Big Data Biology Lab Publications

List of Publications

Lab members in bold

  1. Chakravarthi Mohan, Célio Dias Santos Júnior & Swarnendu Chandra
    In silico characterisation and homology modelling of a pathogenesis-related
    protein from Saccharum arundinaceum
    ,
    Archives of Phytopathology and Plant Protection(2020), 53:5-6, 199-216

  2. Célio Dias Santos Júnior, Hugo Sarmento, Fernando Pellon de Miranda et al.
    [Uncovering the genomic potential of the Amazon River microbiome to degrade] (https://www.researchsquare.com/article/rs-25138/v1) rainforest organic matter, 01 May 2020, PREPRINT (Version 1) available at Research Square

  3. Celio Dias Santos-Junior, Ramiro Logares, Flavio Henrique-Silva et al.
    Linking microbial genomes with their potential to degrade terrestrial
    organic matter in the Amazon River
    ,
    01 June 2020, PREPRINT (Version 1) available at Research Square

  4. Sara Vieira-Silva, Gwen Falony, Eugeni Belda, Trine Nielsen, Judith Aron-Wisnewsky, Rima Chakaroun, Sofia K. Forslund, Karen Assmann, Mireia Valles-Colomer, Thi Thuy Duyen Nguyen, Sebastian Proost, Edi Prifti, Valentina Tremaroli, Nicolas Pons, Emmanuelle Le Chatelier, Fabrizio Andreelli, Jean-Phillippe Bastard, Luis Pedro Coelho, Nathalie Galleron, Tue H. Hansen, Jean-Sébastien Hulot, Christian Lewinter, Helle K. Pedersen, Benoit Quinquis, Christine Rouault, Hugo Roume, Joe-Elie Salem, Nadja B. Søndertoft, Sothea Touch, MetaCardis Consortium, Marc-Emmanuel Dumas, Stanislav Dusko Ehrlich, Pilar Galan, Jens P. Gøtze, Torben Hansen, Jens J. Holst, Lars Køber, Ivica Letunic, Jens Nielsen, Jean-Michel Oppert, Michael Stumvoll, Henrik Vestergaard, Jean-Daniel Zucker, Peer Bork, Oluf Pedersen, Fredrik Bäckhed, Karine Clément & Jeroen Raes Statin therapy is associated with lower prevalence of gut microbiota dysbiosis, Nature 581, 310–315 (2020).

  5. Célio Dias Santos-Junior, Shaojun Pan, Xing-Ming Zhao, Luis Pedro Coelho MACREL: antimicrobial peptide screening in genomes and metagenomes, bioRxiv PREPRINT 2019.12.17.880385

  6. Federico M. Ibarbalz, Nicolas Henry, Manoela C. Brandão, Séverine Martini, Greta Busseni, Hannah Byrne, Luis Pedro Coelho, Hisashi Endo, Josep M. Gasol, Ann C. Gregory, Frédéric Mahé, Janaina Rigonato, Marta Royo-Llonch, Guillem Salazar, Isabel Sanz-Sáez, Eleonora Scalco, Dodji Soviadan, Ahmed A. Zayed, Adriana Zingone, Karine Labadie, Joannie Ferland, Claudie Marec, Stefanie Kandels, Marc Picheral, Céline Dimier, Julie Poulain, Sergey Pisarev, Margaux Carmichael, Stéphane Pesant, Tara Oceans Coordinators, Marcel Babin, Emmanuel Boss, Daniele Iudicone, Olivier Jaillon, Silvia G. Acinas, Hiroyuki Ogata, Eric Pelletier, Lars Stemmann, Matthew B. Sullivan, Shinichi Sunagawa, Laurent Bopp, Colomban de Vargas, Lee Karp-Boss, Patrick Wincker, Fabien Lombard, Chris Bowler#, and Lucie Zinger# Global Trends in Marine Plankton Diversity across Kingdoms of Life, Cell 2019

  7. Guillem Salazar*, Lucas Paoli*, Adriana Alberti, Jaime Huerta-Cepas, Hans-Joachim Ruscheweyh, Miguelangel Cuenca, Christopher M. Field, Luis Pedro Coelho, Corinne Cruaud, Stefan Engelen, Ann C. Gregory, Karine Labadie, Claudie Marec, Eric Pelletier, Marta Royo-Llonch, Simon Roux, Pablo Sánchez, Hideya Uehara, Ahmed A. Zayed, Georg Zeller,1Margaux Carmichael, Céline Dimier, Joannie Ferland, Stefanie Kandels, Marc Picheral, Sergey Pisarev, Julie Poulain, Tara Oceans Coordinators, Silvia G. Acinas, Marcel Babin, Peer Bork, Chris Bowler, Colomban de Vargas, Lionel Guidi, Pascal Hingamp, Daniele Iudicone, Lee Karp-Boss, Eric Karsenti, Hiroyuki Ogata, Stephane Pesant, Sabrina Speich, Matthew B. Sullivan, Patrick Wincker, and Shinichi Sunagawa Gene Expression Changes and Community Turnover Differentially Shape the Global Ocean Metatranscriptome, Cell 2019

  8. Daniel R Mende, Ivica Letunic, Oleksandr M Maistrenko, Thomas S B Schmidt, Alessio Milanese, Lucas Paoli, Ana Hernández-Plaza, Askarbek N Orakov, Sofia K Forslund, Shinichi Sunagawa, Georg Zeller, Jaime Huerta-Cepas, Luis Pedro Coelho, Peer Bork proGenomes2: an improved database for accurate and consistent habitat, taxonomic and functional annotations of prokaryotic genomes, Nucleic Acids Research, 2020

  9. Luis Pedro Coelho, Renato Alves, Paulo Monteiro, Jaime Huerta-Cepas, Ana Teresa Freitas, and Peer Bork NG-meta-profiler: fast processing of metagenomes using NGLess, a domain-specific language, Microbiome (2019)