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Addressing Beacon re-identification attacks: quantification and mitigation of privacy risks

Raisaro, Jean Louis ; Tramèr, Florian ; Ji, Zhanglong ; Bu, Diyue ; Zhao, Yongan ; Carey, Knox ; Lloyd, David ; Sofia, Heidi ; Baker, Dixie ; Flicek, Paul ; Shringarpure, Suyash ; Bustamante, Carlos ; Wang, Shuang ; Jiang, Xiaoqian ; Ohno-Machado, Lucila ; Tang, Haixu ; Wang, XiaoFeng ; Hubaux, Jean-Pierre

In: Journal of the American Medical Informatics Association, 2017, vol. 24, no. 4, p. 799-805

More on the Best Evolutionary Rate for Phylogenetic Analysis

Klopfstein, Seraina ; Massingham, Tim ; Goldman, Nick

In: Systematic Biology, 2017, vol. 66, no. 5, p. 769-785

Understanding the glycome: an interactive view of glycosylation from glycocompositions to glycoepitopes

Alocci, Davide ; Ghraichy, Marie ; Barletta, Elena ; Gastaldello, Alessandra ; Mariethoz, Julien ; Lisacek, Frederique

In: Glycobiology, 2018, vol. 28, no. 6, p. 349-362

Orthologous Matrix (OMA) algorithm 2.0: more robust to asymmetric evolutionary rates and more scalable hierarchical orthologous group inference

Train, Clément-Marie ; Glover, Natasha M. ; Gonnet, Gaston H. ; Altenhoff, Adrian M. ; Dessimoz, Christophe

In: Bioinformatics, 2017, vol. 33, no. 14, p. i75-i82

On expert curation and scalability: UniProtKB/Swiss-Prot as a case study

Poux, Sylvain ; Arighi, Cecilia N. ; Magrane, Michele ; Bateman, Alex ; Wei, Chih-Hsuan ; Lu, Zhiyong ; Boutet, Emmanuel ; Bye-A-Jee, Hema ; Famiglietti, Maria Livia ; Roechert, Bernd ; UniProt Consortium, The ; Kelso, Janet ; Kelso, Janet

In: Bioinformatics, 2017, vol. 33, no. 21, p. 3454-3460

Accelerating Bayesian inference for evolutionary biology models

Meyer, Xavier ; Chopard, Bastien ; Salamin, Nicolas ; Kelso, Janet ; Kelso, Janet

In: Bioinformatics, 2017, vol. 33, no. 5, p. 669-676

A clinal polymorphism in the insulin signaling transcription factor foxo contributes to life-history adaptation in Drosophila*

Durmaz, Esra ; Rajpurohit, Subhash ; Betancourt, Nicolas ; Fabian, Daniel K. ; Kapun, Martin ; Schmidt, Paul ; Flatt, Thomas

In: Evolution, 2019, vol. 73, no. 9, p. 1774–1792

A fundamental aim of adaptation genomics is to identify polymorphisms that underpin variation in fitness traits. In Drosophila melanogaster, latitudinal life‐history clines exist on multiple continents and make an excellent system for dissecting the genetics of adaptation. We have previously identified numerous clinal single‐nucleotide polymorphism in insulin/insulin‐like growth factor...

MiR-221 influences effector functions and actin cytoskeleton in mast cells

Mayoral, Ramon J. ; Deho, Lorenzo ; Rusca, Nicole ; Bartonicek, Nenad ; Saini, Harpreet Kaur ; Enright, Anton J. ; Monticelli, Silvia

In: Plos one, 2011, vol. 6, no. 10, p. e26133

Mast cells have essential effector and immunoregulatory functions in IgE-associated allergic disorders and certain innate and adaptive immune responses, but the role of miRNAs in regulating mast cell functions is almost completely unexplored. To examine the role of the activation-induced miRNA miR-221 in mouse mast cells, we developed robust lentiviral systems for miRNA overexpression and...

ViralZone: recent updates to the virus knowledge resource

Masson, Patrick ; Hulo, Chantal ; De Castro, Edouard ; Bitter, Hans ; Gruenbaum, Lore ; Essioux, Laurent ; Bougueleret, Lydie ; Xenarios, Ioannis ; Le Mercier, Philippe

In: Nucleic Acids Research, 2013, vol. 41, no. D1, p. D579-D583

HAMAP in 2013, new developments in the protein family classification and annotation system

Pedruzzi, Ivo ; Rivoire, Catherine ; Auchincloss, Andrea H. ; Coudert, Elisabeth ; Keller, Guillaume ; de Castro, Edouard ; Baratin, Delphine ; Cuche, Béatrice A. ; Bougueleret, Lydie ; Poux, Sylvain ; Redaschi, Nicole ; Xenarios, Ioannis ; Bridge, Alan

In: Nucleic Acids Research, 2013, vol. 41, no. D1, p. D584-D589