The Gut Virome Database Reveals Age-Dependent Patterns of Virome Diversity in the Human Gut

por Gregory, Ann C., Zablocki, Olivier, Zayed, Ahmed A., Howell, Allison, Bolduc, Benjamin, Sullivan, Matthew B.
Publicado 2020

Spinal Cord Injury Changes the Structure and Functional Potential of Gut Bacterial and Viral Communities

por Du, Jingjie, Zayed, Ahmed A., Kigerl, Kristina A., Zane, Kylie, Sullivan, Matthew B., Popovich, Phillip G.
Publicado 2021

The RNA virosphere: How big and diverse is it?

por Dominguez‐Huerta, Guillermo, Wainaina, James M., Zayed, Ahmed A., Culley, Alexander I., Kuhn, Jens H., Sullivan, Matthew B.
Publicado 2022

Expanding standards in viromics: in silico evaluation of dsDNA viral genome identification, classification, and auxiliary metabolic gene curation

por Pratama, Akbar Adjie, Bolduc, Benjamin, Zayed, Ahmed A., Zhong, Zhi-Ping, Guo, Jiarong, Vik, Dean R., Gazitúa, Maria Consuelo, Wainaina, James M., Roux, Simon, Sullivan, Matthew B.
Publicado 2021

VirSorter2: a multi-classifier, expert-guided approach to detect diverse DNA and RNA viruses

por Guo, Jiarong, Bolduc, Ben, Zayed, Ahmed A., Varsani, Arvind, Dominguez-Huerta, Guillermo, Delmont, Tom O., Pratama, Akbar Adjie, Gazitúa, M. Consuelo, Vik, Dean, Sullivan, Matthew B., Roux, Simon
Publicado 2021

iVirus 2.0: Cyberinfrastructure-supported tools and data to power DNA virus ecology

por Bolduc, Benjamin, Zablocki, Olivier, Guo, Jiarong, Zayed, Ahmed A., Vik, Dean, Dehal, Paramvir, Wood-Charlson, Elisha M., Arkin, Adam, Merchant, Nirav, Pett-Ridge, Jennifer, Roux, Simon, Vaughn, Matthew, Sullivan, Matthew B.
Publicado 2021

Phage-specific metabolic reprogramming of virocells

por Howard-Varona, Cristina, Lindback, Morgan M., Bastien, G. Eric, Solonenko, Natalie, Zayed, Ahmed A., Jang, HoBin, Andreopoulos, Bill, Brewer, Heather M., Glavina del Rio, Tijana, Adkins, Joshua N., Paul, Subhadeep, Sullivan, Matthew B., Duhaime, Melissa B.
Publicado 2020

efam: an expanded, metaproteome-supported HMM profile database of viral protein families

por Zayed, Ahmed A, Lücking, Dominik, Mohssen, Mohamed, Cronin, Dylan, Bolduc, Ben, Gregory, Ann C, Hargreaves, Katherine R, Piehowski, Paul D, White III, Richard A, Huang, Eric L, Adkins, Joshua N, Roux, Simon, Moraru, Cristina, Sullivan, Matthew B
Publicado 2021

DRAM for distilling microbial metabolism to automate the curation of microbiome function

por Shaffer, Michael, Borton, Mikayla A, McGivern, Bridget B, Zayed, Ahmed A, La Rosa, Sabina Leanti, Solden, Lindsey M, Liu, Pengfei, Narrowe, Adrienne B, Rodríguez-Ramos, Josué, Bolduc, Benjamin, Gazitúa, M Consuelo, Daly, Rebecca A, Smith, Garrett J, Vik, Dean R, Pope, Phil B, Sullivan, Matthew B, Roux, Simon, Wrighton, Kelly C
Publicado 2020

Environmental vulnerability of the global ocean epipelagic plankton community interactome

por Chaffron, Samuel, Delage, Erwan, Budinich, Marko, Vintache, Damien, Henry, Nicolas, Nef, Charlotte, Ardyna, Mathieu, Zayed, Ahmed A., Junger, Pedro C., Galand, Pierre E., Lovejoy, Connie, Murray, Alison E., Sarmento, Hugo, Acinas, Silvia G., Babin, Marcel, Iudicone, Daniele, Jaillon, Olivier, Karsenti, Eric, Wincker, Patrick, Karp-Boss, Lee, Sullivan, Matthew B., Bowler, Chris, de Vargas, Colomban, Eveillard, Damien
Publicado 2021

Ocean-wide comparisons of mesopelagic planktonic community structures

por Rigonato, Janaina, Budinich, Marko, Murillo, Alejandro A., Brandão, Manoela C., Pierella Karlusich, Juan J., Soviadan, Yawouvi Dodji, Gregory, Ann C., Endo, Hisashi, Kokoszka, Florian, Vik, Dean, Henry, Nicolas, Frémont, Paul, Labadie, Karine, Zayed, Ahmed A., Dimier, Céline, Picheral, Marc, Searson, Sarah, Poulain, Julie, Kandels, Stefanie, Pesant, Stéphane, Karsenti, Eric, Bork, Peer, Bowler, Chris, de Vargas, Colomban, Eveillard, Damien, Gehlen, Marion, Iudicone, Daniele, Lombard, Fabien, Ogata, Hiroyuki, Stemmann, Lars, Sullivan, Matthew B., Sunagawa, Shinichi, Wincker, Patrick, Chaffron, Samuel, Jaillon, Olivier
Publicado 2023

Biosynthetic potential of the global ocean microbiome

por Paoli, Lucas, Ruscheweyh, Hans-Joachim, Forneris, Clarissa C., Hubrich, Florian, Kautsar, Satria, Bhushan, Agneya, Lotti, Alessandro, Clayssen, Quentin, Salazar, Guillem, Milanese, Alessio, Carlström, Charlotte I., Papadopoulou, Chrysa, Gehrig, Daniel, Karasikov, Mikhail, Mustafa, Harun, Larralde, Martin, Carroll, Laura M., Sánchez, Pablo, Zayed, Ahmed A., Cronin, Dylan R., Acinas, Silvia G., Bork, Peer, Bowler, Chris, Delmont, Tom O., Gasol, Josep M., Gossert, Alvar D., Kahles, André, Sullivan, Matthew B., Wincker, Patrick, Zeller, Georg, Robinson, Serina L., Piel, Jörn, Sunagawa, Shinichi
Publicado 2022

Gene Expression Changes and Community Turnover Differentially Shape the Global Ocean Metatranscriptome

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

Global Trends in Marine Plankton Diversity across Kingdoms of Life

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