Soft Real Time Implementation of a Cognitive Radio Testbed for Frequency Hopping Primary Satisfying QoS Requirements

The Cognitive Radio (CR) is a promising technology which provides a novel way to subjugate the issue of spectrum underutilization caused due to the fixed spectrum assignment policies. In this paper we report the design and implementation of a soft-real time CR MAC, consisting of multiple secondary users, in a frequency hopping (Fit) primary scenario. This MAC is capable of sensing the spectrum and dynamically allocating the available frequency bands to multiple CR users based on their QoS requirements. As the primary is continuously hopping, a method has also been implemented to detect the hop instant of the primary network. Synchronization usually requires real time support, however we have been able to achieve this with a soft-real time technique which enables a fully software implementation of CR MAC layer. We demonstrate the wireless transmission and reception of video over this CR testbed through opportunistic spectrum access. The experiments carried out use an open source software defined radio package called GNU Radio and a basic radio hardware component USRP.

A real-time coherent dedispersion pipeline for the giant metrewave radio telescope

A fully real-time coherent dedispersion system has been developed for the pulsar back-end at the Giant Metrewave Radio Telescope (GMRT). The dedispersion pipeline uses the single phased array voltage beam produced by the existing GMRT software back-end (GSB) to produce coherently dedispersed intensity output in real time, for the currently operational bandwidths of 16 MHz and 32 MHz. Provision has also been made to coherently dedisperse voltage beam data from observations recorded on disk. We discuss the design and implementation of the real-time coherent dedispersion system, describing the steps carried out to optimise the performance of the pipeline. Presently functioning on an Intel Xeon X5550 CPU equipped with a NVIDIA Tesla C2075 GPU, the pipeline allows dispersion free, high time resolution data to be obtained in real-time. We illustrate the significant improvements over the existing incoherent dedispersion system at the GMRT, and present some preliminary results obtained from studies of pulsars using this system, demonstrating its potential as a useful tool for low frequency pulsar observations. We describe the salient features of our implementation, comparing it with other recently developed real-time coherent dedispersion systems. This implementation of a real-time coherent dedispersion pipeline for a large, low frequency array instrument like the GMRT, will enable long-term observing programs using coherent dedispersion to be carried out routinely at the observatory. We also outline the possible improvements for such a pipeline, including prospects for the upgraded GMRT which will have bandwidths about ten times larger than at present.

Elucidating the cancer-specific genetic alteration spectrum of glioblastoma derived cell lines from whole exome and RNA sequencing

Cell lines derived from tumor tissues have been used as a valuable system to study gene regulation and cancer development. Comprehensive characterization of the genetic background of cell lines could provide clues on novel genes responsible for carcinogenesis and help in choosing cell lines for particular studies. Here, we have carried out whole exome and RNA sequencing of commonly used glioblastoma (GBM) cell lines (U87, T98G, LN229, U343, U373 and LN18) to unearth single nucleotide variations (SNVs), indels, differential gene expression, gene fusions and RNA editing events. We obtained an average of 41,071 SNVs out of which 1,594 (3.88%) were potentially cancer-specific. The cell lines showed frequent SNVs and indels in some of the genes that are known to be altered in GBM-EGFR, TP53, PTEN, SPTA1 and NF1. Chromatin modifying genes-ATRX, MLL3, MLL4, SETD2 and SRCAP also showed alterations. While no cell line carried IDH1 mutations, five cell lines showed hTERT promoter activating mutations with a concomitant increase in hTERT transcript levels. Five significant gene fusions were found of which NUP93-CYB5B was validated. An average of 18,949 RNA editing events was also obtained. Thus we have generated a comprehensive catalogue of genetic alterations for six GBM cell lines.

Elucidating the cancer-specific genetic alteration spectrum of glioblastoma derived cell lines from whole exome and RNA sequencing

Cell lines derived from tumor tissues have been used as a valuable system to study gene regulation and cancer development. Comprehensive characterization of the genetic background of cell lines could provide clues on novel genes responsible for carcinogenesis and help in choosing cell lines for particular studies. Here, we have carried out whole exome and RNA sequencing of commonly used glioblastoma (GBM) cell lines (U87, T98G, LN229, U343, U373 and LN18) to unearth single nucleotide variations (SNVs), indels, differential gene expression, gene fusions and RNA editing events. We obtained an average of 41,071 SNVs out of which 1,594 (3.88%) were potentially cancer-specific. The cell lines showed frequent SNVs and indels in some of the genes that are known to be altered in GBM-EGFR, TP53, PTEN, SPTA1 and NF1. Chromatin modifying genes-ATRX, MLL3, MLL4, SETD2 and SRCAP also showed alterations. While no cell line carried IDH1 mutations, five cell lines showed hTERT promoter activating mutations with a concomitant increase in hTERT transcript levels. Five significant gene fusions were found of which NUP93-CYB5B was validated. An average of 18,949 RNA editing events was also obtained. Thus we have generated a comprehensive catalogue of genetic alterations for six GBM cell lines.

Direct Link-Aware Relay Selection for Average Interference-Constrained Underlay Cognitive Radio

Cooperative relaying combined with selection exploits spatial diversity to significantly improve the performance of interference-constrained secondary users in an underlay cognitive radio network. We present a novel and optimal relay selection (RS) rule that minimizes the symbol error probability (SEP) of an average interference-constrained underlay secondary system that uses amplify-and-forward relays. A key point that the rule highlights for the first time is that, for the average interference constraint, the signal-to-interference-plus-noise-ratio (SINR) of the direct source-to-destination (SI)) link affects the choice of the optimal relay. Furthermore, as the SINR increases, the odds that no relay transmits increase. We also propose a simpler, more practical, and near-optimal variant of the optimal rule that requires just one bit of feedback about the state of the SD link to the relays. Compared to the SD-unaware ad hoc RS rules proposed in the literature, the proposed rules markedly reduce the SEP by up to two orders of magnitude.