Childhood loneliness as a predictor of adolescent depressive symptoms: an 8-year longitudinal study

Childhood loneliness is characterised by children’s perceived dissatisfaction with aspects of their social relationships. This 8-year prospective study investigates whether loneliness in childhood predicts depressive symptoms in adolescence, controlling for early childhood indicators of emotional problems and a sociometric measure of peer social preference. 296 children were tested in the infant years of primary school (T1 5 years of age), in the upper primary school (T2 9 years of age) and in secondary school (T3 13 years of age). At T1, children completed the loneliness assessment and sociometric interview. Their teachers completed externalisation and internalisation rating scales for each child. At T2, children completed a loneliness assessment, a measure of depressive symptoms, and the sociometric interview. At T3, children completed the depressive symptom assessment. An SEM analysis showed that depressive symptoms in early adolescence (age 13) were predicted by reports of depressive symptoms at age 8, which were themselves predicted by internalisation in the infant school (5 years). The interactive effect of loneliness at 5 and 9, indicative of prolonged loneliness in childhood, also predicted depressive symptoms at age 13. Parent and peer-related loneliness at age 5 and 9, peer acceptance variables, and duration of parent loneliness did not predict depression. Our results suggest that enduring peer-related loneliness during childhood constitutes an interpersonal stressor that predisposes children to adolescent depressive symptoms. Possible mediators are discussed

Deconstructing the galaxy stellar mass function with UKIDSS and CANDELS: the impact of colour, structure and environment

We combine photometry from the Ultra Deep Survey (UDS), Cosmic Assembly Near-infrared Deep Extragalactic Legacy Survey (CANDELS) UDS and CANDELS the Great Observatories Origins Deep Survey-South (GOODS-S) surveys to construct the galaxy stellar mass function probing both the low- and high-mass end accurately in the redshift range 0.326.0), affording us robust measures of structural parameters. We construct stellar mass functions for the entire sample as parametrized by the Schechter function, and find that there is a decline in the values of ϕ and of α with higher redshifts, and a nearly constant M* up to z∼3. We divide the galaxy stellar mass function by colour, structure, and environment and explore the links between environmental overdensity, morphology, and the quenching of star formation. We find that a double Schechter function describes galaxies with high Sérsic index (n>2.5), similar to galaxies which are red or passive. The low-mass end of the n>2.5 stellar mass function is dominated by blue galaxies, whereas the high-mass end is dominated by red galaxies. This shows that there is a possible link between morphological evolution and star formation quenching in high mass galaxies, which is not seen in lower mass systems. This in turn suggests that there are strong mass-dependent quenching mechanisms. In addition, we find that the number density of high-mass systems is elevated in dense environments, suggesting that an environmental process is building up massive galaxies quicker in over densities than in lower densitie

Deconstructing the Galaxy Stellar Mass Function with UKIDSS and CANDELS: the Impact of Colour, Structure and Environment

We combine photometry from the UDS, and CANDELS UDS and CANDELS GOODS-S surveys to construct the galaxy stellar mass function probing both the low and high mass end accurately in the redshift range 0.3<z<3. The advantages of using a homogeneous concatenation of these datasets include meaningful measures of environment in the UDS, due to its large area (0.88 deg^2), and the high resolution deep imaging in CANDELS (H_160 > 26.0), affording us robust measures of structural parameters. We construct stellar mass functions for the entire sample as parameterised by the Schechter function, and find that there is a decline in the values of phi and of alpha with higher redshifts, and a nearly constant M* up to z~3. We divide the galaxy stellar mass function by colour, structure, and environment and explore the links between environmental over-density, morphology, and the quenching of star formation. We find that a double Schechter function describes galaxies with high Sersic index (n>2.5), similar to galaxies which are red or passive. The low-mass end of the n>2.5 stellar mass function is dominated by blue galaxies, whereas the high-mass end is dominated by red galaxies. This hints that possible links between morphological evolution and star formation quenching are only present in high-mass galaxies. This is turn suggests that there are strong mass dependent quenching mechanisms. In addition, we find that the number density of high mass systems is elevated in dense environments, suggesting that an environmental process is building up massive galaxies quicker in over densities than in lower densities.Comment: 26 pages, 14 figures, Accepted for publication in MNRA

