@conference {15271,
	title = {Uncovering Genomic Reassortments among Influenza Strains by Enumerating Maximal Bicliques},
	booktitle = {IEEE International Conference on Bioinformatics and Biomedicine, 2008. BIBM {\textquoteright}08},
	year = {2008},
	month = {2008/11/03/5},
	pages = {223 - 230},
	publisher = {IEEE},
	organization = {IEEE},
	abstract = {The evolutionary histories of viral genomes have received significant recent attention due to their importance in understanding virulence and the corresponding ramifications to public health. We present a novel framework to detect reassortment events in influenza based on the comparison of two distributions of phylogenetic trees, rather than a pair of, possibly unreliable, consensus trees. We show how to detect all high-probability inconsistencies between two distributions of trees by enumerating maximal bicliques within a defined incompatibility graph. In the process, we give the first quadratic delay algorithm for enumerating maximal bicliques within general bipartite graphs. We demonstrate the utility of our approach by applying it to several sets of influenza genomes (both human- and avian-hosted) and successfully identify all known reassortment events and a few novel candidate reassortments. In addition, on simulated datasets, our approach correctly finds implanted reassortments and rarely detects reassortments where none were introduced.},
	keywords = {avian hosted influenza genome, Bioinformatics, Capacitive sensors, Delay, diseases, Event detection, general bipartite graphs, genomic reassortments, Genomics, graph theory, high probability inconsistencies, History, human hosted influenza genome, incompatibility graph, Influenza, influenza strain, maximal biclique, maximal biclique enumeration, microorganisms, phylogenetic trees, Phylogeny, Public healthcare, quadratic delay algorithm, reassortment, reassortment event detection, Tree graphs, viral genome evolutionary history, virulence},
	isbn = {978-0-7695-3452-7},
	doi = {10.1109/BIBM.2008.78},
	author = {Nagarajan,N. and Kingsford, Carl}
}
@article {12924,
	title = {Septaplex PCR assay for rapid identification of Vibrio cholerae including detection of virulence and int SXT genes},
	journal = {FEMS Microbiology Letters},
	volume = {265},
	year = {2006},
	month = {2006/12/01/},
	pages = {208 - 214},
	abstract = {In this study, we describe a septaplex PCR assay for rapid identification of Vibrio cholerae including detection of the virulence and intsxt genes. Conditions were optimized to amplify fragments of ISRrRNA (encoding for 16S{\textendash}23S rRNA gene, Intergenic spacer regions), O1rfb (O1 serogroup specific rfb), O139rfb (O139 serogroup specific rfb), ctxA (cholera toxin subunit A), tcpA (toxin coregulated pilus), and intsxt (sxt integron) simultaneously in a single PCR. The septaplex PCR was evaluated using 211 strains of V. cholerae and six water samples for in situ testing. PCR results were correlated with genotype data obtained by individual PCR and slot-blot assays. The one-step PCR described here can be used to identify V. cholerae accurately and rapidly. Also, the virulence and intsxt genes can be simultaneously detected, providing a useful method for monitoring pathogenic, intsxt-positive and nonpathogenic, intsxt-negative V. cholerae serogroups both in the environment and clinical settings.},
	keywords = {DETECTION, intsxt, septaplex PCR, Vibrio cholerae, virulence},
	isbn = {1574-6968},
	doi = {10.1111/j.1574-6968.2006.00491.x},
	url = {http://onlinelibrary.wiley.com/doi/10.1111/j.1574-6968.2006.00491.x/full},
	author = {Mantri,Chinmay K. and Mohapatra,Saswat S. and Ramamurthy,Thandavarayan and Ghosh,Raikamal and Rita R Colwell and Singh,Durg V.}
}
