Simple modification of a protein database for mass spectral identification of N-linked glycopeptides

We describe an algorithm which modifies a protein database such that during a database search deamidation is limited to asparagines strictly contained within the N-glycosylation consensus sequence. The modified database was evaluated using a dataset created from the shotgun proteomic analysis of N-linked glycopeptides from human blood serum. We demonstrate that the application of the modified database eliminates incorrect glycopeptide assignments, reduces the peptide false-discovery rate, and eliminates the need for manual validation of glycopeptide identifications.     

All-optical measurement-based quantum-information processing in quantum dots

Parity measurements on qubits can generate the entanglement resource necessary for scalable quantum computation. Here we describe a method for fast optical parity measurements on electron spin qubits within coupled quantum dots. The measurement scheme, which can be realized with existing technology, consists of the optical excitation of excitonic states followed by monitored relaxation. Conditional on the observation of a photon, the system is projected into the odd/even-parity subspaces. Our model incorporates all the primary sources of error, including detector inefficiency, effects of spatial separation and nonresonance of the dots, and also unwanted excitations. Through an analytical treatment we establish that the scheme is robust to such effects. Two applications are presented: a realization of a controlled-NOT gate, and a technique for growing large scale graph states.     

Further exploration of antimicrobial ketodihydronicotinic acid derivatives by multiple parallel syntheses

A synthetic reexamination of a series of ketodihydronicotinic acid class antibacterial agents was undertaken in an attempt to improve their therapeutic potential. A convenient new synthesis was developed involving hetero Diels-Alder chemistry producing 74 new analogs in a multiple parallel synthetic manner and these were examined in vitro for their antimicrobial potential. Several compounds demonstrated significant broad-spectrum activity against clinically derived bacterial strains but previously known 1-(2,4-difluorophenyl)-6-(4-dimethylaminophenyl)-4-pyridone-3-carboxylic acid (7) remained the most potent compound in this class. Cross-resistance with ciprofloxacin supported a commonality of mode of action. Permiabilization of Escherichia coli cells by polymyxin B significantly enhanced potency with these agents suggesting that poor cellular uptake was primarily responsible for the disappointing activity against bacteria that some of the analogs exhibited.     

Influence of 120 MeV Si9+ ion irradiation on ZnTe semiconductor thin films

ABSTRACT

ZnTe (Zinc Telluride) is a potential semiconducting material for many optoelectronic devices like solar cells and back contact material for CdTe-based solar cells. In the present study, ZnTe thin films were prepared by thermal evaporation technique and then irradiated with 120?MeV Si⁹⁺ ions at different fluences. These films are characterized by X-ray diffraction (XRD), scanning electron microscopy (SEM) and UV–Visible spectroscopy techniques. XRD study confirms increased crystallinity and grain growth for post-irradiated ZnTe thin films for fluences, up to 1?×?10¹¹ ions cm^?2. However, the grain size and crystallinity decreased for higher fluence-exposed samples. SEM images confirm the observed structural properties. Modification of the surface morphology of the film due to the ion irradiation with different fluences is studied. Optical band gap of film is decreased from 2.31?eV (pristine) to 2.17?eV after irradiation of Si⁹⁺ ions.     

Analytic approximations of queues with lightly- and heavily-correlated autoregressive service times

We consider a single-server queueing system. The arrival process is modelled as a Poisson process while the service times of the consecutive customers constitute a sequence of autoregressive random variables. Our interest into autoregressive service times comes from the need to capture temporal correlation of the channel conditions on wireless network links. If these fluctuations are slow in comparison with the transmission times of the packets, transmission times of consecutive packets are correlated. Such correlation needs to be taken into account for an accurate performance assessment. By means of a transform approach, we obtain a functional equation for the joint transform of the queue content and the current service time at departure epochs in steady state. To the best of our knowledge, this functional equation cannot be solved by exact mathematical techniques, despite its simplicity. However, by means of a Taylor series expansion in the parameter of the autoregressive process, a “light-correlation” approximation is obtained for performance measures such as moments of the queue content and packet delay. We illustrate our approach by some numerical examples, thereby assessing the accuracy of our approximations by simulation. For the heavy correlation case, we give differential equation approximations based on the time-scale separation technique, and present numerical examples in support of this approximation.