Search Results - "Mapleson, Daniel"

KAT: a K-mer analysis toolkit to quality control NGS datasets and genome assemblies by Mapleson, Daniel, Garcia Accinelli, Gonzalo, Kettleborough, George, Wright, Jonathan, Clavijo, Bernardo J

“…De novo assembly of whole genome shotgun (WGS) next-generation sequencing (NGS) data benefits from high-quality input with high coverage. However, in practice,…”
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Finding a partner in the ocean: molecular and evolutionary bases of the response to sexual cues in a planktonic diatom by Basu, Swaraj, Patil, Shrikant, Mapleson, Daniel, Russo, Monia Teresa, Vitale, Laura, Fevola, Cristina, Maumus, Florian, Casotti, Raffaella, Mock, Thomas, Caccamo, Mario, Montresor, Marina, Sanges, Remo, Ferrante, Maria Immacolata

“…Microalgae play a major role as primary producers in aquatic ecosystems. Cell signalling regulates their interactions with the environment and other organisms,…”
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Leveraging multiple transcriptome assembly methods for improved gene structure annotation by Venturini, Luca, Caim, Shabhonam, Kaithakottil, Gemy George, Mapleson, Daniel Lee, Swarbreck, David

“…The performance of RNA sequencing (RNA-seq) aligners and assemblers varies greatly across different organisms and experiments, and often the optimal approach…”
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Correction to: Identification of the meiotic toolkit in diatoms and exploration of meiosis-specific SPO11 and RAD51 homologs in the sexual species Pseudo-nitzschia multistriata and Seminavis robusta by Patil, Shrikant, Moeys, Sara, von Dassow, Peter, Huysman, Marie J J, Mapleson, Daniel, De Veylder, Lieven, Sanges, Remo, Vyverman, Wim, Montresor, Marina, Ferrante, Maria Immacolata

“…Following the publication of this article [1], the authors reported that the link to Additional file 11 linked to the wrong set of data. The correct…”
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Erratum to: Rapid transcriptional plasticity of duplicated gene clusters enables a clonally reproducing aphid to colonise diverse plant species by Mathers, Thomas C, Chen, Yazhou, Kaithakottil, Gemy, Legeai, Fabrice, Mugford, Sam T, Baa-Puyoulet, Patrice, Bretaudeau, Anthony, Clavijo, Bernardo, Colella, Stefano, Collin, Olivier, Dalmay, Tamas, Derrien, Thomas, Feng, Honglin, Gabaldón, Toni, Jordan, Anna, Julca, Irene, Kettles, Graeme J, Kowitwanich, Krissana, Lavenier, Dominique, Lenzi, Paolo, Lopez-Gomollon, Sara, Loska, Damian, Mapleson, Daniel, Maumus, Florian, Moxon, Simon, Price, Daniel R G, Sugio, Akiko, van Munster, Manuella, Uzest, Marilyne, Waite, Darren, Jander, Georg, Tagu, Denis, Wilson, Alex C C, van Oosterhout, Cock, Swarbreck, David, Hogenhout, Saskia A

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Efficient and accurate detection of splice junctions from RNA-seq with Portcullis by Mapleson, Daniel, Venturini, Luca, Kaithakottil, Gemy, Swarbreck, David

“…Next-generation sequencing technologies enable rapid and cheap genome-wide transcriptome analysis, providing vital information about gene structure, transcript…”
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RAMPART: a workflow management system for de novo genome assembly by Mapleson, Daniel, Drou, Nizar, Swarbreck, David

“…The de novo assembly of genomes from whole- genome shotgun sequence data is a computationally intensive, multi-stage task and it is not known a priori which…”
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The UEA sRNA workbench: a suite of tools for analysing and visualizing next generation sequencing microRNA and small RNA datasets by STOCKS, Matthew B, MOXON, Simon, MAPLESON, Daniel, WOOLFENDEN, Hugh C, MOHORIANU, Irina, FOLKES, Leighton, SCHWACH, Frank, DALMAY, Tamas, MOULTON, Vincent