Virgo's Intracluster Globular Clusters as Seen by the Advanced Camera for Surveys

We report the discovery of 4 candidate intracluster globular clusters (IGCs) in a single deep HST ACS field of the Virgo Cluster. We show that each cluster is roughly spherical, has a magnitude near the peak of the Virgo globular cluster luminosity function, has a radial profile that is best-fit by a King model, and is surrounded by an excess of point sources which have the colors and magnitudes of cluster red giant stars. Despite the fact that two of our IGC candidates have integrated colors redder than the mean of the M87 globular cluster system, we propose that all of the objects are metal-poor with [M/H] < -1. We show that the tidal radii of our intracluster globulars are all larger than the mean for Milky Way clusters, and suggest that the clusters have undergone less tidal stress than their Galactic counterparts. Finally, we normalize our globular cluster observations to the luminosity of intracluster stars, and derive a value of S_N ~ 6 for the specific frequency of Virgo intracluster globular clusters. We use these data to constrain the origins of Virgo's intracluster population, and suggest that globular clusters in our intracluster field have a different origin than globular clusters in the vicinity of M87. In particular, we argue that dwarf elliptical galaxies may be an important source of intracluster stars.Comment: 24 pages, 1 table, 5 figures, accepted for publication in Ap

Extended haplotype association study in Crohn’s disease identifies a novel, Ashkenazi Jewish-specific missense mutation in the NF-κB pathway gene, HEATR3

The Ashkenazi Jewish population has a several-fold higher prevalence of Crohn’s disease compared to non-Jewish European ancestry populations and has a unique genetic history. Haplotype association is critical to Crohn’s disease etiology in this population, most notably at NOD2, in which three causal, uncommon, and conditionally independent NOD2 variants reside on a shared background haplotype. We present an analysis of extended haplotypes which showed significantly greater association to Crohn’s disease in the Ashkenazi Jewish population compared to a non-Jewish population (145 haplotypes and no haplotypes with P-value < 10−3, respectively). Two haplotype regions, one each on chromosomes 16 and 21, conferred increased disease risk within established Crohn’s disease loci. We performed exome sequencing of 55 Ashkenazi Jewish individuals and follow-up genotyping focused on variants in these two regions. We observed Ashkenazi Jewish-specific nominal association at R755C in TRPM2 on chromosome 21. Within the chromosome 16 region, R642S of HEATR3 and rs9922362 of BRD7 showed genome-wide significance. Expression studies of HEATR3 demonstrated a positive role in NOD2-mediated NF-κB signaling. The BRD7 signal showed conditional dependence with only the downstream rare Crohn’s disease-causal variants in NOD2, but not with the background haplotype; this elaborates NOD2 as a key illustration of synthetic association

Three-Dimensional Reconstruction of the Giant Mimivirus Particle with an X-Ray Free-Electron Laser

Citation: Ekeberg, T., Svenda, M., Abergel, C., Maia, F., Seltzer, V., Claverie, J. M., . . . Hajdu, J. (2015). Three-Dimensional Reconstruction of the Giant Mimivirus Particle with an X-Ray Free-Electron Laser. Physical Review Letters, 114(9), 6. doi:10.1103/PhysRevLett.114.098102We present a proof-of-concept three-dimensional reconstruction of the giant mimivirus particle from experimentally measured diffraction patterns from an x-ray free-electron laser. Three-dimensional imaging requires the assembly of many two-dimensional patterns into an internally consistent Fourier volume. Since each particle is randomly oriented when exposed to the x-ray pulse, relative orientations have to be retrieved from the diffraction data alone. We achieve this with a modified version of the expand, maximize and compress algorithm and validate our result using new methods.Additional Authors: Andersson, I.;Loh, N. D.;Martin, A. V.;Chapman, H.;Bostedt, C.;Bozek, J. D.;Ferguson, K. R.;Krzywinski, J.;Epp, S. W.;Rolles, D.;Rudenko, A.;Hartmann, R.;Kimmel, N.;Hajdu, J

