Note on Comparability of MicroCog Test Forms

This study investigated the differences between the Standard and Short forms of MicroCog by comparing Domain scores for a clinical sample of 351 substance abusers which gave a significant difference between scores on the Spatial Processing Domain. Implications for research and clinical use are discussed

Characterizing the Coherence of Bose-Einstein Condensates and Atom Lasers

For a dilute, interacting Bose gas of magnetically-trapped atoms at temperatures below the critical temperature T 0 for Bose-Einstein condensation, we determine the second-order coherence function g (2)(r 1, r 2) within the framework of a finite-temperature quantum field theory. We show that, because of the different spatial distributions of condensate and thermal atoms in the trap, g (2)(r 1, r 2) does not depend on |r 1 - r 2| alone. This means that the experimental determinations of g (2) reported to date give only its spatial average. Such an average may underestimate the degree of coherence attainable in an atom laser by judicious engineering of the output coupler

Analysis of wheat SAGE tags reveals evidence for widespread antisense transcription

BACKGROUND: Serial Analysis of Gene Expression (SAGE) is a powerful tool for genome-wide transcription studies. Unlike microarrays, it has the ability to detect novel forms of RNA such as alternatively spliced and antisense transcripts, without the need for prior knowledge of their existence. One limitation of using SAGE on an organism with a complex genome and lacking detailed sequence information, such as the hexaploid bread wheat Triticum aestivum, is accurate annotation of the tags generated. Without accurate annotation it is impossible to fully understand the dynamic processes involved in such complex polyploid organisms. Hence we have developed and utilised novel procedures to characterise, in detail, SAGE tags generated from the whole grain transcriptome of hexaploid wheat. RESULTS: Examination of 71,930 Long SAGE tags generated from six libraries derived from two wheat genotypes grown under two different conditions suggested that SAGE is a reliable and reproducible technique for use in studying the hexaploid wheat transcriptome. However, our results also showed that in poorly annotated and/or poorly sequenced genomes, such as hexaploid wheat, considerably more information can be extracted from SAGE data by carrying out a systematic analysis of both perfect and "fuzzy" (partially matched) tags. This detailed analysis of the SAGE data shows first that while there is evidence of alternative polyadenylation this appears to occur exclusively within the 3' untranslated regions. Secondly, we found no strong evidence for widespread alternative splicing in the developing wheat grain transcriptome. However, analysis of our SAGE data shows that antisense transcripts are probably widespread within the transcriptome and appear to be derived from numerous locations within the genome. Examination of antisense transcripts showing sequence similarity to the Puroindoline a and Puroindoline b genes suggests that such antisense transcripts might have a role in the regulation of gene expression. CONCLUSION: Our results indicate that the detailed analysis of transcriptome data, such as SAGE tags, is essential to understand fully the factors that regulate gene expression and that such analysis of the wheat grain transcriptome reveals that antisense transcripts maybe widespread and hence probably play a significant role in the regulation of gene expression during grain development

Cold- and light-induced changes in the transcriptome of wheat leading to phase transition from vegetative to reproductive growth

<p>Abstract</p> <p>Background</p> <p>For plants to flower at the appropriate time, they must be able to perceive and respond to various internal and external cues. Wheat is generally a long-day plant that will go through phase transition from vegetative to floral growth as days are lengthening in spring and early summer. In addition to this response to day-length, wheat cultivars may be classified as either winter or spring varieties depending on whether they require to be exposed to an extended period of cold in order to become competent to flower. Using a growth regime to mimic the conditions that occur during a typical winter in Britain, and a microarray approach to determine changes in gene expression over time, we have surveyed the genes of the major pathways involved in floral transition. We have paid particular attention to wheat orthologues and functional equivalents of genes involved in the phase transition in <it>Arabidopsis</it>. We also surveyed all the MADS-box genes that could be identified as such on the Affymetrix genechip wheat genome array.</p> <p>Results</p> <p>We observed novel responses of several genes thought to be of major importance in vernalisation-induced phase transition, and identified several MADS-box genes that might play an important role in the onset of flowering. In addition, we saw responses in genes of the Gibberellin pathway that would indicate that this pathway also has some role to play in phase transition.</p> <p>Conclusion</p> <p>Phase transition in wheat is more complex than previously reported, and there is evidence that day-length has an influence on genes that were once thought to respond exclusively to an extended period of cold.</p

Bogoliubov Approach to Superfluidity of Atoms in an Optical Lattice

We use the Bogoliubov theory of atoms in an optical lattice to study the approach to the Mott-insulator transition. We derive an explicit expression for the superfluid density based on the rigidity of the system under phase variations. This enables us to explore the connection between the quantum depletion of the condensate and the quasi-momentum distribution on the one hand and the superfluid fraction on the other. The approach to the insulator phase may be characterized through the filling of the band by quantum depletion, which should be directly observable via the matter–wave interference patterns. We complement these findings by self-consistent Hartree–Fock–Bogoliubov–Popov calculations for one-dimensional lattices, including the effects of a parabolic trapping potential