“…RNA silencing is a complex, highly conserved mechanism mediated by small RNAs (sRNAs), such as microRNAs (miRNAs), that is known to be involved in a diverse…”
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Rapid transcriptional plasticity of duplicated gene clusters enables a clonally reproducing aphid to colonise diverse plant species by Mathers, Thomas C, Chen, Yazhou, Kaithakottil, Gemy, Legeai, Fabrice, Mugford, Sam T, Baa-Puyoulet, Patrice, Bretaudeau, Anthony, Clavijo, Bernardo, Colella, Stefano, Collin, Olivier, Dalmay, Tamas, Derrien, Thomas, Feng, Honglin, Gabaldón, Toni, Jordan, Anna, Julca, Irene, Kettles, Graeme J, Kowitwanich, Krissana, Lavenier, Dominique, Lenzi, Paolo, Lopez-Gomollon, Sara, Loska, Damian, Mapleson, Daniel, Maumus, Florian, Moxon, Simon, Price, Daniel R G, Sugio, Akiko, van Munster, Manuella, Uzest, Marilyne, Waite, Darren, Jander, Georg, Tagu, Denis, Wilson, Alex C C, van Oosterhout, Cock, Swarbreck, David, Hogenhout, Saskia A

“…The prevailing paradigm of host-parasite evolution is that arms races lead to increasing specialisation via genetic adaptation. Insect herbivores are no…”
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SPECTRE: a suite of phylogenetic tools for reticulate evolution by Bastkowski, Sarah, Mapleson, Daniel, Spillner, Andreas, Wu, Taoyang, Balvočiūtė, Monika, Moulton, Vincent

“…Abstract Summary Split-networks are a generalization of phylogenetic trees that have proven to be a powerful tool in phylogenetics. Various ways have been…”
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Identification of the meiotic toolkit in diatoms and exploration of meiosis-specific SPO11 and RAD51 homologs in the sexual species Pseudo-nitzschia multistriata and Seminavis robusta by Patil, Shrikant, Moeys, Sara, von Dassow, Peter, Huysman, Marie J J, Mapleson, Daniel, De Veylder, Lieven, Sanges, Remo, Vyverman, Wim, Montresor, Marina, Ferrante, Maria Immacolata

“…Sexual reproduction is an obligate phase in the life cycle of most eukaryotes. Meiosis varies among organisms, which is reflected by the variability of the…”
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MirPlex: A Tool for Identifying miRNAs in High-Throughput sRNA Datasets Without a Genome by Mapleson, Daniel, Moxon, Simon, Dalmay, Tamas, Moulton, Vincent

“…MicroRNAs (miRNAs) are a class of small non‐coding RNA (sRNA) involved in gene regulation through mRNA decay and translational repression. In animals, miRNAs…”
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Butterfly genome reveals promiscuous exchange of mimicry adaptations among species by Dasmahapatra, Kanchon K., Walters, James R., Briscoe, Adriana D., Davey, John W., Whibley, Annabel, Nadeau, Nicola J., Zimin, Aleksey V., Hughes, Daniel S. T., Ferguson, Laura C., Martin, Simon H., Salazar, Camilo, Lewis, James J., Adler, Sebastian, Ahn, Seung-Joon, Baker, Dean A., Baxter, Simon W., Chamberlain, Nicola L., Chauhan, Ritika, Counterman, Brian A., Dalmay, Tamas, Gilbert, Lawrence E., Gordon, Karl, Heckel, David G., Hines, Heather M., Hoff, Katharina J., Holland, Peter W. H., Jacquin-Joly, Emmanuelle, Jiggins, Francis M., Jones, Robert T., Kapan, Durrell D., Kersey, Paul, Lamas, Gerardo, Lawson, Daniel, Mapleson, Daniel, Maroja, Luana S., Martin, Arnaud, Moxon, Simon, Palmer, William J., Papa, Riccardo, Papanicolaou, Alexie, Pauchet, Yannick, Ray, David A., Rosser, Neil, Salzberg, Steven L., Supple, Megan A., Surridge, Alison, Tenger-Trolander, Ayse, Vogel, Heiko, Wilkinson, Paul A., Wilson, Derek, Yorke, James A., Yuan, Furong, Balmuth, Alexi L., Eland, Cathlene, Gharbi, Karim, Thomson, Marian, Gibbs, Richard A., Han, Yi, Jayaseelan, Joy C., Kovar, Christie, Mathew, Tittu, Muzny, Donna M., Ongeri, Fiona, Pu, Ling-Ling, Qu, Jiaxin, Thornton, Rebecca L., Worley, Kim C., Wu, Yuan-Qing, Linares, Mauricio, Blaxter, Mark L., Ffrench-Constant, Richard H., Joron, Mathieu, Kronforst, Marcus R., Mullen, Sean P., Reed, Robert D., Scherer, Steven E., Richards, Stephen, Mallet, James, Mcmillan, W. Owen, Jiggins, Chris D.

“…Sequencing of the genome of the butterfly Heliconius melpomene shows that closely related Heliconius species exchange protective colour-pattern genes…”
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