The 2011 Nucleic Acids Research Database Issue and the online Molecular Biology Database Collection

The current 18th Database Issue of Nucleic Acids Research features descriptions of 96 new and 83 updated online databases covering various areas of molecular biology. It includes two editorials, one that discusses COMBREX, a new exciting project aimed at figuring out the functions of the ‘conserved hypothetical’ proteins, and one concerning BioDBcore, a proposed description of the ‘minimal information about a biological database’. Papers from the members of the International Nucleotide Sequence Database collaboration (INSDC) describe each of the participating databases, DDBJ, ENA and GenBank, principles of data exchange within the collaboration, and the recently established Sequence Read Archive. A testament to the longevity of databases, this issue includes updates on the RNA modification database, Definition of Secondary Structure of Proteins (DSSP) and Homology-derived Secondary Structure of Proteins (HSSP) databases, which have not been featured here in >12 years. There is also a block of papers describing recent progress in protein structure databases, such as Protein DataBank (PDB), PDB in Europe (PDBe), CATH, SUPERFAMILY and others, as well as databases on protein structure modeling, protein–protein interactions and the organization of inter-protein contact sites. Other highlights include updates of the popular gene expression databases, GEO and ArrayExpress, several cancer gene databases and a detailed description of the UK PubMed Central project. The Nucleic Acids Research online Database Collection, available at: http://www.oxfordjournals.org/nar/database/a/, now lists 1330 carefully selected molecular biology databases. The full content of the Database Issue is freely available online at the Nucleic Acids Research web site (http://nar.oxfordjournals.org/)

Needle exchange services in Knowsley: An investigation into the needs and experiences of staff and service users

This work was commissioned by Knowsley Council to inform the development of needle exchange (NEX) services in Knowsley and to ensure that they meet the needs of people who inject drugs (PWID) locally. The views and experiences of both service users and staff from drug services and pharmacies offering needle exchange services in Knowsley were sought regarding the extent to which NEX are meeting the needs of PWID including their perceptions regarding the support available, NEX accessibility and service delivery. Findings are considered in the context of NICE guidelines on the optimal provision of needle and syringe programmes in England

Coherent Superposition States as Quantum Rulers

We explore the sensitivity of an interferometer based on a quantum circuit for coherent states. We show that its sensitivity is at the Heisenberg limit. Moreover we show that this arrangement can measure very small length intervals

Conditional quantum-state transformation at a beam splitter

Using conditional measurement on a beam splitter, we study the transformation of the quantum state of the signal mode within the concept of two-port non-unitary transformation. Allowing for arbitrary quantum states of both the input reference mode and the output reference mode on which the measurement is performed, we show that the non-unitary transformation operator can be given as an $s$-ordered operator product, where the value of $s$ is entirely determined by the absolute value of the beam splitter reflectance (or transmittance). The formalism generalizes previously obtained results that can be recovered by simple specification of the non-unitary transformation operator. As an application, we consider the generation of Schr\"odinger-cat-like states. An extension to mixed states and imperfect detection is outlined.Comment: 7 Postscript figures, using Late

High-temperature weak ferromagnetism on the verge of a metallic state: Impact of dilute Sr-doping on BaIrO3

The 5d-electron based BaIrO3 is a nonmetallic weak ferromagnet with a Curie temperature at Tc=175 K. Its largely extended orbitals generate strong electron-lattice coupling, and magnetism and electronic structure are thus critically linked to the lattice degree of freedom. Here we report results of our transport and magnetic study on slightly Sr doped BaIrO3. It is found that dilute Sr-doping drastically suppresses Tc, and instantaneously leads to a nonmetal-metal transition at high temperatures. All results highlight the instability of the ground state and the subtle relation between magnetic ordering and electron mobility. It is clear that BaIrO3 along with very few other systems represents a class of materials where the magnetic and transport properties can effectively be tuned by slight alterations in lattice parameters

A multicentre integration of a computer-led follow-up of prostate cancer is valid and safe

Background Prostate cancer (CaP) has a rising number of patients requiring routine follow up. In this study, we aimed to test a computer led follow up service for prostate cancer in two UK hospitals. The testing aimed to validate the computer Expert system in making clinical decisions according to the individual patient’s clinical need. The valid model should accurately identify patients with disease recurrence or treatment failure based on their blood test and clinical picture. Methods A clinical decision support system (CDSS) was developed from European (EAU) and national (NICE) guidelines along with knowledge acquired from Urologists. This model was then applied in two UK hospitals to review patients post CaP treatment. These patients’ data (n= 200) were then reviewed by two independent Urology consultants (blinded from the CDSS and other consultant’s rating) and the agreement was calculated by kappa statistics for validation. The second objective aimed to verify the system by estimating the system reliability. Results The two individual urology consultants identified 12 % & 15% of the patients to have potential disease progression and recommended their referral to the Urology care. The kappa coefficient for the agreement between the CDSS and the 2 consultants was 0.81 (p < 0.001) and 0.84 (p < 0.001). The agreement among both specialist was also high with k = 0.83 (p < 0.001). The system reliability was estimated on all cases and this demonstrated 100% repeatability of the decisions. Conclusion The computer led follow up is a valid model for providing safe follow up for prostate cancer