Three-dimensional reconstruction of the giant mimivirus particle with an X-ray free-electron laser

10.1103/PhysRevLett.114.098102Physical Review Letters114909810

Effector CD4+ T Cell Expression Signatures and Immune-Mediated Disease Associated Genes

Genome-wide association studies (GWAS) in immune-mediated diseases have identified over 150 associated genomic loci. Many of these loci play a role in T cell responses, and regulation of T cell differentiation plays a critical role in immune-mediated diseases; however, the relationship between implicated disease loci and T cell differentiation is incompletely understood. To further address this relationship, we examined differential gene expression in naïve human CD4+ T cells, as well as in in vitro differentiated Th1, memory Th17-negative and Th17-enriched CD4+ T cells subsets using microarray and RNASeq. We observed a marked enrichment for increased expression in memory CD4+ compared to naïve CD4+ T cells of genes contained among immune–mediated disease loci. Within memory T cells, expression of disease-associated genes was typically increased in Th17-enriched compared to Th17-negative cells. Utilizing RNASeq and promoter methylation studies, we identified a differential regulation pattern for genes solely expressed in Th17 cells (IL17A and CCL20) compared to genes expressed in both Th17 and Th1 cells (IL23R and IL12RB2), where high levels of promoter methylation are correlated to near zero RNASeq levels for IL17A and CCL20. These findings have implications for human Th17 celI plasticity and for the regulation of Th17-Th1 expression signatures. Importantly, utilizing RNASeq we found an abundant isoform of IL23R terminating before the transmembrane domain that was enriched in Th17 cells. In addition to molecular resolution, we find that RNASeq provides significantly improved power to define differential gene expression and identify alternative gene variants relative to microarray analysis. The comprehensive integration of differential gene expression between cell subsets with disease-association signals, and functional pathways provides insight into disease pathogenesis

A novel, fast, HMM-with-Duration implementation – for application with a new, pattern recognition informed, nanopore detector

<p>Abstract</p> <p>Background</p> <p>Hidden Markov Models (HMMs) provide an excellent means for structure identification and feature extraction on stochastic sequential data. An HMM-with-Duration (HMMwD) is an HMM that can also exactly model the hidden-label length (recurrence) distributions – while the regular HMM will impose a best-fit geometric distribution in its modeling/representation.</p> <p>Results</p> <p>A Novel, Fast, HMM-with-Duration (HMMwD) Implementation is presented, and experimental results are shown that demonstrate its performance on two-state synthetic data designed to model Nanopore Detector Data. The HMMwD experimental results are compared to (i) the ideal model and to (ii) the conventional HMM. Its accuracy is clearly an improvement over the standard HMM, and matches that of the ideal solution in many cases where the standard HMM does not. Computationally, the new HMMwD has all the speed advantages of the conventional (simpler) HMM implementation. In preliminary work shown here, HMM feature extraction is then used to establish the first pattern recognition-informed (PRI) sampling control of a Nanopore Detector Device (on a "live" data-stream).</p> <p>Conclusion</p> <p>The improved accuracy of the new HMMwD implementation, at the same order of computational cost as the standard HMM, is an important augmentation for applications in gene structure identification and channel current analysis, especially PRI sampling control, for example, where speed is essential. The PRI experiment was designed to inherit the high accuracy of the well characterized and distinctive blockades of the DNA hairpin molecules used as controls (or blockade "test-probes"). For this test set, the accuracy inherited is 99.9%.</p