Search Results - "Davey, Sean"

SynMap2 and SynMap3D: web-based whole-genome synteny browsers by Haug-Baltzell, Asher, Stephens, Sean A, Davey, Sean, Scheidegger, Carlos E, Lyons, Eric

“…Current synteny visualization tools either focus on small regions of sequence and do not illustrate genome-wide trends, or are complicated to use and create…”
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CyVerse: Cyberinfrastructure for open science by Swetnam, Tyson L, Antin, Parker B, Bartelme, Ryan, Bucksch, Alexander, Camhy, David, Chism, Greg, Choi, Illyoung, Cooksey, Amanda M, Cosi, Michele, Cowen, Cindy, Culshaw-Maurer, Michael, Davey, Robert, Davey, Sean, Devisetty, Upendra, Edgin, Tony, Edmonds, Andy, Fedorov, Dmitry, Frady, Jeremy, Fonner, John, Gillan, Jeffrey K, Hossain, Iqbal, Joyce, Blake, Lang, Konrad, Lee, Tina, Littin, Shelley, McEwen, Ian, Merchant, Nirav, Micklos, David, Nelson, Andrew, Ramsey, Ashley, Roberts, Sarah, Sarando, Paul, Skidmore, Edwin, Song, Jawon, Sprinkle, Mary Margaret, Srinivasan, Sriram, Stanzione, Dan, Strootman, Jonathan D, Stryeck, Sarah, Tuteja, Reetu, Vaughn, Matthew, Wali, Mojib, Wall, Mariah, Walls, Ramona, Wang, Liya, Wickizer, Todd, Williams, Jason, Wregglesworth, John, Lyons, Eric

“…CyVerse, the largest publicly-funded open-source research cyberinfrastructure for life sciences, has played a crucial role in advancing data-driven research…”
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PhytoOracle: Scalable, modular phenomics data processing pipelines by Gonzalez, Emmanuel M, Zarei, Ariyan, Hendler, Nathanial, Simmons, Travis, Zarei, Arman, Demieville, Jeffrey, Strand, Robert, Rozzi, Bruno, Calleja, Sebastian, Ellingson, Holly, Cosi, Michele, Davey, Sean, Lavelle, Dean O, Truco, Maria José, Swetnam, Tyson L, Merchant, Nirav, Michelmore, Richard W, Lyons, Eric, Pauli, Duke

“…As phenomics data volume and dimensionality increase due to advancements in sensor technology, there is an urgent need to develop and implement scalable data…”
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Science Citation Knowledge Extractor by Lent, Heather, Hahn-Powell, Gustave, Haug-Baltzell, Asher, Davey, Sean, Surdeanu, Mihai, Lyons, Eric

“…The importance of academic publications is often evaluated by the number of and impact of its subsequent citing works. These citing works build upon the…”
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P-Mod:  An Algorithm and Software To Map Modifications To Peptide Sequences Using Tandem MS Data by Hansen, Beau T, Davey, Sean W, Ham, Amy-Joan L, Liebler, Daniel C

“…The discovery of unanticipated protein modifications is one of the most challenging problems in proteomics. Whereas widely used algorithms such as Sequest and…”
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GEISHA: an evolving gene expression resource for the chicken embryo by Antin, Parker B., Yatskievych, Tatiana A., Davey, Sean, Darnell, Diana K.

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Peptide Sequence Motif Analysis of Tandem MS Data with the SALSA Algorithm by Liebler, Daniel C, Hansen, Beau T, Davey, Sean W, Tiscareno, Laura, Mason, Daniel E

“…We have developed a pattern recognition algorithm called SALSA (scoring algorithm for spectral analysis) for the detection of specific features in tandem MS…”
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EPIC-CoGe: managing and analyzing genomic data by Nelson, Andrew D L, Haug-Baltzell, Asher K, Davey, Sean, Gregory, Brian D, Lyons, Eric

“…Abstract Summary The EPIC-CoGe browser is a web-based genome visualization utility that integrates the GMOD JBrowse genome browser with the extensive CoGe…”
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FractBias: a graphical tool for assessing fractionation bias following polyploidy by Joyce, Blake L, Haug-Baltzell, Asher, Davey, Sean, Bomhoff, Matthew, Schnable, James C, Lyons, Eric

“…Following polyploidy events, genomes undergo massive reduction in gene content through a process known as fractionation. Importantly, the fractionation process…”
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GEISHA: an evolving gene expression resource for the chicken embryo by Antin, Parker B, Yatskievych, Tatiana A, Davey, Sean, Darnell, Diana K

“…GEISHA (Gallus Expression In Situ Hybridization Analysis; http://geisha.arizona.edu) is an in situ hybridization gene expression and genomic resource for the…”
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Chickspress: a resource for chicken gene expression by McCarthy, Fiona M, Pendarvis, Ken, Cooksey, Amanda M, Gresham, Cathy R, Bomhoff, Matt, Davey, Sean, Lyons, Eric, Sonstegard, Tad S, Bridges, Susan M, Burgess, Shane C

“…High-throughput sequencing and proteomics technologies are markedly increasing the amount of RNA and peptide data that are available to researchers, which are…”
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CoGe LoadExp+: A web‐based suite that integrates next‐generation sequencing data analysis workflows and visualization by Grover, Jeffrey W., Bomhoff, Matthew, Davey, Sean, Gregory, Brian D., Mosher, Rebecca A., Lyons, Eric

“…Summary To make genomic and epigenomic analyses more widely available to the biological research community, we have created LoadExp+, a suite of bioinformatics…”
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GEISHA: The chicken embryo in situ hybridization expression database by Darnell, Diana, Pier, Maricela, Sesepasara, Terry, Davey, Sean, Yatskievych, Tatiana, Antin, Parker

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BioNetBuilder2.0: bringing systems biology to chicken and other model organisms by Konieczka, Jay H, Drew, Kevin, Pine, Alex, Belasco, Kevin, Davey, Sean, Yatskievych, Tatiana A, Bonneau, Richard, Antin, Parker B

“…Systems Biology research tools, such as Cytoscape, have greatly extended the reach of genomic research. By providing platforms to integrate data with molecular…”
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An updated database and user interface for the GEISHA gene expression resource by Darnell, Diana K., Kuar, Simran, Stanislaw, Stacey, Davey, Sean, Konieczka, Jay A., Antin, Parker

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Sequenced subset operators: definition and implementation by Dunn, J., Davey, S., Descour, A., Snodgrass, R.T.

“…Difference, intersection, semi join and anti-semi-join may be considered binary subset operators, in that they all return a subset of their left-hand argument…”
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Language-agnostic program rendering for presentation, debugging and visualization by Collberg, C.S., Davey, S., Proebsting, T.A.

“…We describe a language-independent and specification-driven program rendering tool that is able to produce high-quality code renderings of arbitrary…”
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