skills, computing facilities and application purposes need to process, analyse, and interpret NGS data. In this landscape, versatility, scalability, and user-friendliness are key characteristics for an NGS analysis software. We developed DNAscan2, a highly flexible, end-to-end pipeline for the analysis of NGS data, which (i) can be used for the detection of multiple variant types, including SNVs, small indels, transposable elements, short tandem repeats, and other large structural variants; (ii) covers all standard steps of NGS analysis, from quality control of raw data and genome alignment to variant calling, annotation, and generation of reports for the interpretation and prioritization of results; (iii) is highly adaptable as it can be deployed and run via either a graphic user interface for non-bioinformaticians and a command line tool for personal computer usage; (iv) is scalable as it can be executed in parallel as a Snakemake workflow, and; (v) is computationally efficient by minimizing RAM and CPU time requirements. AVAILABILITY AND IMPLEMENTATION: DNAscan2 is implemented in Python3 and is available at https://github.com/KHP-Informatics/DNAscanv2

Author Correction: A HML6 endogenous retrovirus on chromosome 3 is upregulated in amyotrophic lateral sclerosis motor cortex

There is increasing evidence that endogenous retroviruses (ERVs) play a significant role in central nervous system diseases, including amyotrophic lateral sclerosis (ALS). Studies of ALS have consistently identified retroviral enzyme reverse transcriptase activity in patients. Evidence indicates that ERVs are the cause of reverse transcriptase activity in ALS, but it is currently unclear whether this is due to a specific ERV locus or a family of ERVs. We employed a combination of bioinformatic methods to identify whether specific ERVs or ERV families are associated with ALS. Using the largest post-mortem RNA-sequence datasets available we selectively identified ERVs that closely resembled full-length proviruses. In the discovery dataset there was one ERV locus (HML6_3p21.31c) that showed significant increased expression in post-mortem motor cortex tissue after multiple-testing correction. Using six replication post-mortem datasets we found HML6_3p21.31c was consistently upregulated in ALS in motor cortex and cerebellum tissue. In addition, HML6_3p21.31c showed significant co-expression with cytokine binding and genes involved in EBV, HTLV-1 and HIV type-1 infections. There were no significant differences in ERV family expression between ALS and controls. Our results support the hypothesis that specific ERV loci are involved in ALS pathology

A HML6 endogenous retrovirus on chromosome 3 is upregulated in amyotrophic lateral sclerosis motor cortex.

There is increasing evidence that endogenous retroviruses (ERVs) play a significant role in central nervous system diseases, including amyotrophic lateral sclerosis (ALS). Studies of ALS have consistently identified retroviral enzyme reverse transcriptase activity in patients. Evidence indicates that ERVs are the cause of reverse transcriptase activity in ALS, but it is currently unclear whether this is due to a specific ERV locus or a family of ERVs. We employed a combination of bioinformatic methods to identify whether specific ERVs or ERV families are associated with ALS. Using the largest post-mortem RNA-sequence datasets available we selectively identified ERVs that closely resembled full-length proviruses. In the discovery dataset there was one ERV locus (HML6_3p21.31c) that showed significant increased expression in post-mortem motor cortex tissue after multiple-testing correction. Using six replication post-mortem datasets we found HML6_3p21.31c was consistently upregulated in ALS in motor cortex and cerebellum tissue. In addition, HML6_3p21.31c showed significant co-expression with cytokine binding and genes involved in EBV, HTLV-1 and HIV type-1 infections. There were no significant differences in ERV family expression between ALS and controls. Our results support the hypothesis that specific ERV loci are involved in ALS pathology