Hierarchical and High-Girth QC LDPC Codes

We present a general approach to designing capacity-approaching high-girth low-density parity-check (LDPC) codes that are friendly to hardware implementation. Our methodology starts by defining a new class of "hierarchical" quasi-cyclic (HQC) LDPC codes that generalizes the structure of quasi-cyclic (QC) LDPC codes. Whereas the parity check matrices of QC LDPC codes are composed of circulant sub-matrices, those of HQC LDPC codes are composed of a hierarchy of circulant sub-matrices that are in turn constructed from circulant sub-matrices, and so on, through some number of levels. We show how to map any class of codes defined using a protograph into a family of HQC LDPC codes. Next, we present a girth-maximizing algorithm that optimizes the degrees of freedom within the family of codes to yield a high-girth HQC LDPC code. Finally, we discuss how certain characteristics of a code protograph will lead to inevitable short cycles, and show that these short cycles can be eliminated using a "squashing" procedure that results in a high-girth QC LDPC code, although not a hierarchical one. We illustrate our approach with designed examples of girth-10 QC LDPC codes obtained from protographs of one-sided spatially-coupled codes.Comment: Submitted to IEEE Transactions on Information THeor

Gated rotation mechanism of site-specific recombination by ϕC31 integrase

Integrases, such as that of the Streptomyces temperate bacteriophage ϕC31, promote site-specific recombination between DNA sequences in the bacteriophage and bacterial genomes to integrate or excise the phage DNA. ϕC31 integrase belongs to the serine recombinase family, a large group of structurally related enzymes with diverse biological functions. It has been proposed that serine integrases use a “subunit rotation” mechanism to exchange DNA strands after double-strand DNA cleavage at the two recombining att sites, and that many rounds of subunit rotation can occur before the strands are religated. We have analyzed the mechanism of ϕC31 integrase-mediated recombination in a topologically constrained experimental system using hybrid “phes” recombination sites, each of which comprises a ϕC31 att site positioned adjacent to a regulatory sequence recognized by Tn3 resolvase. The topologies of reaction products from circular substrates containing two phes sites support a right-handed subunit rotation mechanism for catalysis of both integrative and excisive recombination. Strand exchange usually terminates after a single round of 180° rotation. However, multiple processive “360° rotation” rounds of strand exchange can be observed, if the recombining sites have nonidentical base pairs at their centers. We propose that a regulatory “gating” mechanism normally blocks multiple rounds of strand exchange and triggers product release after a single round

Giant Molecular Clouds are More Concentrated to Spiral Arms than Smaller Clouds

From our catalog of Milky Way molecular clouds, created using a temperature thresholding algorithm on the Bell Laboratories 13CO Survey, we have extracted two subsets:(1) Giant Molecular Clouds (GMCs), clouds that are definitely larger than 10^5 solar masses, even if they are at their `near distance', and (2) clouds that are definitely smaller than 10^5 solar masses, even if they are at their `far distance'. The positions and velocities of these clouds are compared to the loci of spiral arms in (l, v) space. The velocity separation of each cloud from the nearest spiral arm is introduced as a `concentration statistic'. Almost all of the GMCs are found near spiral arms. The density of smaller clouds is enhanced near spiral arms, but some clouds (~10%) are unassociated with any spiral arm. The median velocity separation between a GMC and the nearest spiral arm is 3.4+-0.6 km/s, whereas the median separation between smaller clouds and the nearest spiral arm is 5.5+-0.2 km/s.Comment: 11 pages, 3 figure

Extended X-ray emission around four 3C quasars at 0.55<z<0.75 observed with Chandra

We report on the detection of a soft spatially-extended component of X-ray emission around four intermediate-redshift 3C quasars observed with Chandra: 3C254, 3C263, 3C275.1 and 3C281. The bolometric luminosity of this emission ranges over 0.3-1.6 times 10^{44}erg/s, and extends to lengthscales of over 350 kpc at the redshift of the quasar. The X-rays are most likely thermal emission from the intracluster medium of a cluster of galaxies around each quasar, which provides the working surface for the powerful radio lobes. Some X-ray emission is also seen to be associated with the radio plasma.Comment: 8 pages, 4 panelled figures, MNRAS in pres

Large-Scale CO Maps of the Lupus Molecular Cloud Complex

Fully sampled degree-scale maps of the 13CO 2-1 and CO 4-3 transitions toward three members of the Lupus Molecular Cloud Complex - Lupus I, III, and IV - trace the column density and temperature of the molecular gas. Comparison with IR extinction maps from the c2d project requires most of the gas to have a temperature of 8-10 K. Estimates of the cloud mass from 13CO emission are roughly consistent with most previous estimates, while the line widths are higher, around 2 km/s. CO 4-3 emission is found throughout Lupus I, indicating widespread dense gas, and toward Lupus III and IV. Enhanced line widths at the NW end and along the edge of the B228 ridge in Lupus I, and a coherent velocity gradient across the ridge, are consistent with interaction between the molecular cloud and an expanding HI shell from the Upper-Scorpius subgroup of the Sco-Cen OB Association. Lupus III is dominated by the effects of two HAe/Be stars, and shows no sign of external influence. Slightly warmer gas around the core of Lupus IV and a low line width suggest heating by the Upper-Centaurus-Lupus subgroup of Sco-Cen, without the effects of an HI shell.Comment: 54 pages, 27 figures, 5 tables. To appear in ApJS. Preprint also available (with full-size figures) from http://www.astro.ex.ac.uk/people/nfht/publications.html Datacubes available from http://www.astro.ex.ac.uk/people/nfht/resources.htm

Twelve tips for teaching brief motivational interviewing to medical students

Background: Shifting from paternalistic to patient-centred doctor-patient relationships has seen a growing number of medical programs incorporate brief motivational interviewing training in their curriculum. Some medical educators, however, are unsure of precisely what, when, and how to incorporate such training. Aims: This article provides educators with 12 tips for teaching brief motivational interviewing to medical students, premised on evidence-based pedagogy. Methods: Tips were drawn from the literature and authors’ own experiences. Results: The 12 tips are: (1) Set clear learning objectives, (2) Select experienced educators, (3) Provide theoretical perspectives, (4) Share the evidence base, (5) Outline the “spirit”, principles, and sequence, (6) Show students what it looks like, (7) Give students a scaffold to follow, (8) Provide opportunities for skill practice, (9) Involve clinical students in teaching, (10) Use varied formative and summative assessments, (11) Integrate and maintain, and (12) Reflect and evaluate. Conclusions: We describe what to include and why, and outline when and how to teach the essential components of brief motivational interviewing knowledge and skills in a medical curriculum